Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 22 of 318
Found at i:8391579 original size:18 final size:17
Alignment explanation
Indices: 8391553--8391591 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8391543 ATTTTCCTTC
8391553 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
8391570 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
8391588 CACA
1 CACA
8391592 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:8396997 original size:34 final size:34
Alignment explanation
Indices: 8396954--8397022 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8396944 TCACACAGAT
8396954 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
1 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
8396988 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
1 CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
8397022 C
1 C
8397023 ATGTATCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (34 bp):
CCAAGTTTGTACTTATGGCAACATTTGCATGTCC
Found at i:8412503 original size:15 final size:15
Alignment explanation
Indices: 8412483--8412512 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8412473 GAACCTGATA
8412483 CTGTTGATGCTGGAG
1 CTGTTGATGCTGGAG
8412498 CTGTTGATGCTGGAG
1 CTGTTGATGCTGGAG
8412513 AAAAACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.33
Consensus pattern (15 bp):
CTGTTGATGCTGGAG
Found at i:8417453 original size:37 final size:37
Alignment explanation
Indices: 8417412--8417487 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
8417402 GTCACGCTGC
8417412 CAAATAATCCATGACACAAAATGACAAAAACAACCTT
1 CAAATAATCCATGACACAAAATGACAAAAACAACCTT
8417449 CAAATAATCCATGACACAAAATGACAAAAACAACCTT
1 CAAATAATCCATGACACAAAATGACAAAAACAACCTT
8417486 CA
1 CA
8417488 CGAAAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.25, G:0.05, T:0.16
Consensus pattern (37 bp):
CAAATAATCCATGACACAAAATGACAAAAACAACCTT
Found at i:8426265 original size:17 final size:16
Alignment explanation
Indices: 8426230--8426286 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
8426220 GAATATTTTA
*
8426230 AAAAATTAGAAATTCC
1 AAAAATTATAAATTCC
*
8426246 AAAAATTATAAATGTGC
1 AAAAATTATAAAT-TCC
*
8426263 AAAAATATATATATT--
1 AAAAAT-TATAAATTCC
8426278 AAAAATTAT
1 AAAAATTAT
8426287 TAAAATTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 12 0.33
17 9 0.25
18 6 0.17
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAAATTATAAATTCC
Found at i:8427966 original size:12 final size:12
Alignment explanation
Indices: 8427949--8427992 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
8427939 ATTAACATTG
8427949 TTAAATTTTTTA
1 TTAAATTTTTTA
* *
8427961 TTAAATTTATTG
1 TTAAATTTTTTA
8427973 TTAAATTTTTTA
1 TTAAATTTTTTA
8427985 TTAAATTT
1 TTAAATTT
8427993 ATTCACGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:8427973 original size:24 final size:24
Alignment explanation
Indices: 8427945--8427995 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
8427935 AATGATTAAC
8427945 ATTGTTAAATTTTTTATTAAATTT
1 ATTGTTAAATTTTTTATTAAATTT
8427969 ATTGTTAAATTTTTTATTAAATTT
1 ATTGTTAAATTTTTTATTAAATTT
8427993 ATT
1 ATT
8427996 CACGTGACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTGTTAAATTTTTTATTAAATTT
Found at i:8428164 original size:29 final size:29
Alignment explanation
Indices: 8428127--8428183 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
8428117 TTAAATTTTA
*
8428127 AAAAGTATAAGAACTAAATACTAAAAATT
1 AAAAGTATAAGAACTAAATACAAAAAATT
* * *
8428156 AAAAGTATAGGGACTAAATTCAAAAAAT
1 AAAAGTATAAGAACTAAATACAAAAAAT
8428184 ATGAAGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.23
Consensus pattern (29 bp):
AAAAGTATAAGAACTAAATACAAAAAATT
Found at i:8430468 original size:6 final size:6
Alignment explanation
Indices: 8430454--8430488 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
8430444 TATAAGAAGA
* *
8430454 AAGAAG AAGATG AAGAGG AAGAGG AAGAGG AAGAG
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAG
8430489 CAGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.03
Consensus pattern (6 bp):
AAGAGG
Found at i:8436544 original size:19 final size:19
Alignment explanation
Indices: 8436502--8436544 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8436492 TAATAAAATC
* *
8436502 ATTTT-TAATTATTTATTA
1 ATTTTATAAATATTTAATA
*
8436520 ACTTTATAAATATTTAATA
1 ATTTTATAAATATTTAATA
8436539 ATTTTA
1 ATTTTA
8436545 ATTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATATTTAATA
Found at i:8447083 original size:15 final size:16
Alignment explanation
Indices: 8447051--8447090 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
8447041 ATAGTAAAAA
8447051 TATAATTTTATTATTT
1 TATAATTTTATTATTT
8447067 TATAA-TTTA-TATATT
1 TATAATTTTATTAT-TT
8447082 TATAATTTT
1 TATAATTTT
8447091 TTAAGTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
16 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATAATTTTATTATTT
Found at i:8472085 original size:20 final size:18
Alignment explanation
Indices: 8472060--8472096 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
8472050 ATTGCTAAGT
8472060 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
8472080 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
8472097 TATGAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:8473945 original size:50 final size:50
Alignment explanation
Indices: 8473887--8473991 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
8473877 TTTTAATGTG
8473887 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
8473936 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
8473986 AGTATT
1 AGTATT
8473992 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:8477674 original size:3 final size:3
Alignment explanation
Indices: 8477666--8477694 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8477656 AAAGTCCTGA
8477666 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
8477695 AGGTCGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:8499633 original size:16 final size:15
Alignment explanation
Indices: 8499601--8499631 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8499591 GTAATTTCAT
*
8499601 ATTTTTATTGTTAAA
1 ATTTTTATTATTAAA
8499616 ATTTTTATTATTAAA
1 ATTTTTATTATTAAA
8499631 A
1 A
8499632 ATGAATTATT
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:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTTTATTATTAAA
Found at i:8501112 original size:23 final size:23
Alignment explanation
Indices: 8501086--8501130 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8501076 TGTCACGATG
* *
8501086 AGGAGATATGTGATGTTGCGACA
1 AGGAGATATGTGACGTCGCGACA
8501109 AGGAGATATGTGACGTCGCGAC
1 AGGAGATATGTGACGTCGCGAC
8501131 GATATCTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.36, T:0.22
Consensus pattern (23 bp):
AGGAGATATGTGACGTCGCGACA
Found at i:8502255 original size:4 final size:4
Alignment explanation
Indices: 8502246--8502274 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8502236 AGCAAACGTG
8502246 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
8502275 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8503102 original size:47 final size:47
Alignment explanation
Indices: 8503038--8503148 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
8503028 GACATTGAGT
* * *
8503038 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTT
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
8503085 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
8503132 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
8503149 CTTATCCCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:8510485 original size:21 final size:21
Alignment explanation
Indices: 8510459--8510524 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
8510449 ATGATAAGTC
*
8510459 TCTGTTTAGCTCTTACGAGCT
1 TCTGTTCAGCTCTTACGAGCT
* *
8510480 TCTGTTCAGCTCTTATGAGTT
1 TCTGTTCAGCTCTTACGAGCT
8510501 TCTGTTCAGCTCTTACGAGCT
1 TCTGTTCAGCTCTTACGAGCT
8510522 TCT
1 TCT
8510525 TTTGGCTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
TCTGTTCAGCTCTTACGAGCT
Found at i:8533559 original size:26 final size:26
Alignment explanation
Indices: 8533520--8533572 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
8533510 TCTTTACTCG
* *
8533520 CTCCTATATTGATCGATAGATACATA
1 CTCCTATATCGATCAATAGATACATA
*
8533546 CTCCTATATCGATCAATAGATGCATA
1 CTCCTATATCGATCAATAGATACATA
8533572 C
1 C
8533573 ATACTTAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (26 bp):
CTCCTATATCGATCAATAGATACATA
Found at i:8535003 original size:43 final size:43
Alignment explanation
Indices: 8534955--8535089 Score: 252
Period size: 43 Copynumber: 3.1 Consensus size: 43
8534945 CCGGCATTAC
8534955 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
8534998 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
8535041 GCCTGCTAGGCACGAAGGCCCGAATATACATTACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
8535084 GCCTGC
1 GCCTGC
8535090 GGGATTTAAC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:8535122 original size:38 final size:40
Alignment explanation
Indices: 8535071--8535146 Score: 120
Period size: 38 Copynumber: 1.9 Consensus size: 40
8535061 CGAATATACA
*
8535071 TTACCGGCACGAAGCCTGCGGG-ATTTAA-CCCGGATATT
1 TTACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATATT
*
8535109 TTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 TTACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATA
8535147 CACATCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 21 0.62
39 5 0.15
40 8 0.24
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (40 bp):
TTACCAGCACGAAGCCTGCGGGTATTTAAGCCCGGATATT
Found at i:8536335 original size:15 final size:15
Alignment explanation
Indices: 8536315--8536351 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8536305 ATGAAAATAG
8536315 ACCCATATATCTTTT
1 ACCCATATATCTTTT
8536330 ACCCATATATCTTTT
1 ACCCATATATCTTTT
8536345 ACCCATA
1 ACCCATA
8536352 AAATTTTCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (15 bp):
ACCCATATATCTTTT
Found at i:8554601 original size:21 final size:21
Alignment explanation
Indices: 8554575--8554616 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8554565 AAATTAGTTG
8554575 TTTTGC-TCTATTTTGTTATTA
1 TTTTGCATC-ATTTTGTTATTA
8554596 TTTTGCAATCATTTTGTTATT
1 TTTTGC-ATCATTTTGTTATT
8554617 GTTTAACTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.64
Consensus pattern (21 bp):
TTTTGCATCATTTTGTTATTA
Found at i:8557697 original size:21 final size:21
Alignment explanation
Indices: 8557671--8557712 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
8557661 TTTTGGTCAC
8557671 TAAAAAAATTATCTTTTTAAAG
1 TAAAAAAATTAT-TTTTTAAAG
8557693 TAAAAAAATTATTTTTTAAA
1 TAAAAAAATTATTTTTTAAA
8557713 TATTGATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAAAAATTATTTTTTAAAG
Found at i:8565884 original size:21 final size:20
Alignment explanation
Indices: 8565860--8565900 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8565850 GAACATATGG
8565860 ATTATGATGTACAATTTATAT
1 ATTATGATGT-CAATTTATAT
* *
8565881 ATTATTATGTTAATTTATAT
1 ATTATGATGTCAATTTATAT
8565901 TTTACAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTATGATGTCAATTTATAT
Found at i:8565980 original size:63 final size:63
Alignment explanation
Indices: 8565912--8566102 Score: 197
Period size: 63 Copynumber: 3.1 Consensus size: 63
8565902 TTACAGTATC
8565912 ATATTTTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 ATATTTTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
** * * * *
8565975 ATATTTTA--A-TT-A--AAA-T-ATAT-TTAATAATAATTATGT--TAATTTATATTTTACAGT
1 ATATTTTATGATTTCAGTAAATTAATATAAGAATATTAATTAT-TAAGAATTT-TA--TTAAATT
8566029 AT
62 AT
*
8566031 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 -ATATTTTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
8566095 ATATTTTA
1 ATATTTTA
8566103 ATTAAAATAT
Statistics
Matches: 98, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 8 0.08
57 10 0.10
59 2 0.02
60 4 0.04
61 2 0.02
63 18 0.18
64 8 0.08
65 5 0.05
66 13 0.13
67 5 0.05
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (63 bp):
ATATTTTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
Found at i:8565988 original size:18 final size:17
Alignment explanation
Indices: 8565960--8565994 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8565950 ATTATTAAGA
*
8565960 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8565977 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8565995 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8566022 original size:120 final size:120
Alignment explanation
Indices: 8565884--8566131 Score: 487
Period size: 120 Copynumber: 2.1 Consensus size: 120
8565874 TTTATATATT
*
8565884 ATTATGTTAATTTATATTTTACAGTATCATATTTTATGATTTCAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
8565949 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
8566004 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
8566069 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
8566124 ATTATGTT
1 ATTATGTT
8566132 TAAATATGAT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 127 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
Found at i:8566108 original size:18 final size:17
Alignment explanation
Indices: 8566080--8566114 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8566070 ATTATTAAGA
*
8566080 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8566097 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8566115 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8566371 original size:16 final size:16
Alignment explanation
Indices: 8566350--8566417 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
8566340 GATTTGCTAT
8566350 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
8566366 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
8566382 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
8566398 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
8566414 TACA
1 TACA
8566418 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:8569241 original size:16 final size:17
Alignment explanation
Indices: 8569222--8569253 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8569212 AGGGGATCTC
8569222 AACAGTACC-GAGCTCT
1 AACAGTACCTGAGCTCT
8569238 AACAGTACCTGAGCTC
1 AACAGTACCTGAGCTC
8569254 ACCCAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (17 bp):
AACAGTACCTGAGCTCT
Found at i:8580117 original size:23 final size:23
Alignment explanation
Indices: 8580087--8580134 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
8580077 ATCTATACTC
8580087 AATTCTTTAATCGAATTTGAAAT
1 AATTCTTTAATCGAATTTGAAAT
*
8580110 AATTCTTTGATCGAATTTGAAAT
1 AATTCTTTAATCGAATTTGAAAT
8580133 AA
1 AA
8580135 ATAAGAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (23 bp):
AATTCTTTAATCGAATTTGAAAT
Found at i:8587096 original size:21 final size:23
Alignment explanation
Indices: 8587071--8587116 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
8587061 TTTCAGACTA
*
8587071 TACATGTATTA-AAATTTA-TAT
1 TACATGAATTATAAATTTATTAT
*
8587092 TACATGAATTATTAATTTATTAT
1 TACATGAATTATAAATTTATTAT
8587115 TA
1 TA
8587117 TTTAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 6 0.29
23 5 0.24
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (23 bp):
TACATGAATTATAAATTTATTAT
Found at i:8590823 original size:29 final size:29
Alignment explanation
Indices: 8590792--8590848 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8590782 ACTCAATTAA
8590792 AAAATAA-ATCAAATCAACTTAAAATAAT
1 AAAATAATATCAAATCAACTTAAAATAAT
** *
8590820 AAAATAATATTTAATTAACTTAAAATAAT
1 AAAATAATATCAAATCAACTTAAAATAAT
8590849 TTTACTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAATAATATCAAATCAACTTAAAATAAT
Found at i:8590862 original size:21 final size:21
Alignment explanation
Indices: 8590819--8590862 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8590809 CTTAAAATAA
*
8590819 TAAAATAATATTTAATTAACT
1 TAAAATAATATTTAATCAACT
*
8590840 TAAAATAAT-TTTACTCAATCT
1 TAAAATAATATTTAATCAA-CT
8590861 TA
1 TA
8590863 TATAAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATAATATTTAATCAACT
Found at i:8595376 original size:208 final size:208
Alignment explanation
Indices: 8595018--8595488 Score: 800
Period size: 208 Copynumber: 2.3 Consensus size: 208
8595008 GTTTTTAAAA
* * *
8595018 AATATTTTAATTTAATTTTAATAATGCATACTTTATTCGGATGAAGTATGTATTAGCAGATTCAG
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTAGCAGATTCAC
8595083 TAATATGATTATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATA
66 TAATATGATTATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATA
* * *
8595148 CCTAATAAAACATCTATCTCATTACAATAATTGTTA-TTTCTCAAATAACATATTATTTTTTAGT
131 CCTAATAAAACATCTATCTCATTACAATAATAGTTATTTTC-CAAATAACATATTATTTTATAAT
8595212 TTTATTTCTTATTT
195 TTTATTTCTTATTT
** *
8595226 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGAAAAAGTACGCATTAGCAGATTCAC
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTAGCAGATTCAC
*
8595291 TAATATGATTATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATGCTTATA
66 TAATATGATTATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATA
* *
8595356 CCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATT
131 CCTAATAAAACATCTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATT
*
8595421 TTATTTCTTGTTT
196 TTATTTCTTATTT
*
8595434 AATATTTTCATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTA
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTA
8595489 TTAAAATTAA
Statistics
Matches: 245, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
208 241 0.98
209 4 0.02
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (208 bp):
AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGCATTAGCAGATTCAC
TAATATGATTATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATA
CCTAATAAAACATCTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATT
TTATTTCTTATTT
Found at i:8595440 original size:19 final size:21
Alignment explanation
Indices: 8595408--8595446 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8595398 AAATAACATA
*
8595408 TTGTTTTATAATTTT-ATTTC
1 TTGTTTAATAATTTTCATTTC
8595428 TTGTTTAAT-ATTTTCATTT
1 TTGTTTAATAATTTTCATTT
8595447 AATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (21 bp):
TTGTTTAATAATTTTCATTTC
Found at i:8603445 original size:46 final size:46
Alignment explanation
Indices: 8603427--8603579 Score: 132
Period size: 46 Copynumber: 3.2 Consensus size: 46
8603417 TGACAAGTGG
* * *
8603427 AAAGTGATAAGTAATAGCT-TCGACTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAG-CTACACTTATCTGATCAAGTGAC
*
8603473 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * **
8603519 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAAAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
8603571 AAAGTGATA
1 AAAGTGATA
8603580 GGTGGCTACA
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
46 50 0.53
47 1 0.01
52 43 0.46
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:8603446 original size:52 final size:51
Alignment explanation
Indices: 8603375--8603566 Score: 268
Period size: 52 Copynumber: 3.8 Consensus size: 51
8603365 ATCAAGTGAC
* **
8603375 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
8603427 AAAGTGATAAGTAATAGCTTCGACTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
8603473 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
8603524 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG
8603567 AAACAAAGTG
Statistics
Matches: 124, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.35
52 81 0.65
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:8603481 original size:98 final size:98
Alignment explanation
Indices: 8603361--8603584 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
8603351 TTTGAGTACT
*
8603361 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
8603426 GAAAGTGATAAGTAATAGCTTCGACTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGACTATACTTA
* *
8603459 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
8603524 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGACTATACTTA
** *
8603557 TCTGATCAAGAAACAAAGTGATAGGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
8603585 CTACACTTAT
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGACTATACTTA
Found at i:8607144 original size:53 final size:53
Alignment explanation
Indices: 8607063--8607213 Score: 221
Period size: 53 Copynumber: 2.8 Consensus size: 53
8607053 CTTACACGGT
* * *
8607063 TCACATATCATACCGAAGCCATATCCCAGATATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
*
8607118 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
8607171 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
8607214 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 82 0.92
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:8609070 original size:27 final size:27
Alignment explanation
Indices: 8609027--8609081 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
8609017 TTCAAATTGC
* * *
8609027 TACTCCTATTAAGAAGCTAACAACTCT
1 TACTCCTACTAACAAGCTAACAAATCT
8609054 TACTCCTACTAACAAGCTAACAAATCT
1 TACTCCTACTAACAAGCTAACAAATCT
8609081 T
1 T
8609082 CTTAGGACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.29
Consensus pattern (27 bp):
TACTCCTACTAACAAGCTAACAAATCT
Found at i:8610215 original size:29 final size:30
Alignment explanation
Indices: 8610156--8610213 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8610146 TCCGAGCCTT
*
8610156 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
8610186 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
8610214 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:8610443 original size:13 final size:13
Alignment explanation
Indices: 8610425--8610456 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8610415 TTTCCAGCAA
8610425 TTATGAATTTATT
1 TTATGAATTTATT
8610438 TTATGAATTTATT
1 TTATGAATTTATT
*
8610451 TGATGA
1 TTATGA
8610457 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:8610664 original size:50 final size:50
Alignment explanation
Indices: 8610551--8610792 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
8610541 ATTTGGGTAA
* * *
8610551 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
8610607 AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
8610657 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
8610707 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
8610757 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
8610793 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:8610741 original size:100 final size:103
Alignment explanation
Indices: 8610551--8610800 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
8610541 ATTTGGGTAA
8610551 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
8610616 CTGTAAGACCATGTCTGAGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGAGACATGGCATGGGCACC-ATCACG
* * *
8610657 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
8610719 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
* *
8610757 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
8610801 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
Found at i:8614037 original size:20 final size:20
Alignment explanation
Indices: 8614002--8614039 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8613992 TAGAGTTAAT
*
8614002 ATAGTCAAAGCAGTTGTAAC
1 ATAGTCAAAACAGTTGTAAC
*
8614022 ATAGTCAAAACCGTTGTA
1 ATAGTCAAAACAGTTGTA
8614040 CCGTTGTAAG
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:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
ATAGTCAAAACAGTTGTAAC
Found at i:8614068 original size:15 final size:15
Alignment explanation
Indices: 8614048--8614078 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8614038 TACCGTTGTA
8614048 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
8614063 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
8614078 A
1 A
8614079 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:8614438 original size:14 final size:14
Alignment explanation
Indices: 8614419--8614451 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
8614409 TGGCTGTGAA
8614419 AGCGCATAAATTAC
1 AGCGCATAAATTAC
8614433 AGCGCATAAATTAC
1 AGCGCATAAATTAC
8614447 AGCGC
1 AGCGC
8614452 TTCTTGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (14 bp):
AGCGCATAAATTAC
Found at i:8617252 original size:20 final size:20
Alignment explanation
Indices: 8617217--8617254 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8617207 TAGAGTTAAT
*
8617217 ATAGTCAAAGCAGTTGTAAC
1 ATAGTCAAAACAGTTGTAAC
*
8617237 ATAGTCAAAACCGTTGTA
1 ATAGTCAAAACAGTTGTA
8617255 CCGTTGTAAG
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:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
ATAGTCAAAACAGTTGTAAC
Found at i:8617283 original size:15 final size:15
Alignment explanation
Indices: 8617263--8617293 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8617253 TACCGTTGTA
8617263 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
8617278 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
8617293 A
1 A
8617294 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:8618257 original size:123 final size:125
Alignment explanation
Indices: 8618033--8618273 Score: 380
Period size: 123 Copynumber: 1.9 Consensus size: 125
8618023 AAAAAAATAC
*
8618033 TCATTTCTAATCTTATTTACAAAAATGGGCCACTTAACTTTATTTATCAGAATGGGTCAAAAAAT
1 TCATTTCTAATCTTATTTACAAAAATGGGCCACTTAACTTTATTTATCAAAATGGGTCAAAAAAT
*
8618098 CCAAAACGTGCCTACGTAGAATCGTTTTAAGGAGAAATTTCAT-AAAAACGTGCTCAAGT
66 CCAAAACGTGCCTACGTAGAATCGTTTTAAGAAGAAATTTCATAAAAAACGTGCTCAAGT
* * *
8618157 TCATTTCTAATTTTATTTAC-AGAATGGGCCGCTTAACTTTATTTATCAAAATGGGTCAAAAAAT
1 TCATTTCTAATCTTATTTACAAAAATGGGCCACTTAACTTTATTTATCAAAATGGGTCAAAAAAT
** *
8618221 TTAAAACGTGCTTACGT-GAAATCGTTTTAAGAAGAAATTTCATAAAAAACGTG
66 CCAAAACGTGCCTACGTAG-AATCGTTTTAAGAAGAAATTTCATAAAAAACGTG
8618274 TTGACGAGAA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
122 1 0.01
123 78 0.73
124 28 0.26
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (125 bp):
TCATTTCTAATCTTATTTACAAAAATGGGCCACTTAACTTTATTTATCAAAATGGGTCAAAAAAT
CCAAAACGTGCCTACGTAGAATCGTTTTAAGAAGAAATTTCATAAAAAACGTGCTCAAGT
Found at i:8629384 original size:21 final size:22
Alignment explanation
Indices: 8629355--8629401 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
8629345 CAGAAGGAGT
*
8629355 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
8629377 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
8629398 GAGT
1 GAGT
8629402 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:8633050 original size:14 final size:15
Alignment explanation
Indices: 8633031--8633059 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8633021 AAGAATTCCC
8633031 TTCTTTTTCT-TTTT
1 TTCTTTTTCTCTTTT
8633045 TTCTTTTTCTCTTTT
1 TTCTTTTTCTCTTTT
8633060 AAAATCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTTTTCTCTTTT
Found at i:8641322 original size:35 final size:35
Alignment explanation
Indices: 8641283--8641353 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
8641273 TTAATATCGT
8641283 TAGTTTGTACTGATATGATACTATTAACCAATATG
1 TAGTTTGTACTGATATGATACTATTAACCAATATG
8641318 TAGTTTGTACTGATATGATACTATTAACCAATATG
1 TAGTTTGTACTGATATGATACTATTAACCAATATG
8641353 T
1 T
8641354 GGTGTCGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (35 bp):
TAGTTTGTACTGATATGATACTATTAACCAATATG
Found at i:8641604 original size:27 final size:30
Alignment explanation
Indices: 8641573--8641629 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
8641563 TGTGTAATTG
*
8641573 TATACAC-GAAA-TTT-ATTTTGGTTCAAT
1 TATACACAGAAACTTTAATTCTGGTTCAAT
8641600 TATACACATGAAACTTTAATTCTGGTTCAA
1 TATACACA-GAAACTTTAATTCTGGTTCAA
8641630 ATGTATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
29 4 0.16
30 3 0.12
31 11 0.44
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (30 bp):
TATACACAGAAACTTTAATTCTGGTTCAAT
Found at i:8645346 original size:19 final size:19
Alignment explanation
Indices: 8645322--8645364 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
8645312 TAAAAATTTA
*
8645322 AAAAATTAAAACATAGT-TT
1 AAAAATTAAAA-ATAATGTT
8645341 AAAAA-TAAAAATAATGTT
1 AAAAATTAAAAATAATGTT
8645359 AAAAAT
1 AAAAAT
8645365 GTTTTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATTAAAAATAATGTT
Found at i:8648915 original size:37 final size:37
Alignment explanation
Indices: 8648865--8648940 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
8648855 ACTAAGAGAG
*
8648865 GATGCTGTTCTACTTAGAAAGGTAATAGGTTACATTT
1 GATGCTGTTCTACTTAAAAAGGTAATAGGTTACATTT
*
8648902 GATGCTGTTCTACTTAAAAAGGTGATAGGTTACATTT
1 GATGCTGTTCTACTTAAAAAGGTAATAGGTTACATTT
8648939 GA
1 GA
8648941 GAAGGTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (37 bp):
GATGCTGTTCTACTTAAAAAGGTAATAGGTTACATTT
Found at i:8654799 original size:18 final size:17
Alignment explanation
Indices: 8654776--8654809 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
8654766 AAAAAATTGT
8654776 AATAATTATATATTTAAA
1 AATAATTATA-ATTTAAA
8654794 AATAATTATAATTTAA
1 AATAATTATAATTTAA
8654810 TAGAACTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:8657733 original size:60 final size:60
Alignment explanation
Indices: 8657625--8657795 Score: 168
Period size: 60 Copynumber: 2.8 Consensus size: 60
8657615 CCATTGAAAG
* * * *
8657625 TCATCCACCACCAATGCAATACTCGCCACCCGCTCAAGGTC-GCACACCACCTACACAA-GC
1 TCAT-CACCACCAACGCAATACTCGCCACCCACTCAAGCTCATC-CACCACCTACACAAGGC
* * * * *
8657685 TCATTCACCACCAAGGCAATACCCGCCCCCCACTCAAGCTCATCCACCACCTACTCAAGGT
1 TCA-TCACCACCAACGCAATACTCGCCACCCACTCAAGCTCATCCACCACCTACACAAGGC
* * * *
8657746 TGCA-CACCACCAACACAATTCTCTCCACCCACTCAAGCTCATCCTCCACC
1 T-CATCACCACCAACGCAATACTCGCCACCCACTCAAGCTCATCCACCACC
8657796 AAGACAATAC
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
60 86 0.93
61 4 0.04
62 2 0.02
ACGTcount: A:0.29, C:0.47, G:0.09, T:0.16
Consensus pattern (60 bp):
TCATCACCACCAACGCAATACTCGCCACCCACTCAAGCTCATCCACCACCTACACAAGGC
Found at i:8657740 original size:21 final size:21
Alignment explanation
Indices: 8657716--8657833 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 21
8657706 CCCGCCCCCC
*
8657716 ACTCAAGCTCATCCACCACCT
1 ACTCAAGCTCATCCACCACCA
*
8657737 ACTCAAGGT--TGCACACCACCA
1 ACTCAAGCTCAT-C-CACCACCA
* *
8657758 ACACAATTCTC-TCCA-C-CC-
1 ACTCAA-GCTCATCCACCACCA
*
8657776 ACTCAAGCTCATCCTCCACCA
1 ACTCAAGCTCATCCACCACCA
** * *
8657797 AGACAA--T-ACCCACCACCT
1 ACTCAAGCTCATCCACCACCA
8657815 ACTCAAGCTCATCCACCAC
1 ACTCAAGCTCATCCACCAC
8657834 AAAGGCAATA
Statistics
Matches: 70, Mismatches: 16, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
17 3 0.04
18 20 0.29
19 5 0.07
20 5 0.07
21 34 0.49
22 2 0.03
23 1 0.01
ACGTcount: A:0.31, C:0.46, G:0.06, T:0.17
Consensus pattern (21 bp):
ACTCAAGCTCATCCACCACCA
Found at i:8657795 original size:39 final size:39
Alignment explanation
Indices: 8657750--8657984 Score: 223
Period size: 39 Copynumber: 6.2 Consensus size: 39
8657740 CAAGGTTGCA
** * *
8657750 CACCACCAACACAATTCTCTCCACCCACTCAAGCTCATC
1 CACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATC
* * * * *
8657789 CTCCACCAAGACAATACCCACCACCTACTCAAGCTCATC
1 CACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATC
* * *
8657828 CACCACAAAGGCAATACTCGCCACCCACTCAAACACATC
1 CACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATC
* * * **
8657867 AACCACCAATGCAATACT---CA-CCGC-CAA-CTCAAA
1 CACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATC
* *
8657900 CTCCACCAAGGCAATACCCGCCACCCACTCAAGCTCATC
1 CACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATC
* *
8657939 CTCCACCAAGGCAATTCTCGCCACCCACTCAAGGC-CATC
1 CACCACCAAGGCAATACTCGCCACCCACTCAA-GCTCATC
8657978 CACCACC
1 CACCACC
8657985 CACACAAACT
Statistics
Matches: 158, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
33 17 0.11
34 3 0.02
35 3 0.02
36 4 0.03
37 3 0.02
38 3 0.02
39 123 0.78
40 2 0.01
ACGTcount: A:0.33, C:0.46, G:0.07, T:0.14
Consensus pattern (39 bp):
CACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATC
Found at i:8657832 original size:78 final size:75
Alignment explanation
Indices: 8657728--8657995 Score: 213
Period size: 78 Copynumber: 3.5 Consensus size: 75
8657718 TCAAGCTCAT
** * *
8657728 CCACCACCTACTCAAGGTTGCACACCACCAACACAATTCTCTCCACCCACTCAAGCTCATCCTCC
1 CCACCACCTACTCAAGCAT-C-CACCACCAACACAATACTCGCCACCCACTCAAGCTCATCCTCC
8657793 ACCAAGACAATAC
64 ACCAAG-CAATAC
* ** * * **
8657806 CCACCACCTACTCAAGCTCATCCACCACAAAGGCAATACTCGCCACCCACTCAAACACATCAACC
1 CCACCACCTACTCAAG--CATCCACCACCAACACAATACTCGCCACCCACTCAAGCTCATCCTCC
8657871 ACCAATGCAATAC
64 ACCAA-GCAATAC
* * * * ** *
8657884 TCACCGCCAACTCAA--A--CTCCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCAC
1 CCACCACCTACTCAAGCATCCACCACCAACACAATACTCGCCACCCACTCAAGCTCATCCTCCAC
*
8657945 CAAGGCAATTC
66 CAA-GCAATAC
* * * *
8657956 TCGCCACCCACTCAAGGCCATCCACCACCCACACAA-ACTC
1 CCACCACCTACTCAA-G-CATCCACCACCAACACAATACTC
8657996 ATCCTCCACC
Statistics
Matches: 150, Mismatches: 31, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
72 59 0.39
74 1 0.01
76 1 0.01
77 3 0.02
78 83 0.55
79 2 0.01
80 1 0.01
ACGTcount: A:0.33, C:0.46, G:0.07, T:0.14
Consensus pattern (75 bp):
CCACCACCTACTCAAGCATCCACCACCAACACAATACTCGCCACCCACTCAAGCTCATCCTCCAC
CAAGCAATAC
Found at i:8657969 original size:72 final size:77
Alignment explanation
Indices: 8657770--8657983 Score: 233
Period size: 72 Copynumber: 2.8 Consensus size: 77
8657760 ACAATTCTCT
* * * *
8657770 CCACCCACTCAAGCTCATCCTCCACCAAGACAATACCCACCACCTACTCAAGCTCATCCACCACA
1 CCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCAACTCAA-CACATCCACCACA
*
8657835 AAGGCAATACTCG
65 AAGGCAATACCCG
* * ** * *
8657848 CCACCCACTCAAACACATCAACCACCAATGCAATACTCACCGCCAACTCAA-AC-TCCA-C-C-A
1 CCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCAACTCAACACATCCACCACAA
8657908 AGGCAATACCCG
66 AGGCAATACCCG
* * *
8657920 CCACCCACTCAAGCTCATCCTCCACCAAGGCAATTCTCGCCACCCACTCAAGGC-CATCCACCAC
1 CCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCAACTCAA--CACATCCACCAC
8657984 CCACACAAAC
Statistics
Matches: 110, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
72 54 0.49
73 1 0.01
74 2 0.02
75 8 0.07
76 2 0.02
77 1 0.01
78 42 0.38
ACGTcount: A:0.33, C:0.46, G:0.08, T:0.13
Consensus pattern (77 bp):
CCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCAACTCAACACATCCACCACAA
AGGCAATACCCG
Found at i:8658018 original size:39 final size:39
Alignment explanation
Indices: 8657975--8658158 Score: 140
Period size: 39 Copynumber: 4.6 Consensus size: 39
8657965 ACTCAAGGCC
* *
8657975 ATCCACCACCCACACAAACTCATCCTCCACCAATGCAAT
1 ATCCACCACCCACACAAACTCATCCACCACCAACGCAAT
* * *
8658014 ATCCACCACCTACACAAGCTCATTCACCACCAACGCAAT
1 ATCCACCACCCACACAAACTCATCCACCACCAACGCAAT
* * * * * *
8658053 ACCCGCCACCCACCCAAATTCATCCACCACCTACTCAAGGT
1 ATCCACCACCCACACAAACTCATCCACCACCAACGCAA--T
* * * *
8658094 -TGCACACCACCTACTCAAGCTCATCCACCACCAA--CAAA
1 AT-C-CACCACCCACACAAACTCATCCACCACCAACGCAAT
* *
8658132 ATCCTCACCACCCACTCAATCTCATCC
1 AT-C-CACCACCCACACAAACTCATCC
8658159 TCTCTCACCA
Statistics
Matches: 114, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
39 85 0.75
40 3 0.03
41 2 0.02
42 24 0.21
ACGTcount: A:0.33, C:0.47, G:0.04, T:0.16
Consensus pattern (39 bp):
ATCCACCACCCACACAAACTCATCCACCACCAACGCAAT
Found at i:8658042 original size:60 final size:60
Alignment explanation
Indices: 8657920--8658044 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
8657910 GCAATACCCG
* * * *
8657920 CCACCCACTCAAGCTCATCCTCCACCAAGGCAATTCTCGCCACCCACTCAAGGCCATCCA
1 CCACCCACACAAACTCATCCTCCACCAAGGCAATTCTCACCACCCACACAAGGCCATCCA
* * *
8657980 CCACCCACACAAACTCATCCTCCACCAATGCAATATC-CACCACCTACACAA-GCTCATTCA
1 CCACCCACACAAACTCATCCTCCACCAAGGCAAT-TCTCACCACCCACACAAGGC-CATCCA
8658040 CCACC
1 CCACC
8658045 AACGCAATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.04
60 52 0.93
61 2 0.04
ACGTcount: A:0.30, C:0.48, G:0.06, T:0.15
Consensus pattern (60 bp):
CCACCCACACAAACTCATCCTCCACCAAGGCAATTCTCACCACCCACACAAGGCCATCCA
Found at i:8658054 original size:210 final size:210
Alignment explanation
Indices: 8657692--8658070 Score: 507
Period size: 210 Copynumber: 1.8 Consensus size: 210
8657682 AGCTCATTCA
* * *
8657692 CCACCAAGGCAATACCCGCCCCCCACTCAAGCTCATCCACCACCTACTCAAGGTTGCACACCACC
1 CCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCACCACCAACGCAAGGTTGCACACCACC
* * * *
8657757 AACACAATTCTCTCCACCCACTCAAGCTCATCCTCCACCAAGACAATACCCACCACCTACTCAAG
66 AACACAATTCTCACCACCCACACAAACTCATCCTCCACCAAGACAATACCCACCACCTACACAAG
* * *
8657822 CTCATCCACCACAAAGGCAATACTCGCCACCCACTCAAACACATCAACCACCAATGCAATACTCA
131 CTCATCCACCACAAACGCAATACCCGCCACCCACCCAAACACATCAACCACCAATGCAATACTCA
8657887 CCGCCAACTCAAACT
196 CCGCCAACTCAAACT
* * *
8657902 CCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAA-TTCTCGC-CACCC
1 CCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCACCACCAACGCAAGGT-T-GCACA-CC
** * *
8657965 ACTCAAGGCCA-TC-CACCACCCACACAAACTCATCCTCCACCAATG-CAATATCCACCACCTAC
63 AC-CAACACAATTCTCACCACCCACACAAACTCATCCTCCACCAA-GACAATACCCACCACCTAC
* *
8658027 ACAAGCTCATTCACCACCAACGCAATACCCGCCACCCACCCAAA
126 ACAAGCTCATCCACCACAAACGCAATACCCGCCACCCACCCAAA
8658071 TTCATCCACC
Statistics
Matches: 145, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
209 1 0.01
210 130 0.90
211 9 0.06
212 5 0.03
ACGTcount: A:0.33, C:0.46, G:0.07, T:0.13
Consensus pattern (210 bp):
CCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCACCACCAACGCAAGGTTGCACACCACC
AACACAATTCTCACCACCCACACAAACTCATCCTCCACCAAGACAATACCCACCACCTACACAAG
CTCATCCACCACAAACGCAATACCCGCCACCCACCCAAACACATCAACCACCAATGCAATACTCA
CCGCCAACTCAAACT
Found at i:8658122 original size:21 final size:21
Alignment explanation
Indices: 8657920--8658290 Score: 104
Period size: 21 Copynumber: 18.2 Consensus size: 21
8657910 GCAATACCCG
*
8657920 CCACCCACTCAAGCTCATCCT
1 CCACCCACTCAAGCTCATCCA
* ** * *
8657941 CCACCAAGGCAA-TTC-T-CG
1 CCACCCACTCAAGCTCATCCA
8657959 CCACCCACTCAAGGC-CATCCA
1 CCACCCACTCAA-GCTCATCCA
* * *
8657980 CCACCCACACAAACTCATCCT
1 CCACCCACTCAAGCTCATCCA
*
8658001 CCA-CCAATGCAA--T-ATCCA
1 CCACCCACT-CAAGCTCATCCA
* * *
8658019 CCACCTACACAAGCTCATTCA
1 CCACCCACTCAAGCTCATCCA
* * * *
8658040 CCACCAACGCAA--T-ACCCG
1 CCACCCACTCAAGCTCATCCA
* **
8658058 CCACCCACCCAAATTCATCCA
1 CCACCCACTCAAGCTCATCCA
* *
8658079 CCACCTACTCAAGGT--TGCACA
1 CCACCCACTCAAGCTCAT-C-CA
*
8658100 CCACCTACTCAAGCTCATCCA
1 CCACCCACTCAAGCTCATCCA
* ** *
8658121 CCA-CCA-ACAAAATCCT-CA
1 CCACCCACTCAAGCTCATCCA
*
8658139 CCACCCACTCAATCTCATCCTCTCTCA
1 CCACCCACTCAAGCTCA-----TC-CA
*
8658166 CCACCCACTCAAGCTCATCCT
1 CCACCCACTCAAGCTCATCCA
* ** *
8658187 CCACCAAGACAA--T-ACCCA
1 CCACCCACTCAAGCTCATCCA
8658205 CCACCCACTCAAGCTCATCCA
1 CCACCCACTCAAGCTCATCCA
* ** *
8658226 CCACCAAGGCAA--T-A-CTCG
1 CCACCCACTCAAGCTCATC-CA
* *
8658244 CCACCCACTCAAACACATCCA
1 CCACCCACTCAAGCTCATCCA
* * *
8658265 CCACCCACACAAACTCATCCT
1 CCACCCACTCAAGCTCATCCA
8658286 CCACC
1 CCACC
8658291 AAGGCAGTAC
Statistics
Matches: 250, Mismatches: 66, Indels: 68
0.65 0.17 0.18
Matches are distributed among these distances:
17 1 0.00
18 60 0.24
19 18 0.07
20 18 0.07
21 129 0.52
22 4 0.02
23 1 0.00
25 1 0.00
27 18 0.07
ACGTcount: A:0.32, C:0.48, G:0.05, T:0.15
Consensus pattern (21 bp):
CCACCCACTCAAGCTCATCCA
Found at i:8658160 original size:23 final size:23
Alignment explanation
Indices: 8658132--8658192 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 23
8658122 CACCAACAAA
*
8658132 ATCCTCACCACCCACTCAATCTC
1 ATCCTCACCACCCACTCAAGCTC
8658155 ATCCTCTCTCACCACCCACTCAAGCTC
1 A---TC-CTCACCACCCACTCAAGCTC
8658182 ATCCTCCACCA
1 ATCCT-CACCA
8658193 AGACAATACC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
23 3 0.09
24 7 0.22
26 2 0.06
27 20 0.62
ACGTcount: A:0.25, C:0.52, G:0.02, T:0.21
Consensus pattern (23 bp):
ATCCTCACCACCCACTCAAGCTC
Found at i:8658165 original size:27 final size:27
Alignment explanation
Indices: 8658135--8658187 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
8658125 CAACAAAATC
*
8658135 CTCACCACCCACTCAATCTCATCCTCT
1 CTCACCACCCACTCAAGCTCATCCTCT
8658162 CTCACCACCCACTCAAGCTCATCCTC
1 CTCACCACCCACTCAAGCTCATCCTC
8658188 CACCAAGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.23
Consensus pattern (27 bp):
CTCACCACCCACTCAAGCTCATCCTCT
Found at i:8658176 original size:66 final size:66
Alignment explanation
Indices: 8658098--8658224 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
8658088 CAAGGTTGCA
* *
8658098 CACCACCTACTCAAGCTCATCCACCACCAACAAAAT-CCTCACCACCCACTCAATCTCATCCTCT
1 CACCACCCACTCAAGCTCATCCACCACCAACAAAATACC-CACCACCCACTCAAGCTCATCCTCT
8658162 CT
65 CT
* * *
8658164 CACCACCCACTCAAGCTCATCCTCCACCAAGACAATACCCACCACCCACTCAAGCTCATCC
1 CACCACCCACTCAAGCTCATCCACCACCAACAAAATACCCACCACCCACTCAAGCTCATCC
8658225 ACCACCAAGG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 53 0.96
67 2 0.04
ACGTcount: A:0.31, C:0.50, G:0.03, T:0.17
Consensus pattern (66 bp):
CACCACCCACTCAAGCTCATCCACCACCAACAAAATACCCACCACCCACTCAAGCTCATCCTCTC
T
Found at i:8658207 original size:39 final size:39
Alignment explanation
Indices: 8658164--8658269 Score: 158
Period size: 39 Copynumber: 2.7 Consensus size: 39
8658154 CATCCTCTCT
*
8658164 CACCACCCACTCAAGCTCATCCTCCACCAAGACAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAAGACAATACC
* *
8658203 CACCACCCACTCAAGCTCATCCACCACCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAAGACAATACC
* * *
8658242 CGCCACCCACTCAAACACATCCACCACC
1 CACCACCCACTCAAGCTCATCCACCACC
8658270 CACACAAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.33, C:0.50, G:0.06, T:0.11
Consensus pattern (39 bp):
CACCACCCACTCAAGCTCATCCACCACCAAGACAATACC
Found at i:8658269 original size:60 final size:60
Alignment explanation
Indices: 8658202--8658869 Score: 385
Period size: 60 Copynumber: 11.1 Consensus size: 60
8658192 AAGACAATAC
* * * *
8658202 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAACACAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACAT
* * *
8658262 CCACCACCCACACAAACTCATCCTCCACCAAGGCAGTACCCACCGCCCACTCAAACACAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACAT
** *
8658322 CCACCACCAATGCAATACTCACCGCCAACTCAAACTCCACCAAGGCAATACCCGCCACCCACTCA
1 CCACCACC----C---ACTCA-----AACTCATCCTCCACCAAGGCAATACCCACCACCCACTCA
* *
8658387 AGCTCAT
54 AACACAT
* * ** * * *
8658394 CCTCCACCAAGGCAATACTCA-CCACCCACTCAAGGCCAT--CCACCACCCATTCAAACACAT
1 CCACCACCCACTCAA-ACTCATCC-TCCAC-CAAGGCAATACCCACCACCCACTCAAACACAT
* * * * * *
8658454 CCTCCA-CCAATGCAATACCCA-CCACCCACTCAA-ACACAT--CCACCACCAACTC-AA-AC-T
1 CCACCACCCACT-CAA-ACTCATCC-TCCAC-CAAGGCA-ATACCCACCACCCACTCAAACACAT
* ** ** ** * ** *
8658511 CCTCCACAAAGGCAATAC-CCGCCACCCACTCAA-GC--TCATTCACCACCCACTCAAGGC-CAT
1 CCACCACCCACTCAA-ACTCATCC-TCCAC-CAAGGCAAT-ACCCACCACCCACTCAA-ACACAT
* ** * *** *
8658571 CCGCCACCCACTCAAGTTTATCCTCCACCAAGGCAATACTTGCCACCCACTCAAGGC-CAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAA-ACACAT
* * * *
8658631 CCACCACCAACTCAAA--C-TCCTCCACAAAGGCAATACCCGCCACCCACTCAAGGC-CAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAA-ACACAT
* ** * * *
8658688 CCGCCACCCACTCAAGTTCATCCTCCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACAT
* * * *
8658748 CCACCACCTACACAAACTCACCCTCCACCAAGGCAATGCCCACCACCCACTCAAACACAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACAT
* *
8658808 CCACCACCAACTCAAA--C-TCCTCCACCAAGGCAATACCCGCCACCCACTCAAACACAT
1 CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACAT
8658865 CCACC
1 CCACC
8658870 GCCAAAGCTA
Statistics
Matches: 489, Mismatches: 85, Indels: 71
0.76 0.13 0.11
Matches are distributed among these distances:
54 1 0.00
56 1 0.00
57 129 0.26
58 8 0.02
59 15 0.03
60 263 0.54
61 10 0.02
62 8 0.02
64 1 0.00
65 3 0.01
67 4 0.01
72 46 0.09
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.13
Consensus pattern (60 bp):
CCACCACCCACTCAAACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACAT
Found at i:8658323 original size:99 final size:99
Alignment explanation
Indices: 8658164--8658356 Score: 287
Period size: 99 Copynumber: 1.9 Consensus size: 99
8658154 CATCCTCTCT
* * * *
8658164 CACCACCCACTCAAGCTCATCCTCCACCAAGACAATACCCACCACCCACTCAAGCTCATCCACCA
1 CACCACCCACACAAACTCATCCTCCACCAAGACAATACCCACCACCCACTCAAACACATCCACCA
* *
8658229 CCAAGGCAATACTCGCCACCCACTCAAACACATC
66 CCAAGGCAATACTCACCACCAACTCAAACACATC
* * *
8658263 CACCACCCACACAAACTCATCCTCCACCAAGGCAGTACCCACCGCCCACTCAAACACATCCACCA
1 CACCACCCACACAAACTCATCCTCCACCAAGACAATACCCACCACCCACTCAAACACATCCACCA
* *
8658328 CCAATGCAATACTCACCGCCAACTCAAAC
66 CCAAGGCAATACTCACCACCAACTCAAAC
8658357 TCCACCAAGG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 83 1.00
ACGTcount: A:0.34, C:0.48, G:0.06, T:0.11
Consensus pattern (99 bp):
CACCACCCACACAAACTCATCCTCCACCAAGACAATACCCACCACCCACTCAAACACATCCACCA
CCAAGGCAATACTCACCACCAACTCAAACACATC
Found at i:8658366 original size:72 final size:72
Alignment explanation
Indices: 8658284--8658426 Score: 205
Period size: 72 Copynumber: 2.0 Consensus size: 72
8658274 CAAACTCATC
* * * *
8658284 CTCCACCAAGGCAGTACCCACCGCCCACTCAAACACATCCACCACCAATGCAATACTCACCGCCA
1 CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAAGGCAATACTCACCACCA
8658349 ACTCAAA
66 ACTCAAA
* * * * *
8658356 CTCCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCC
1 CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAAGGCAATACTCACCACCA
8658421 ACTCAA
66 ACTCAA
8658427 GGCCATCCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.33, C:0.47, G:0.08, T:0.12
Consensus pattern (72 bp):
CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAAGGCAATACTCACCACCA
ACTCAAA
Found at i:8658386 original size:132 final size:132
Alignment explanation
Indices: 8658100--8658488 Score: 349
Period size: 132 Copynumber: 2.9 Consensus size: 132
8658090 AGGTTGCACA
* * * * * *
8658100 CCACCTACTCAAGCTCATCCACCACCAACAAAATCCTCACCACCCACTCAA-TCTCATCCTCTCT
1 CCACCCACTCAAACACATCCACCACCAACACAATACTCACCACCCACTCAAGGC-CA-----TC-
* * * * *
8658164 CACCACCCACTCAAGCTCATCCTCCACCAA-GACAATACCCACCACCCACTCAAGCTCATCCACC
59 CACCACCCACTCAAACACATCCACCACCAATG-CAATACCCACCACCAACTCAA----A--CTCC
*
8658228 ACCAAGGCAATACTCG
117 ACCAAGGCAATACCCG
* *
8658244 CCACCCACTCAAACACATCCACCACCCACACAA-ACTCATCC-TCCAC-CAAGG-CAGTACCCAC
1 CCACCCACTCAAACACATCCACCACCAACACAATACTCA-CCACCCACTCAAGGCCA-T--CCAC
* * *
8658305 CGCCCACTCAAACACATCCACCACCAATGCAATACTCACCGCCAACTCAAACTCCACCAAGGCAA
62 CACCCACTCAAACACATCCACCACCAATGCAATACCCACCACCAACTCAAACTCCACCAAGGCAA
8658370 TACCCG
127 TACCCG
* * * **
8658376 CCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCCACTCAAGGCCATCCACCACC
1 CCACCCACTCAAACACATCCACCACCAACACAATACTCACCACCCACTCAAGGCCATCCACCACC
* * *
8658441 CATTCAAACACATCCTCCACCAATGCAATACCCACCACCCACTCAAAC
66 CACTCAAACACATCCACCACCAATGCAATACCCACCACCAACTCAAAC
8658489 ACATCCACCA
Statistics
Matches: 205, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
132 97 0.47
133 9 0.04
134 7 0.03
135 2 0.01
137 1 0.00
138 44 0.21
139 2 0.01
141 2 0.01
142 3 0.01
143 8 0.04
144 30 0.15
ACGTcount: A:0.33, C:0.48, G:0.06, T:0.13
Consensus pattern (132 bp):
CCACCCACTCAAACACATCCACCACCAACACAATACTCACCACCCACTCAAGGCCATCCACCACC
CACTCAAACACATCCACCACCAATGCAATACCCACCACCAACTCAAACTCCACCAAGGCAATACC
CG
Found at i:8658427 original size:39 final size:39
Alignment explanation
Indices: 8658262--8658911 Score: 242
Period size: 39 Copynumber: 16.7 Consensus size: 39
8658252 TCAAACACAT
* * * *
8658262 CCACCACCCACACAAACTCATCCTCCACCAAGGCAGTAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* * * *
8658301 CCACCGCCCACTCAAACACATCCACCACCAATGCAATAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* * * *
8658340 TCACCGCCAACTCAA----A--CTCCACCAAGGCAATAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* *
8658373 CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* * **
8658412 TCACCACCCACTCAAGGC-CATCCACCACCCATTCAA-AC
1 CCACCACCCACTCAA-GCTCATCCACCACCAAGGCAATAC
* * * * ** *
8658450 ACATCC-TCCAC-CAATGCAAT-ACCCACCACCCACTCAAACAC
1 CCA-CCACCCACTCAA-GC--TCATCCACCACCAAGGC-AATAC
* * *
8658491 ATCCACCACCAACTCAAACTCCTCCA-CA--AAGGCAATAC
1 --CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* *
8658529 CCGCCACCCACTCAAGCTCATTCACCACCCACTCAAGGCCAT--
1 CCACCACCCACTCAAGCTCA-T--CCA-CCAC-CAAGGCAATAC
* * * *
8658571 CCGCCACCCACTCAAGTTTATCCTCCACCAAGGCAATAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
*** **
8658610 TTGCCACCCACTCAAGGC-CATCCACCACCAACTCAA-AC
1 CCACCACCCACTCAA-GCTCATCCACCACCAAGGCAATAC
* ** ** * ** *
8658648 TCCTCCACAAAGGCAATAC-CCGCCACCCACTCAAGGCCAT--
1 -CCACCACCCACTCAA-GCTCATCCA-CCAC-CAAGGCAATAC
* * *
8658688 CCGCCACCCACTCAAGTTCATCCTCCACCAAGGCAATAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* * **
8658727 CCACCACCCATTCAAGCTCATCCACCACCTACACAA-AC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
* * * **
8658765 TCACC-CTCCAC-CAAGGC-AATGCCCACCACCCACTCAA-AC
1 CCACCAC-CCACTCAA-GCTCAT--CCACCACCAAGGCAATAC
* *
8658804 ACATCCA-CCAC-CAA-CTCAAACTCCTCCACCAAGGCAATAC
1 CCA-CCACCCACTCAAGCTC--A-TCCACCACCAAGGCAATAC
* * * * * *
8658844 CCGCCACCCACTCAAACACATCCACCGCCAAAGCTATAC
1 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
*
8658883 CCACCACCTACTCAAGCTCATCCACCACC
1 CCACCACCCACTCAAGCTCATCCACCACC
8658912 CACTCAAACA
Statistics
Matches: 455, Mismatches: 106, Indels: 100
0.69 0.16 0.15
Matches are distributed among these distances:
33 26 0.06
35 1 0.00
36 16 0.04
37 30 0.07
38 33 0.07
39 271 0.60
40 20 0.04
41 17 0.04
42 25 0.05
43 6 0.01
44 10 0.02
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.13
Consensus pattern (39 bp):
CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATAC
Found at i:8658557 original size:81 final size:79
Alignment explanation
Indices: 8658471--8658645 Score: 189
Period size: 81 Copynumber: 2.2 Consensus size: 79
8658461 CAATGCAATA
8658471 CCCACCACCCACTCAA-ACACATCCACCACCAACTCAA-ACTCCTCCACAAAGGCAATACCCGCC
1 CCCACCACCCACTCAAGAC-CATCCACCACCAACTCAATA-TCCTCCACAAAGGCAATACCCGCC
8658534 ACCCACTCAA-GCTCAT
64 ACCCACTCAAGGC-CAT
* * * * * **
8658550 -TCACCACCCACTCAAGGCCATCCGCCACCCACTCAAGTTTATCCTCCACCAAGGCAATACTTGC
1 CCCACCACCCACTCAAGACCATCCACCACCAACTCAA---TATCCTCCACAAAGGCAATACCCGC
8658614 CACCCACTCAAGGCCAT
63 CACCCACTCAAGGCCAT
*
8658631 -CCACCACCAACTCAA
1 CCCACCACCCACTCAA
8658646 ACTCCTCCAC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
78 30 0.37
79 1 0.01
81 47 0.58
82 3 0.04
ACGTcount: A:0.31, C:0.47, G:0.07, T:0.14
Consensus pattern (79 bp):
CCCACCACCCACTCAAGACCATCCACCACCAACTCAATATCCTCCACAAAGGCAATACCCGCCAC
CCACTCAAGGCCAT
Found at i:8658578 original size:138 final size:138
Alignment explanation
Indices: 8658412--8658703 Score: 435
Period size: 138 Copynumber: 2.1 Consensus size: 138
8658402 AAGGCAATAC
* *
8658412 TCACCACCCACTCAAGGCCATCCACCACCCATTCAAACACATCCTCCACCAATGCAATACCCACC
1 TCACCACCCACTCAAGGCCATCCACCACCCACTCAAACACATCCTCCACCAAGGCAATACCCACC
8658477 ACCCACTCAA-ACACATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACT
66 ACCCACTCAAGAC-CATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACT
8658541 CAA-GCTCAT
130 CAAGGC-CAT
* **** ***
8658550 TCACCACCCACTCAAGGCCATCCGCCACCCACTCAAGTTTATCCTCCACCAAGGCAATACTTGCC
1 TCACCACCCACTCAAGGCCATCCACCACCCACTCAAACACATCCTCCACCAAGGCAATACCCACC
*
8658615 ACCCACTCAAGGCCATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTC
66 ACCCACTCAAGACCATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTC
8658680 AAGGCCAT
131 AAGGCCAT
* *
8658688 CCGCCACCCACTCAAG
1 TCACCACCCACTCAAG
8658704 TTCATCCTCC
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
138 136 0.98
139 3 0.02
ACGTcount: A:0.32, C:0.47, G:0.08, T:0.13
Consensus pattern (138 bp):
TCACCACCCACTCAAGGCCATCCACCACCCACTCAAACACATCCTCCACCAAGGCAATACCCACC
ACCCACTCAAGACCATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTC
AAGGCCAT
Found at i:8658598 original size:21 final size:21
Alignment explanation
Indices: 8658376--8658971 Score: 95
Period size: 21 Copynumber: 30.2 Consensus size: 21
8658366 GCAATACCCG
*
8658376 CCACCCACTCAAGCTCATCCT
1 CCACCCACTCAAGCTCATCCA
* **
8658397 CCACCAAGGCAA--T-A-CTCA
1 CCACCCACTCAAGCTCATC-CA
8658415 CCACCCACTCAAGGC-CATCCA
1 CCACCCACTCAA-GCTCATCCA
* * * *
8658436 CCACCCATTCAAACACATCCT
1 CCACCCACTCAAGCTCATCCA
* *
8658457 CCA-CCAATGCAA--T-ACCCA
1 CCACCCACT-CAAGCTCATCCA
* *
8658475 CCACCCACTCAAACACATCCA
1 CCACCCACTCAAGCTCATCCA
* * *
8658496 CCACCAACTCAAACTCCTCCA
1 CCACCCACTCAAGCTCATCCA
* ** * *
8658517 -CA--AAGGCAA--T-ACCCG
1 CCACCCACTCAAGCTCATCCA
*
8658532 CCACCCACTCAAGCTCATTCA
1 CCACCCACTCAAGCTCATCCA
*
8658553 CCACCCACTCAAGGC-CATCCG
1 CCACCCACTCAA-GCTCATCCA
* * *
8658574 CCACCCACTCAAGTTTATCCT
1 CCACCCACTCAAGCTCATCCA
* ** **
8658595 CCACCAAGGCAA--T-A-CTTG
1 CCACCCACTCAAGCTCATC-CA
8658613 CCACCCACTCAAGGC-CATCCA
1 CCACCCACTCAA-GCTCATCCA
* * *
8658634 CCACCAACTCAAACTCCTCCA
1 CCACCCACTCAAGCTCATCCA
* ** * *
8658655 -CA--AAGGCAA--T-ACCCG
1 CCACCCACTCAAGCTCATCCA
*
8658670 CCACCCACTCAAGGC-CATCCG
1 CCACCCACTCAA-GCTCATCCA
* *
8658691 CCACCCACTCAAGTTCATCCT
1 CCACCCACTCAAGCTCATCCA
* ** *
8658712 CCACCAAGGCAA--T-ACCCA
1 CCACCCACTCAAGCTCATCCA
*
8658730 CCACCCATTCAAGCTCATCCA
1 CCACCCACTCAAGCTCATCCA
* * * * *
8658751 CCACCTACACAAACTCACCCT
1 CCACCCACTCAAGCTCATCCA
* **
8658772 CCACCAAGGCAA--TGC--CCA
1 CCACCCACTCAAGCT-CATCCA
* *
8658790 CCACCCACTCAAACACATCCA
1 CCACCCACTCAAGCTCATCCA
* * *
8658811 CCACCAACTCAAACTCCTCCA
1 CCACCCACTCAAGCTCATCCA
** * *
8658832 CCA---AGGCAA--T-ACCCG
1 CCACCCACTCAAGCTCATCCA
* *
8658847 CCACCCACTCAAACACATCCA
1 CCACCCACTCAAGCTCATCCA
*
8658868 CC-GCCA---AAGCT-ATACCCA
1 CCACCCACTCAAGCTCAT--CCA
*
8658886 CCACCTACTCAAGCTCATCCA
1 CCACCCACTCAAGCTCATCCA
* *
8658907 CCACCCACTCAAACACATCCA
1 CCACCCACTCAAGCTCATCCA
* *
8658928 CCACCAACACAA--T-A-CTCA
1 CCACCCACTCAAGCTCATC-CA
*
8658946 CCACCCACTCAAGCCCATCCA
1 CCACCCACTCAAGCTCATCCA
8658967 CCACC
1 CCACC
8658972 AAGGCAATAC
Statistics
Matches: 404, Mismatches: 110, Indels: 122
0.64 0.17 0.19
Matches are distributed among these distances:
15 9 0.02
16 9 0.02
17 6 0.01
18 97 0.24
19 11 0.03
20 18 0.04
21 242 0.60
22 10 0.02
23 2 0.00
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.13
Consensus pattern (21 bp):
CCACCCACTCAAGCTCATCCA
Found at i:8658776 original size:138 final size:138
Alignment explanation
Indices: 8658413--8658778 Score: 320
Period size: 138 Copynumber: 2.7 Consensus size: 138
8658403 AGGCAATACT
* * ** ** * *
8658413 CACCACCCACTCAAGGCCATCCACCACCCATTCAAACACATCCTCCACCAATGCAATAC---CCA
1 CACCACCCACTCAAGGCCATCCGCCACCAACGCAATTAC--CCACCACCAAGGCAATACATGCCA
* *
8658475 CCACCCACTCAAACACATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCAC
64 CCACCTACACAAAC-CATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCAC
*
8658540 TCAAGCTCATT
128 TCAAGCTCATC
* * * * *
8658551 CACCACCCACTCAAGGCCATCCGCCACCCACTCAAGTTTATCCTCCACCAAGGCAATACTTGCCA
1 CACCACCCACTCAAGGCCATCCGCCACCAACGCAA--TTACCCACCACCAAGGCAATACATGCCA
**
8658616 CC-CACT-CA-AGGCCATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCAC
64 CCAC-CTACACAAACCATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCAC
8658678 TCAAGGC-CATC
128 TCAA-GCTCATC
* ** * * * **
8658689 CGCCACCCACTCAAGTTCATCCTCCACCAAGGCAA-TACCCACCACCCATTCAAGCT-CAT-CCA
1 CACCACCCACTCAAGGCCATCCGCCACCAACGCAATTACCCACCACCAAGGCAA--TACATGCCA
* *
8658751 CCACCTACACAAACTCACCCTCCACCAA
64 CCACCTACACAAAC-CATCCACCACCAA
8658779 GGCAATGCCC
Statistics
Matches: 187, Mismatches: 28, Indels: 26
0.78 0.12 0.11
Matches are distributed among these distances:
135 20 0.11
136 5 0.03
137 3 0.02
138 146 0.78
139 4 0.02
140 3 0.02
141 6 0.03
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.14
Consensus pattern (138 bp):
CACCACCCACTCAAGGCCATCCGCCACCAACGCAATTACCCACCACCAAGGCAATACATGCCACC
ACCTACACAAACCATCCACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCA
AGCTCATC
Found at i:8658811 original size:18 final size:18
Alignment explanation
Indices: 8658790--8658869 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
8658780 GCAATGCCCA
8658790 CCACCCACTCAAACACAT
1 CCACCCACTCAAACACAT
* *
8658808 CCACCACCAACTCAAACTCCT
1 CCA-C-CC-ACTCAAACACAT
* ** **
8658829 CCACCAAGGCAATAC-CCG
1 CCACCCACTCAA-ACACAT
8658847 CCACCCACTCAAACACAT
1 CCACCCACTCAAACACAT
8658865 CCACC
1 CCACC
8658870 GCCAAAGCTA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
17 2 0.04
18 24 0.52
19 4 0.09
20 3 0.07
21 13 0.28
ACGTcount: A:0.35, C:0.51, G:0.04, T:0.10
Consensus pattern (18 bp):
CCACCCACTCAAACACAT
Found at i:8658833 original size:99 final size:99
Alignment explanation
Indices: 8658730--8659194 Score: 327
Period size: 99 Copynumber: 4.7 Consensus size: 99
8658720 GCAATACCCA
* * * * * *
8658730 CCACCCATTCAAGCTCATCCACCACCTACACAAACTCACCCTCCACCAAGGCAATGCCCACCACC
1 CCACCCACTCAAGCTCATCCACCACCTACTCAAGCTCATCCACCACCAAGGCAATACCCACCACC
*
8658795 CACTCAAACACATCCACCACCAACTCAAACTCCT
66 CACTCAAACACATCCACCACCAACTCAAACTCCG
* ** * * * * * * * *
8658829 CCACCAAGGCAA--T-ACCCGCCACCCACTCAAACACATCCACCGCCAAAGCTATACCCACCACC
1 CCACCCACTCAAGCTCATCCACCACCTACTCAAGCTCATCCACCACCAAGGCAATACCCACCACC
* * * * * **
8658891 TACTCAAGCTCATCCACCACCCACTCAAACACAT
66 CACTCAAACACATCCACCACCAACTCAAACTCCG
* * * * *
8658925 CCA-CCAC-CAA-CACAATACTCACCACCCACTCAAGCCCATCCACCACCAAGGCAATACTCGCC
1 CCACCCACTCAAGCTC-AT-C-CACCACCTACTCAAGCTCATCCACCACCAAGGCAATACCCACC
* *
8658987 ACCCATTCAAACACATCCACCACCAA-TGCAATC-CACG
63 ACCCACTCAAACACATCCACCACCAACT-CAAACTC-CG
* * ** ** * * * * *
8659024 CCACCCACTAAAGGTTGTGAACCACCTACTGAAGCTCATCCTCCACCGAGGCAATACTCACCTCC
1 CCACCCACTCAAGCTCATCCACCACCTACTCAAGCTCATCCACCACCAAGGCAATACCCACCACC
* * *
8659089 CACTCAAACTCATCCACCACCATCCCAATACT-CG
66 CACTCAAACACATCCACCACCAACTCAA-ACTCCG
* * * * * ** *
8659123 CCACCCACTCAAGGTCGTACACCACCTACTCAAGCTCATCCACCACCAACGCAACATTCACCGCC
1 CCACCCACTCAAGCTCATCCACCACCTACTCAAGCTCATCCACCACCAAGGCAATACCCACCACC
8659188 CACTCAA
66 CACTCAA
8659195 GGTCATACGC
Statistics
Matches: 283, Mismatches: 70, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
94 3 0.01
95 2 0.01
96 69 0.24
97 2 0.01
98 3 0.01
99 196 0.69
100 5 0.02
101 3 0.01
ACGTcount: A:0.33, C:0.47, G:0.07, T:0.14
Consensus pattern (99 bp):
CCACCCACTCAAGCTCATCCACCACCTACTCAAGCTCATCCACCACCAAGGCAATACCCACCACC
CACTCAAACACATCCACCACCAACTCAAACTCCG
Found at i:8658908 original size:117 final size:117
Alignment explanation
Indices: 8658202--8658944 Score: 451
Period size: 117 Copynumber: 6.4 Consensus size: 117
8658192 AAGACAATAC
* * ** * * ** * *
8658202 CCACCACCCACTCAAGCTCATCCACCACCAAGGCAATACT-CGCCACCCACTCAAACACATCCAC
1 CCACCACCCACTCAAACACATCCACCACCAACTCAATACTCCTCCACCAAGGC-AATAC--CCGC
* * * * * *
8658266 CACCCACACAAACTCATCCTCCACCAAGGCAGTACCCACCGCCCACTCAAACACAT
63 CACCCACTCAAACTCATCCACCACCAAAGCA-TACCCACCACCCACTCAAGCTCAT
* * *
8658322 CCACCA-CCAATGC-AATAC-T-CACCGCCAACTCAA-A---CTCCACCAAGGCAATACCCGCCA
1 CCACCACCCACT-CAAACACATCCACCACCAACTCAATACTCCTCCACCAAGGCAATACCCGCCA
* * * *
8658379 CCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCCACTCAAGGC-CAT
65 CCCACTCAAACTCATCCACCACCAAAGC-ATACCCACCACCCACTCAA-GCTCAT
* * * * ** * *
8658433 CCACCACCCATTCAAACACATCCTCCACCAA-TGCAATAC-CCACCACCCACTCAAACACATCCA
1 CCACCACCCACTCAAACACATCCACCACCAACT-CAATACTCCTCCACCAAGGC-AATAC--CCG
* * * *
8658496 CCACCAACTCAAACTCCTCCA-CA--AAGGCAATACCCGCCACCCACTCAAGCTCAT
62 CCACCCACTCAAACTCATCCACCACCAAAGC-ATACCCACCACCCACTCAAGCTCAT
* * * * **
8658550 TCACCACCCACTCAAGGC-CATCCGCCACCCACTCAAGTTTA-TCCTCCACCAAGGCAATACTTG
1 CCACCACCCACTCAA-ACACATCCACCACCAACTCAA---TACTCCTCCACCAAGGCAATACCCG
* ** * * ** ** *
8658613 CCACCCACTCAAGGC-CATCCACCACCAACTCAAACTCCTCCACAAAGGCAA--T-AC
62 CCACCCACTCAA-ACTCATCCACCACCAAAGCATAC-CCACCACCCACTCAAGCTCAT
* * * * * *
8658667 CCGCCACCCACTCAAGGC-CATCCGCCACCCACTCAAGTTCATCCTCCACCAAGGCAATACCCAC
1 CCACCACCCACTCAA-ACACATCCACCACCAACTCAA-TAC-TCCTCCACCAAGGCAATACCCGC
* * * * * *
8658731 CACCCATTCAAGCTCATCCACCACCTACA-CAAACTCACC-CTCCAC-CAAGGC-AAT
63 CACCCACTCAAACTCATCCACCACC-AAAGCATACCCACCAC-CCACTCAA-GCTCAT
8658785 GCCCACCACCCACTCAAACACATCCACCACCAACTCAA-ACTCCTCCACCAAGGCAATACCCGCC
1 --CCACCACCCACTCAAACACATCCACCACCAACTCAATACTCCTCCACCAAGGCAATACCCGCC
* * *
8658849 ACCCACTCAAACACATCCACCGCCAAAGCTATACCCACCACCTACTCAAGCTCAT
64 ACCCACTCAAACTCATCCACCACCAAAGC-ATACCCACCACCCACTCAAGCTCAT
*
8658904 CCACCACCCACTCAAACACATCCACCACCAACACAATACTC
1 CCACCACCCACTCAAACACATCCACCACCAACTCAATACTC
8658945 ACCACCCACT
Statistics
Matches: 488, Mismatches: 91, Indels: 90
0.73 0.14 0.13
Matches are distributed among these distances:
111 57 0.12
112 10 0.02
113 6 0.01
114 18 0.04
115 6 0.01
116 11 0.02
117 248 0.51
118 30 0.06
119 22 0.05
120 80 0.16
ACGTcount: A:0.33, C:0.48, G:0.07, T:0.13
Consensus pattern (117 bp):
CCACCACCCACTCAAACACATCCACCACCAACTCAATACTCCTCCACCAAGGCAATACCCGCCAC
CCACTCAAACTCATCCACCACCAAAGCATACCCACCACCCACTCAAGCTCAT
Found at i:8658910 original size:177 final size:177
Alignment explanation
Indices: 8658525--8658947 Score: 448
Period size: 177 Copynumber: 2.4 Consensus size: 177
8658515 CACAAAGGCA
* * * * * * ** *
8658525 ATACCCGCCACCCACTCAAGCTCATTCACCACCCACTCAAGGCCATCCGCCACCCACTCAAGTTT
1 ATACCCACCACCAACTCAAGCTCATCCACCACCCACTCAA-GCCATCCACCACCAACACAAACTC
* *** *
8658590 ATCCTCCACCAAGGCAATACTTGCCACCCACTCAAGGCCATCCACCACCAACTCAAACTCCTCCA
65 ACCCTCCACCAAGGCAATACCCACCACCCACTCAAGACCATCCACCACCAACTCAAACTCCTCCA
* *
8658655 CAAAGGCAATACCCGCCACCCACTCAAGGCCATCCGCCACCCACTCAAGT
130 CAAAGGCAATACCCGCCACCCACTCAAGACCATCCACCACCCA--CAAGT
* * ** * * *
8658705 -TCATCCTCCACCAAGGCAA--T-ACCCACCACCCATTCAAGCTCATCCACCACCTACACAAACT
1 AT-ACCCACCACCAACTCAAGCTCATCCACCACCCACTCAAGC-CATCCACCACCAACACAAACT
*
8658766 CACCCTCCACCAAGGCAATGCCCACCACCCACTCAA-ACACATCCACCACCAACTCAAACTCCTC
64 CACCCTCCACCAAGGCAATACCCACCACCCACTCAAGAC-CATCCACCACCAACTCAAACTCCTC
* *
8658830 CACCAAGGCAATACCCGCCACCCACTCAA-ACACATCCACC-GCCA-AAGCT
128 CACAAAGGCAATACCCGCCACCCACTCAAGAC-CATCCACCACCCACAAG-T
* *
8658879 ATACCCACCACCTACTCAAGCTCATCCACCACCCACTCAAACACATCCACCACCAACACAATACT
1 ATACCCACCACCAACTCAAGCTCATCCACCACCCACTCAAGC-CATCCACCACCAACACAA-ACT
8658944 CACC
64 CACC
8658948 ACCCACTCAA
Statistics
Matches: 199, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
173 3 0.02
174 13 0.07
175 1 0.01
176 8 0.04
177 153 0.77
178 8 0.04
179 1 0.01
180 12 0.06
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.13
Consensus pattern (177 bp):
ATACCCACCACCAACTCAAGCTCATCCACCACCCACTCAAGCCATCCACCACCAACACAAACTCA
CCCTCCACCAAGGCAATACCCACCACCCACTCAAGACCATCCACCACCAACTCAAACTCCTCCAC
AAAGGCAATACCCGCCACCCACTCAAGACCATCCACCACCCACAAGT
Found at i:8658926 original size:60 final size:60
Alignment explanation
Indices: 8658727--8658971 Score: 211
Period size: 60 Copynumber: 4.1 Consensus size: 60
8658717 AAGGCAATAC
* * * * * * *
8658727 CCACCACCCATTCAAGCTCATCCACCACCTACACAA-ACTCACC-CTCCAC-CAAGGCAAT
1 CCACCACCCACTCAAACACATCCACCACCAACACAATACCCACCAC-CCACTCAAGCCCAT
* * * * *
8658785 GCCCACCACCCACTCAAACACATCCACCACCAACTCAA-A--CTCC-TCCAC-CAAGGCAAT
1 --CCACCACCCACTCAAACACATCCACCACCAACACAATACCCACCACCCACTCAAGCCCAT
* * * * *
8658842 ACCCGCCACCCACTCAAACACATCCACCGCCAA-AGCTATACCCACCACCTACTCAAGCTCAT
1 --CCACCACCCACTCAAACACATCCACCACCAACA-CAATACCCACCACCCACTCAAGCCCAT
*
8658904 CCACCACCCACTCAAACACATCCACCACCAACACAATACTCACCACCCACTCAAGCCCAT
1 CCACCACCCACTCAAACACATCCACCACCAACACAATACCCACCACCCACTCAAGCCCAT
8658964 CCACCACC
1 CCACCACC
8658972 AAGGCAATAC
Statistics
Matches: 154, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
57 45 0.29
58 4 0.03
60 95 0.62
61 4 0.03
62 6 0.04
ACGTcount: A:0.34, C:0.50, G:0.04, T:0.11
Consensus pattern (60 bp):
CCACCACCCACTCAAACACATCCACCACCAACACAATACCCACCACCCACTCAAGCCCAT
Found at i:8659007 original size:156 final size:156
Alignment explanation
Indices: 8658358--8658989 Score: 471
Period size: 156 Copynumber: 4.0 Consensus size: 156
8658348 AACTCAAACT
* * * * * *
8658358 CCACCAAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCACCACCCAC
1 CCACCAAGGCAATACCAGCCACCCACTCAAACACATCCACCACCAAAGCAATACCCACCACCCAC
** * * **
8658423 TCAAGGC-CATCCACCACCCATTCAAACACATCCTCCACCAATGCAATACCCACCACCCACTCAA
66 TCAA-GCTCATCCACCACCCACACAAACACACCCACCACCAACACAATACCCACCACCCACTCAA
* *
8658487 ACACATCCACCACCAACTCAAACTCCT
130 ACACATCCACCACCAACGCAAACTCCG
* * * * * * *
8658514 CCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCCACTCAAGGCCAT--CCGCCA
1 CCACCAAGGCAATACCAGCCACCCACTCAAACACA-T--CCA-CCAC-CAAAGCAATACCCACCA
* * * * ** *** ** *
8658577 CCCACTCAAGTTTATCCTCCACCAAGGCAATAC-TTGCCACCCACTCAAGGCCAT--CCACCACC
61 CCCACTCAAGCTCATCCACCACCCACACAA-ACACACCCA-CCAC-CAACACAATACCCACCACC
* * * *
8658639 AACTC-AA-AC-TCCTCCACAAAGGCAATAC-CCG
123 CACTCAAACACATCCACCACCAACGCAA-ACTCCG
* *** * *
8658670 CCACCCACTCAAGGCCAT-CC-GCCACCCACTCAAGTTCATCCTCCACCAAGGCAATACCCACCA
1 ----CCAC-CAAGGCAATACCAGCCACCCACTCAAACACATCCACCACCAAAGCAATACCCACCA
* * * * ** *
8658733 CCCATTCAAGCTCATCCACCACCTACACAAACTCACCCTCCACCAAGGCAATGCCCACCACCCAC
61 CCCACTCAAGCTCATCCACCACCCACACAAACACACCCACCACCAACACAATACCCACCACCCAC
* *
8658798 TCAAACACATCCACCACCAACTCAAACTCCT
126 TCAAACACATCCACCACCAACGCAAACTCCG
* * * *
8658829 CCACCAAGGCAATACCCGCCACCCACTCAAACACATCCACCGCCAAAGCTATACCCACCACCTAC
1 CCACCAAGGCAATACCAGCCACCCACTCAAACACATCCACCACCAAAGCAATACCCACCACCCAC
* * * *
8658894 TCAAGCTCATCCACCACCCACTCAAACACATCCACCACCAACACAATACTCACCACCCACTCAAG
66 TCAAGCTCATCCACCACCCACACAAACACACCCACCACCAACACAATACCCACCACCCACTCAAA
* *
8658959 CCCATCCACCACCAAGGCAATACT-CG
131 CACATCCACCACCAACGCAA-ACTCCG
8658985 CCACC
1 CCACC
8658990 CATTCAAACA
Statistics
Matches: 378, Mismatches: 71, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
154 24 0.06
155 16 0.04
156 209 0.55
157 10 0.03
158 8 0.02
159 73 0.19
160 16 0.04
161 22 0.06
ACGTcount: A:0.32, C:0.48, G:0.07, T:0.13
Consensus pattern (156 bp):
CCACCAAGGCAATACCAGCCACCCACTCAAACACATCCACCACCAAAGCAATACCCACCACCCAC
TCAAGCTCATCCACCACCCACACAAACACACCCACCACCAACACAATACCCACCACCCACTCAAA
CACATCCACCACCAACGCAAACTCCG
Found at i:8659009 original size:21 final size:21
Alignment explanation
Indices: 8658883--8659010 Score: 88
Period size: 21 Copynumber: 6.4 Consensus size: 21
8658873 AAAGCTATAC
* * *
8658883 CCACCACCTACTCAAGCTCAT
1 CCACCACCCACTCAAACACAT
8658904 CCACCACCCACTCAAACACAT
1 CCACCACCCACTCAAACACAT
* * *
8658925 CCACCACCAACAC-AATAC-T
1 CCACCACCCACTCAAACACAT
* *
8658944 -CACCACCCACTCAAGCCCAT
1 CCACCACCCACTCAAACACAT
* ** *
8658964 CCACCACCAAGGC-AATAC-T
1 CCACCACCCACTCAAACACAT
* *
8658983 -CGCCACCCATTCAAACACAT
1 CCACCACCCACTCAAACACAT
8659003 CCACCACC
1 CCACCACC
8659011 AATGCAATCC
Statistics
Matches: 78, Mismatches: 23, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
18 18 0.23
19 8 0.10
20 8 0.10
21 44 0.56
ACGTcount: A:0.34, C:0.50, G:0.04, T:0.12
Consensus pattern (21 bp):
CCACCACCCACTCAAACACAT
Found at i:8659018 original size:39 final size:39
Alignment explanation
Indices: 8658907--8659032 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
8658897 AGCTCATCCA
* *
8658907 CCACCCACTCAAACACATCCACCACCAACACAATACTCA
1 CCACCCACTCAAACACATCCACCACCAACGCAATACTCG
* * *
8658946 CCACCCACTCAAGCCCATCCACCACCAAGGCAATACTCG
1 CCACCCACTCAAACACATCCACCACCAACGCAATACTCG
* * * *
8658985 CCACCCATTCAAACACATCCACCACCAATGCAATCCACG
1 CCACCCACTCAAACACATCCACCACCAACGCAATACTCG
8659024 CCACCCACT
1 CCACCCACT
8659033 AAAGGTTGTG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.35, C:0.49, G:0.05, T:0.11
Consensus pattern (39 bp):
CCACCCACTCAAACACATCCACCACCAACGCAATACTCG
Found at i:8659028 original size:138 final size:138
Alignment explanation
Indices: 8658809--8659134 Score: 354
Period size: 138 Copynumber: 2.4 Consensus size: 138
8658799 CAAACACATC
* * * *
8658809 CACCACCAACTCAAA--C-TCCTCCACCAAGGCAATACCCGCCACCCACTCAAACACATCCACCG
1 CACCACCCACTCAAACCCATCCACCACCAAGGCAATACTCGCCACCCACTCAAACACATCCACCA
* * * *
8658871 CCAAAGCTATACCCACCACCTACTCAAGCTCATCCACCACCCACTCAAACACATCCACCACCAAC
66 CCAAAGCAATACCCACCACCCACTAAAGCTCATCAACCACCCACTCAAACACATCCACCACCAAC
8658936 ACAATACT
131 ACAATACT
* *
8658944 CACCACCCACTCAAGCCCATCCACCACCAAGGCAATACTCGCCACCCATTCAAACACATCCACCA
1 CACCACCCACTCAAACCCATCCACCACCAAGGCAATACTCGCCACCCACTCAAACACATCCACCA
* * * ** * * * * * * *
8659009 CCAATGCAAT-CCACGCCACCCACTAAAGGTTGTGAACCACCTACTGAAGCTCATCCTCCACCGA
66 CCAAAGCAATACC-CACCACCCACTAAAGCTCATCAACCACCCACTCAAACACATCCACCACCAA
**
8659073 GGCAATACT
130 CACAATACT
* * ***
8659082 CACCTCCCACTCAAACTCATCCACCACCATCCCAATACTCGCCACCCACTCAA
1 CACCACCCACTCAAACCCATCCACCACCAAGGCAATACTCGCCACCCACTCAA
8659135 GGTCGTACAC
Statistics
Matches: 156, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
135 13 0.08
137 3 0.02
138 140 0.90
ACGTcount: A:0.33, C:0.47, G:0.07, T:0.13
Consensus pattern (138 bp):
CACCACCCACTCAAACCCATCCACCACCAAGGCAATACTCGCCACCCACTCAAACACATCCACCA
CCAAAGCAATACCCACCACCCACTAAAGCTCATCAACCACCCACTCAAACACATCCACCACCAAC
ACAATACT
Found at i:8659147 original size:21 final size:21
Alignment explanation
Indices: 8659123--8659221 Score: 78
Period size: 21 Copynumber: 4.9 Consensus size: 21
8659113 CCAATACTCG
*
8659123 CCACCCACTCAAGGTCGTACA
1 CCACCCACTCAAGGTCATACA
* * *
8659144 CCACCTACTCAAGCTCATCCA
1 CCACCCACTCAAGGTCATACA
* * *
8659165 CCACCAACGCAA---CATTCA
1 CCACCCACTCAAGGTCATACA
* *
8659183 CCGCCCACTCAAGGTCATACG
1 CCACCCACTCAAGGTCATACA
* *
8659204 CCACCTACTCAAGTTCAT
1 CCACCCACTCAAGGTCAT
8659222 CCATCACCAA
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
18 14 0.23
21 46 0.77
ACGTcount: A:0.29, C:0.43, G:0.10, T:0.17
Consensus pattern (21 bp):
CCACCCACTCAAGGTCATACA
Found at i:8659154 original size:60 final size:60
Alignment explanation
Indices: 8659090--8659268 Score: 214
Period size: 60 Copynumber: 3.0 Consensus size: 60
8659080 CTCACCTCCC
* * * *
8659090 ACTCAAACTCATCCACCACCATCCCAATACTCGCCACCCACTCAAGGTCGTACACCACCT
1 ACTCAAGCTCATCCACCACCAACCCAATACTCGCCGCCCACTCAAGGTCATACACCACCT
* * * * *
8659150 ACTCAAGCTCATCCACCACCAACGCAACATTCACCGCCCACTCAAGGTCATACGCCACCT
1 ACTCAAGCTCATCCACCACCAACCCAATACTCGCCGCCCACTCAAGGTCATACACCACCT
* * ** * * *
8659210 ACTCAAGTTCATCCATCACCAAGTCAATACTTGCCGCCCACTCAAAGTCATCCACCACC
1 ACTCAAGCTCATCCACCACCAACCCAATACTCGCCGCCCACTCAAGGTCATACACCACC
8659269 AATGCAGTAC
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 99 1.00
ACGTcount: A:0.30, C:0.44, G:0.08, T:0.17
Consensus pattern (60 bp):
ACTCAAGCTCATCCACCACCAACCCAATACTCGCCGCCCACTCAAGGTCATACACCACCT
Found at i:8659292 original size:39 final size:40
Alignment explanation
Indices: 8659204--8659294 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 40
8659194 AGGTCATACG
* **
8659204 CCACCTACTC-AAGTTCATCCATCACCAAGTCAATACTTG
1 CCACCTACTCAAAGTTCATCCACCACCAAGTCAATACTCA
* * *
8659243 CCGCCCACTCAAAG-TCATCCACCACCAA-TGCAGTACTCA
1 CCACCTACTCAAAGTTCATCCACCACCAAGT-CAATACTCA
8659282 CCACCTACTCAAA
1 CCACCTACTCAAA
8659295 TTATTCCGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.02
39 38 0.90
40 3 0.07
ACGTcount: A:0.32, C:0.41, G:0.08, T:0.20
Consensus pattern (40 bp):
CCACCTACTCAAAGTTCATCCACCACCAAGTCAATACTCA
Found at i:8661903 original size:34 final size:34
Alignment explanation
Indices: 8661860--8661927 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8661850 CTTTTCTATG
8661860 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
1 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
8661894 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
1 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
8661928 GCGTGTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (34 bp):
ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
Found at i:8663520 original size:18 final size:18
Alignment explanation
Indices: 8663497--8663533 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8663487 TTATCGAATC
8663497 TACAATTCTTTTATTTTT
1 TACAATTCTTTTATTTTT
8663515 TACAATTCTTTTATTTTT
1 TACAATTCTTTTATTTTT
8663533 T
1 T
8663534 CTTTCTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.68
Consensus pattern (18 bp):
TACAATTCTTTTATTTTT
Found at i:8684906 original size:22 final size:21
Alignment explanation
Indices: 8684858--8684925 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 21
8684848 TTAATTTATT
8684858 TTATAATAAT-ATAATATCAA
1 TTATAATAATAATAATATCAA
8684878 TTA-AATAATAATAATTAAT-AA
1 TTATAATAATAATAA-T-ATCAA
*
8684899 TTATAATAAT-A-AATATCTA
1 TTATAATAATAATAATATCAA
8684918 TT-TAATAA
1 TTATAATAA
8684926 CAAATATATG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
18 8 0.19
19 10 0.24
20 9 0.21
21 7 0.17
22 8 0.19
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAATAATAATAATATCAA
Found at i:8685447 original size:35 final size:35
Alignment explanation
Indices: 8685402--8685532 Score: 172
Period size: 35 Copynumber: 3.7 Consensus size: 35
8685392 AATATTAACT
*
8685402 ATACTGAGTTGTGAAACGTAGGTATGGTATCATCC
1 ATACTGAGTTGAGAAACGTAGGTATGGTATCATCC
* * *
8685437 ATACTGAGTTGTGAAACGTAGGTATGATATCAACC
1 ATACTGAGTTGAGAAACGTAGGTATGGTATCATCC
* * * *
8685472 ATATTGAGTTGAGAAACGTAAGTATGGTATTATTC
1 ATACTGAGTTGAGAAACGTAGGTATGGTATCATCC
* *
8685507 ATACTGAGTTAAGAAACATAGGTATG
1 ATACTGAGTTGAGAAACGTAGGTATG
8685533 ACATTTCCCA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (35 bp):
ATACTGAGTTGAGAAACGTAGGTATGGTATCATCC
Found at i:8685489 original size:70 final size:70
Alignment explanation
Indices: 8685375--8685533 Score: 201
Period size: 70 Copynumber: 2.3 Consensus size: 70
8685365 AATAGCAAAG
* * * * * *
8685375 TGTGAAACGTAACGTATAATATTAACTATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATA
1 TGTGAAACGT-AGGTATGATATCAACCATACTGAGTTGAGAAACGTAAGTATGGTATCATCCATA
8685440 CTGAGT
65 CTGAGT
* * *
8685446 TGTGAAACGTAGGTATGATATCAACCATATTGAGTTGAGAAACGTAAGTATGGTATTATTCATAC
1 TGTGAAACGTAGGTATGATATCAACCATACTGAGTTGAGAAACGTAAGTATGGTATCATCCATAC
8685511 TGAGT
66 TGAGT
** *
8685516 TAAGAAACATAGGTATGA
1 TGTGAAACGTAGGTATGA
8685534 CATTTCCCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
70 66 0.87
71 10 0.13
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (70 bp):
TGTGAAACGTAGGTATGATATCAACCATACTGAGTTGAGAAACGTAAGTATGGTATCATCCATAC
TGAGT
Found at i:8691184 original size:47 final size:47
Alignment explanation
Indices: 8691105--8691200 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 47
8691095 ATATATTTTT
*
8691105 ATATAAATATATAATATATCCAGGGAGACTGTCGTTTATGTGTGCCA
1 ATATAAATATATAATATATCCAGGAAGACTGTCGTTTATGTGTGCCA
* *
8691152 ATATATATATATAATATA-CCTAGGAAGGCTGTCGTTTATGTGTGCCA
1 ATATAAATATATAATATATCC-AGGAAGACTGTCGTTTATGTGTGCCA
8691199 AT
1 AT
8691201 TGCAATTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.04
47 43 0.96
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (47 bp):
ATATAAATATATAATATATCCAGGAAGACTGTCGTTTATGTGTGCCA
Found at i:8695428 original size:65 final size:66
Alignment explanation
Indices: 8695340--8695467 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 66
8695330 TAAAAAGCGG
* *
8695340 TTTTTACATGAAAAAAAGTAATTACTAAAATAAAATAAAAACAAATTATTTACAATAATGTATCG
1 TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTACAAGAATGTATCG
8695405 T
66 T
* * * * *
8695406 TTTTTACATG-AATAAATTAATTACGAAAATAAAATAAAAATAAGTTGTTTACAAGAATGTAT
1 TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTACAAGAATGTAT
8695468 TATTTAAAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
65 45 0.82
66 10 0.18
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (66 bp):
TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTACAAGAATGTATCG
T
Found at i:8695623 original size:33 final size:34
Alignment explanation
Indices: 8695570--8695633 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
8695560 TTTATATTTT
8695570 CTAGTTTTATAATATAATTTTATA-TTTTATTAG
1 CTAGTTTTATAATATAATTTTATAGTTTTATTAG
* *
8695603 CTAGTTTTAT-ATTTATATTTTGTAGTTTTAT
1 CTAGTTTTATAATATA-ATTTTATAGTTTTAT
8695634 AATTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 17 0.63
34 6 0.22
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (34 bp):
CTAGTTTTATAATATAATTTTATAGTTTTATTAG
Found at i:8695628 original size:21 final size:21
Alignment explanation
Indices: 8695587--8695644 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
8695577 TATAATATAA
*
8695587 TTTTATATTTTA-TTAGCTAG
1 TTTTATATTTTATTTTGCTAG
8695607 TTTTATATTTATATTTTG-TAG
1 TTTTATATTT-TATTTTGCTAG
8695628 TTTTATAATTTTATTTT
1 TTTTAT-ATTTTATTTT
8695645 ATTTAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.29
21 17 0.50
22 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTATATTTTATTTTGCTAG
Found at i:8696171 original size:19 final size:20
Alignment explanation
Indices: 8696135--8696180 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
8696125 AAACTAACTA
8696135 ATAAAA-TATAAAAT-TATATT
1 ATAAAACTA-AAAATATATA-T
8696155 ATAAAACTAAAAATATATAT
1 ATAAAACTAAAAATATATAT
8696175 ATAAAA
1 ATAAAA
8696181 AAAAGGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAACTAAAAATATATAT
Found at i:8696177 original size:33 final size:33
Alignment explanation
Indices: 8696108--8696180 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
8696098 TTATGAAATC
*
8696108 TATAAAATATAAATATAAAACTAACTAATAAAA
1 TATAAAATATAAATATAAAACTAACAAATAAAA
* *
8696141 TATAAAAT-TATATTATAAAACTAA-AAATATATA
1 TATAAAATATA-AATATAAAACTAACAAATA-AAA
8696174 TATAAAA
1 TATAAAA
8696181 AAAAGGAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (33 bp):
TATAAAATATAAATATAAAACTAACAAATAAAA
Found at i:8707930 original size:12 final size:12
Alignment explanation
Indices: 8707913--8707938 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8707903 AAATCAACTT
8707913 TAATAATGATAA
1 TAATAATGATAA
8707925 TAATAATGATAA
1 TAATAATGATAA
8707937 TA
1 TA
8707939 TAGCATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATAATGATAA
Found at i:8708100 original size:34 final size:34
Alignment explanation
Indices: 8708062--8708129 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8708052 GAATATTCTA
8708062 AAAAACGAAAAATTAATTAGAAAATATAGTTTTT
1 AAAAACGAAAAATTAATTAGAAAATATAGTTTTT
8708096 AAAAACGAAAAATTAATTAGAAAATATAGTTTTT
1 AAAAACGAAAAATTAATTAGAAAATATAGTTTTT
8708130 TTATCACGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAAACGAAAAATTAATTAGAAAATATAGTTTTT
Found at i:8718398 original size:22 final size:22
Alignment explanation
Indices: 8718371--8718412 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8718361 CGAAAATGAG
*
8718371 CGATAATTTTAAATCGAGCCCT
1 CGATAATTTTAAATCAAGCCCT
8718393 CGATAATTTTAAATCAAGCC
1 CGATAATTTTAAATCAAGCC
8718413 ATAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (22 bp):
CGATAATTTTAAATCAAGCCCT
Found at i:8720401 original size:39 final size:39
Alignment explanation
Indices: 8720355--8720486 Score: 248
Period size: 39 Copynumber: 3.4 Consensus size: 39
8720345 GCTCTGATGA
8720355 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
8720394 GCTTCAGTTAGCCT-CGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
8720432 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
8720471 GCTTCAGTTAGCCTCC
1 GCTTCAGTTAGCCTCC
8720487 TTGATTTCGG
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
38 38 0.42
39 53 0.58
ACGTcount: A:0.13, C:0.28, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:8722216 original size:29 final size:31
Alignment explanation
Indices: 8722150--8722217 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
8722140 TAACAAAACG
*
8722150 ACAATATAAATAACTAAAATATAATATTTTAA
1 ACAA-ATAAATAACTAAAATATAATATTTAAA
* *
8722182 AC--ATAAATCATTAAAATAT-A-ATTTAAA
1 ACAAATAAATAACTAAAATATAATATTTAAA
8722209 ACAAATAAA
1 ACAAATAAA
8722218 AATATCTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
27 8 0.26
28 1 0.03
29 20 0.65
32 2 0.06
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (31 bp):
ACAAATAAATAACTAAAATATAATATTTAAA
Found at i:8742144 original size:12 final size:12
Alignment explanation
Indices: 8742127--8742151 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8742117 GCAGTAGCCC
8742127 CAGTACCAGCAG
1 CAGTACCAGCAG
8742139 CAGTACCAGCAG
1 CAGTACCAGCAG
8742151 C
1 C
8742152 GATAGTGGCT
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:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CAGTACCAGCAG
Found at i:8750341 original size:13 final size:13
Alignment explanation
Indices: 8750323--8750349 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8750313 AGCTTCCAAG
8750323 ATATTAAGTTCCC
1 ATATTAAGTTCCC
8750336 ATATTAAGTTCCC
1 ATATTAAGTTCCC
8750349 A
1 A
8750350 ATCCGAGTAG
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:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (13 bp):
ATATTAAGTTCCC
Found at i:8755274 original size:2 final size:2
Alignment explanation
Indices: 8755267--8755297 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8755257 AGCTTATATC
8755267 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8755298 ACACACACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8757319 original size:24 final size:25
Alignment explanation
Indices: 8757292--8757340 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
8757282 AGAAAAAGCT
8757292 AAGAAACATAGTTACATG-CCTTGA
1 AAGAAACATAGTTACATGCCCTTGA
8757316 AAGAAACATAGTTACATGCCCTTGA
1 AAGAAACATAGTTACATGCCCTTGA
8757341 CATTGCAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (25 bp):
AAGAAACATAGTTACATGCCCTTGA
Found at i:8760400 original size:18 final size:19
Alignment explanation
Indices: 8760373--8760416 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
8760363 ATATTTGAGT
*
8760373 TTTTTTAAGAAAATAAT-A
1 TTTTTAAAGAAAATAATAA
* *
8760391 TTTTTAAAGATAATCATAA
1 TTTTTAAAGAAAATAATAA
8760410 TTTTTAA
1 TTTTTAA
8760417 GGGAGTGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
TTTTTAAAGAAAATAATAA
Found at i:8764736 original size:24 final size:24
Alignment explanation
Indices: 8764708--8764756 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
8764698 TATATTTCAA
* *
8764708 ATTTTT-AGCTTCCATATATATAC
1 ATTTTTAAACTTCCATACATATAC
*
8764731 ATTTTTAAATTTCCATACATATAC
1 ATTTTTAAACTTCCATACATATAC
8764755 AT
1 AT
8764757 ATACAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTTTAAACTTCCATACATATAC
Found at i:8765150 original size:20 final size:20
Alignment explanation
Indices: 8765107--8765150 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8765097 AAATCCCTTC
* * * *
8765107 AAAGTAAATTCCTTGGATTG
1 AAAGGAAATTCCTTGAAATA
8765127 AAAGGAAATTCCTTGAAATA
1 AAAGGAAATTCCTTGAAATA
8765147 AAAG
1 AAAG
8765151 ATAAGAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (20 bp):
AAAGGAAATTCCTTGAAATA
Found at i:8765193 original size:3 final size:3
Alignment explanation
Indices: 8765185--8765218 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8765175 AGTTTAGTTT
8765185 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8765219 AAGACATCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8766414 original size:10 final size:9
Alignment explanation
Indices: 8766398--8766552 Score: 69
Period size: 9 Copynumber: 17.7 Consensus size: 9
8766388 TGGTTTACAC
8766398 ATAAAAATT
1 ATAAAAATT
8766407 ATTAAAAA-T
1 A-TAAAAATT
*
8766416 A-AAAAAAT
1 ATAAAAATT
8766424 ATAAAAATT
1 ATAAAAATT
* *
8766433 ATTAATA-T
1 ATAAAAATT
*
8766441 AAAAAAATT
1 ATAAAAATT
8766450 ATAGAAAA-T
1 ATA-AAAATT
*
8766459 ATAAATATT
1 ATAAAAATT
8766468 A-AAAAA-T
1 ATAAAAATT
* *
8766475 -GAAAATTT
1 ATAAAAATT
* *
8766483 GTATAAACTT
1 ATA-AAAATT
8766493 ATAAAATATT
1 ATAAAA-ATT
*
8766503 A-AAAGATT
1 ATAAAAATT
*
8766511 ATAAAAAAT
1 ATAAAAATT
8766520 ATTAAAAA-T
1 A-TAAAAATT
8766529 AT-AAAATT
1 ATAAAAATT
* *
8766537 CTAATATATT
1 ATAA-AAATT
8766547 ATAAAA
1 ATAAAA
8766553 TAATTTATAT
Statistics
Matches: 109, Mismatches: 21, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
7 14 0.13
8 22 0.20
9 40 0.37
10 33 0.30
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:8766434 original size:26 final size:26
Alignment explanation
Indices: 8766398--8766534 Score: 88
Period size: 26 Copynumber: 5.2 Consensus size: 26
8766388 TGGTTTACAC
8766398 ATAAAAATTATTAAAAATAAAAAAAT
1 ATAAAAATTATTAAAAATAAAAAAAT
*
8766424 ATAAAAATTATT-AATATAAAAAAATT
1 ATAAAAATTATTAAAAATAAAAAAA-T
* *
8766450 ATAGAAAA-TA-TAAATAT-TAAAAA-
1 ATA-AAAATTATTAAAAATAAAAAAAT
* * * *
8766473 ATGAAAATT-TGTATAAACTTATAAAAT
1 ATAAAAATTAT-TA-AAAATAAAAAAAT
* *
8766500 ATTAAAAGATTATAAAAAATATTAAAAAT
1 A-TAAAA-ATTATTAAAAATA-AAAAAAT
8766529 ATAAAA
1 ATAAAA
8766535 TTCTAATATA
Statistics
Matches: 85, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
22 4 0.05
23 3 0.04
24 2 0.02
25 20 0.24
26 27 0.32
27 5 0.06
28 13 0.15
29 10 0.12
30 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.31
Consensus pattern (26 bp):
ATAAAAATTATTAAAAATAAAAAAAT
Done.