Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold296
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: 679504
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.24
Warning! 166439 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:7228 original size:20 final size:19
Alignment explanation
Indices: 7182--7238 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
7172 TTGTATCGAT
* *
7182 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
*
7201 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
7220 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
7239 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:7301 original size:13 final size:13
Alignment explanation
Indices: 7283--7315 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
7273 CGACACATGG
7283 TACATTGTATCAA
1 TACATTGTATCAA
*
7296 TACATTGTATCGA
1 TACATTGTATCAA
7309 TACATTG
1 TACATTG
7316 CTTGTAACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:9551 original size:21 final size:20
Alignment explanation
Indices: 9527--9569 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
9517 TATTAAAAAG
* *
9527 TTAGCTAATGAAAATAATGAA
1 TTAGCTAAGGAAAACAA-GAA
9548 TTAGCTAAGGAAAACAAGAA
1 TTAGCTAAGGAAAACAAGAA
9568 TT
1 TT
9570 TGCATGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (20 bp):
TTAGCTAAGGAAAACAAGAA
Found at i:13480 original size:13 final size:13
Alignment explanation
Indices: 13462--13488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13452 ACAACATTCC
13462 TTGTATCGATACA
1 TTGTATCGATACA
13475 TTGTATCGATACA
1 TTGTATCGATACA
13488 T
1 T
13489 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:15387 original size:22 final size:22
Alignment explanation
Indices: 15362--15403 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15352 TTTTTTGATA
15362 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
15384 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
15404 ATGTTTATCT
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:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:16114 original size:33 final size:33
Alignment explanation
Indices: 16072--16140 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
16062 GTACCACTGT
*
16072 TTGTATCGATACATGGT-ACATTGTATTGATACA
1 TTGTATCGATACATGATGA-ATTGTATTGATACA
*
16105 TTGTATCGATACGTGATGAATTGTATTGATACA
1 TTGTATCGATACATGATGAATTGTATTGATACA
16138 TTG
1 TTG
16141 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATTGATACA
Found at i:20237 original size:11 final size:11
Alignment explanation
Indices: 20221--20278 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
20211 CGTCTTTCGT
*
20221 ACCAAAAAAGA
1 ACCAAAAAAAA
20232 ACCAAAAAAAA
1 ACCAAAAAAAA
*
20243 ATCAAGAAAAAA
1 ACCAA-AAAAAA
*
20255 A-AACAAAAAAA
1 ACCA-AAAAAAA
20266 ACCAAAAACAAA
1 ACCAAAAA-AAA
20278 A
1 A
20279 AAAACAAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 26 0.67
12 13 0.33
ACGTcount: A:0.79, C:0.16, G:0.03, T:0.02
Consensus pattern (11 bp):
ACCAAAAAAAA
Found at i:20262 original size:9 final size:9
Alignment explanation
Indices: 20250--20292 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
20240 AAAATCAAGA
20250 AAAAAAAAC
1 AAAAAAAAC
20259 AAAAAAAAC
1 AAAAAAAAC
*
20268 --CAAAAAC
1 AAAAAAAAC
20275 AAAAAAAAC
1 AAAAAAAAC
20284 AAACAAAAA
1 AAA-AAAAA
20293 ACAATTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 6 0.21
9 18 0.62
10 5 0.17
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:20272 original size:16 final size:16
Alignment explanation
Indices: 20253--20283 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20243 ATCAAGAAAA
20253 AAAAACAAAAAAAACC
1 AAAAACAAAAAAAACC
20269 AAAAACAAAAAAAAC
1 AAAAACAAAAAAAAC
20284 AAACAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAACC
Found at i:20294 original size:20 final size:20
Alignment explanation
Indices: 20236--20296 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
20226 AAAAGAACCA
20236 AAAAAAAATCAAGA-AAAAAA-
1 AAAAAAAA-CAA-ACAAAAAAC
* *
20256 AACAAAAA-AAACCAAAAAC
1 AAAAAAAACAAACAAAAAAC
20275 AAAAAAAACAAACAAAAAAC
1 AAAAAAAACAAACAAAAAAC
20295 AA
1 AA
20297 TTAAACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 7 0.21
20 19 0.56
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.02
Consensus pattern (20 bp):
AAAAAAAACAAACAAAAAAC
Found at i:20302 original size:15 final size:13
Alignment explanation
Indices: 20223--20308 Score: 63
Period size: 13 Copynumber: 6.5 Consensus size: 13
20213 TCTTTCGTAC
*
20223 CAAAAAAGAACCAA
1 CAAAAAA-AACAAA
*
20237 -AAAAAAATCAAGA
1 CAAAAAAAACAA-A
20250 -AAAAAAAACAAA
1 CAAAAAAAACAAA
*
20262 -AAAAACCAA-AAA
1 CAAAAA-AAACAAA
20274 CAAAAAAAACAAA
1 CAAAAAAAACAAA
*
20287 CAAAAAACAATTAAA
1 CAAAAAA-AA-CAAA
20302 CAAAAAA
1 CAAAAAA
20309 GGGGTCCAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
12 14 0.23
13 34 0.57
14 2 0.03
15 10 0.17
ACGTcount: A:0.80, C:0.14, G:0.02, T:0.03
Consensus pattern (13 bp):
CAAAAAAAACAAA
Found at i:21602 original size:28 final size:28
Alignment explanation
Indices: 21562--21892 Score: 340
Period size: 28 Copynumber: 11.4 Consensus size: 28
21552 TCATGTTTTT
*
21562 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
21590 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
21618 AAAGCCCATAAGTCAGTGGCATACCCTTTT
1 AAAGCCCACAAGTCAGTGGCAT--CCTTTC
* * *
21648 AAAGCCCATACAAATCAGTGGAACCCTTTC
1 AAAGCCC--ACAAGTCAGTGGCATCCTTTC
* * * *
21678 AAAGCCCAAAAGTCGGTGGTACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
21706 AAAGCCCACATAAGTCGGTGGCAATTCTTTTC
1 AAAGCCCAC--AAGTCAGTGGC-A-TCCTTTC
*
21738 AAAGCCCATAAGTCAGTGGCAT-CTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
* * *
21766 AAAAGACCATAAGTTAGTGGCATCCTTTC
1 -AAAGCCCACAAGTCAGTGGCATCCTTTC
21795 AAAGCCCACAAGTCAGTGGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGCAT--CCTTTC
* * *
21825 AAAGCCCACACAAATCAGTGGCACCCTTCC
1 AAAG-CC-CACAAGTCAGTGGCATCCTTTC
*
21855 AAAGCCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
21883 AAAGCCCACA
1 AAAGCCCACA
21893 TAAGTCGGTG
Statistics
Matches: 257, Mismatches: 31, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
27 1 0.00
28 124 0.48
29 26 0.10
30 65 0.25
31 3 0.01
32 38 0.15
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:21682 original size:88 final size:90
Alignment explanation
Indices: 21558--21904 Score: 417
Period size: 88 Copynumber: 3.9 Consensus size: 90
21548 ATGTTCATGT
* * *
21558 TTTTAAAGCCC--ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
1 TTTTAAAGCCCATACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
21621 G-CC-CATAAGTCAGTGGCATACCC
66 GCCCACATAAGTCAGTGGCATACCC
* * * *
21644 TTTTAAAGCCCATACAAATCAGTGGAACCCTTTCAAAGCCCAAAAGTCGGTGGTACCCTTTCAAA
1 TTTTAAAGCCCATACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* **
21709 GCCCACATAAGTCGGTGGCA-ATTC
66 GCCCACATAAGTCAGTGGCATACCC
* * * * * *
21733 TTTTCAAAGCCCAT--AAGTCAGTGGCA-TCTCTTCAAAAGACCATAAGTTAGTGGCATCCTTTC
1 TTTT-AAAGCCCATACAAATCAGTGGCACCCT-TTC-AAAGCCCACAAGTCAGTGGCACCCTTTC
21795 AAAGCCCAC--AAGTCAGTGGCATACCC
63 AAAGCCCACATAAGTCAGTGGCATACCC
* * *
21821 TTTCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
1 TTTTAAAGCCCATACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
21886 GCCCACATAAGTCGGTGGC
66 GCCCACATAAGTCAGTGGC
21905 TTCAAAGCCC
Statistics
Matches: 216, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
86 11 0.05
87 21 0.10
88 97 0.45
89 52 0.24
90 35 0.16
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (90 bp):
TTTTAAAGCCCATACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
GCCCACATAAGTCAGTGGCATACCC
Found at i:21860 original size:177 final size:176
Alignment explanation
Indices: 21557--21904 Score: 536
Period size: 177 Copynumber: 2.0 Consensus size: 176
21547 AATGTTCATG
* * *
21557 TTTTTAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGACCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
21622 CCCATAAGTCAGTGGCATACCCTTTTAAAGCCCATACAAATCAGTGGAACCCTTTCAAAGCCCAA
66 CCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGAACCCTTCCAAAGCCCAA
* *
21687 AAGTCGGTGGTACCCTTTCAAAGCCCACATAAGTCGGTGGCAATTC
131 AAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCGGTGGCAATTC
* * * *
21733 TTTTCAAAGCCCATAAGTCAGTGGCAT-CTCTTCAAAAGACCATAAGTTAGTGGCATCCTTTCAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGACCACAAGTCAGTGGCACCCTTTCAA
*
21797 AGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCC
64 AGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGAACCCTTCCAAAGCCC
*
21862 ACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCGGTGGC
129 AAAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCGGTGGC
21905 TTCAAAGCCC
Statistics
Matches: 155, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
175 2 0.01
176 27 0.17
177 126 0.81
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (176 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGACCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGAACCCTTCCAAAGCCCAA
AAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCGGTGGCAATTC
Found at i:21928 original size:25 final size:25
Alignment explanation
Indices: 21880--21929 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
21870 GTGGCACCCT
*
21880 TTCAAAGCCCACATAAGTCGGTGGC
1 TTCAAAGCCCACATAAGTCAGTGGC
*
21905 TTCAAAGCCCACATAAGTTAGTGGC
1 TTCAAAGCCCACATAAGTCAGTGGC
21930 ACCATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (25 bp):
TTCAAAGCCCACATAAGTCAGTGGC
Found at i:22090 original size:46 final size:47
Alignment explanation
Indices: 22006--22174 Score: 193
Period size: 46 Copynumber: 3.6 Consensus size: 47
21996 AAGTTAGATA
* * * *
22006 TCGCTGGCATTGAATCAGCATATTG-GCACATTTATTAGCTCTAA-G
1 TCGCTGGCCTTGAATCAACACATTGTCCACATTTATTAGCTCTAATG
* * * *
22051 TCGTTGGCCTCGAATCAGCACATTGTCCACCTTTATTAGCTC-AATG
1 TCGCTGGCCTTGAATCAACACATTGTCCACATTTATTAGCTCTAATG
* * *
22097 TCGCTGGCCTTGAATCAACGCATTGTCCACTTTTCTCTTAGCT-TAATG
1 TCGCTGGCCTTGAATCAACACATTGTCCAC-ATT-TATTAGCTCTAATG
22145 TCGCTGGCCTTGAATCAACACATTGTCCAC
1 TCGCTGGCCTTGAATCAACACATTGTCCAC
22175 TTTTCCCTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
45 23 0.22
46 41 0.39
47 2 0.02
48 40 0.38
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAACACATTGTCCACATTTATTAGCTCTAATG
Found at i:22152 original size:48 final size:48
Alignment explanation
Indices: 22040--22207 Score: 207
Period size: 48 Copynumber: 3.5 Consensus size: 48
22030 GGCACATTTA
* * * * *
22040 TTAGCTCTAA-GTCGTTGGCCTCGAATCAGCACATTGTCCAC-CTT-TA
1 TTAGCTC-AATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCTC
*
22086 TTAGCTCAATGTCGCTGGCCTTGAATCAACGCATTGTCCACTTTTCTC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCTC
* *
22134 TTAGCTTAATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCTC
* * *
22182 TTAGCTCGATGTTGTTGGCCTTGAAT
1 TTAGCTCAATGTCGCTGGCCTTGAAT
22208 TGGCACATTG
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 2 0.02
46 34 0.32
47 2 0.02
48 68 0.64
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAACACATTGTCCACTTTTCTC
Found at i:22217 original size:48 final size:47
Alignment explanation
Indices: 22006--22207 Score: 205
Period size: 48 Copynumber: 4.3 Consensus size: 47
21996 AAGTTAGATA
* * * * * *
22006 TCGCTGGCATTGAATCAGCATATTG-GCACATTT-ATTAGCTCTAA-G
1 TCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCTTAGCTC-AATG
* * * * *
22051 TCGTTGGCCTCGAATCAGCACATTGTCCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCTTAGCTCAATG
* *
22097 TCGCTGGCCTTGAATCAACGCATTGTCCACTTTTCTCTTAGCTTAATG
1 TCGCTGGCCTTGAATCAACACATTGTCCACTTTTC-CTTAGCTCAATG
*
22145 TCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCGATG
1 TCGCTGGCCTTGAATCAACACATTGTCCACTTTT-CCTTAGCTCAATG
* *
22193 TTGTTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
22208 TGGCACATTG
Statistics
Matches: 134, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
45 23 0.17
46 44 0.33
48 66 0.49
49 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCTTAGCTCAATG
Found at i:22991 original size:20 final size:20
Alignment explanation
Indices: 22966--23090 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
22956 TACTCAGACA
22966 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * *
22986 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATG
*
23006 TATCGATACATTCTATCTTTTCACCTAGATA
1 TATCGAT--A--C-AT-TTTT---C-A-ATG
23037 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
*
23057 TATCGATACATTTTTCAATC
1 TATCGATACATTTTTCAATG
23077 TATCGATACATTTT
1 TATCGATACATTTT
23091 GTCTTTTTAC
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
20 59 0.69
21 1 0.01
22 2 0.02
24 1 0.01
25 6 0.07
26 4 0.05
27 1 0.01
29 1 0.01
30 1 0.01
31 9 0.11
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:23081 original size:71 final size:71
Alignment explanation
Indices: 22965--23124 Score: 212
Period size: 71 Copynumber: 2.3 Consensus size: 71
22955 TTACTCAGAC
* *
22965 ATATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTCAC
1 ATATCGATACATTTTTCAATGTATCGATACATGTATCAATCTATCGATACATTCTATCTTTTCAC
* *
23030 CTAGAT
66 CCAAAT
* * * * *
23036 ATATCGATACATTTTTCAATGTATCGATACATTTTTCAATCTATCGATACATTTTGTCTTTTTAC
1 ATATCGATACATTTTTCAATGTATCGATACATGTATCAATCTATCGATACATTCTATCTTTTCAC
23101 CCAAAT
66 CCAAAT
* * *
23107 GTATTGATACATTATTCA
1 ATATCGATACATTTTTCA
23125 TGCTCTTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (71 bp):
ATATCGATACATTTTTCAATGTATCGATACATGTATCAATCTATCGATACATTCTATCTTTTCAC
CCAAAT
Found at i:23167 original size:20 final size:19
Alignment explanation
Indices: 23142--23193 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
23132 TTTTTCCCAG
**
23142 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTTAAA
23162 ATGTATCGATACA-TTAAA
1 ATGTATCGATACATTTAAA
23180 ATGTATCGATACAT
1 ATGTATCGATACAT
23194 CTAGTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 16 0.55
20 13 0.45
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTTAAA
Found at i:26720 original size:119 final size:122
Alignment explanation
Indices: 26556--26885 Score: 349
Period size: 119 Copynumber: 2.7 Consensus size: 122
26546 ATATTAATTT
26556 AAAACTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTGTTAAA-T
1 AAAACTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTGTTAAACT
*
26620 TGAATTAAATATTA-TTT-TTTTATT-AAAAATTATAATAA-AAAACCTTTTTGTTTC
66 T-AATTAAATATTATTTTATTTTATTAAAAAATAATAATAATAAAACCTTTTTGTTTC
* * *
26674 AAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATTTTAATTTGTTAATGTAATTTTTTAAA
1 AAAACTTTTTA-TTTT-TAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTGTTAAA
* *
26738 CTTAATTAAATATTATTTTTAATTTTATTAAAAAATAATAATAATAAACCCTTTTTATTTTTATT
64 CTTAATTAAATATTA-TTTT-ATTTTATTAAAAAATAATAATAATAAAACC---TT-TTTGT-TT
*
26803 T
122 C
* * * * * *
26804 AAAATTTTTTATTATT--AAA-A-AATAATTAATATTTTAATTTTTTAATATAATTTTTTTTAAA
1 AAAACTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA--ATTGTTAAA
*
26865 GTTAATTAAATATT-TTTTATT
64 CTTAATTAAATATTATTTTATT
26886 AAAAATAATA
Statistics
Matches: 184, Mismatches: 11, Indels: 28
0.83 0.05 0.13
Matches are distributed among these distances:
118 10 0.05
119 43 0.23
120 20 0.11
121 3 0.02
123 7 0.04
124 25 0.14
125 28 0.15
126 3 0.02
127 22 0.12
128 3 0.02
129 7 0.04
130 13 0.07
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (122 bp):
AAAACTTTTTATTTTTAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTGTTAAACT
TAATTAAATATTATTTTATTTTATTAAAAAATAATAATAATAAAACCTTTTTGTTTC
Found at i:27643 original size:92 final size:92
Alignment explanation
Indices: 27514--27715 Score: 282
Period size: 92 Copynumber: 2.2 Consensus size: 92
27504 AATAAATATG
* **
27514 ATTATATCTTAA-AATCGGATTCTTTTTTATGGGAAAAAAGAAAAGTTAATTGATTGTAAATGTC
1 ATTATATC-TAAGAATCGAATTCTTTTTTATGAAAAAAAAGAAAAGTTAATTGATTGTAAATGTC
* *
27578 AAATTGCAAGGATTAGACTAATGCATGA
65 AAACTGCAAGGATTAGACTAATACATGA
* *
27606 ATTATATCTGAGAATC-AATTCTTTTTTATAGAAAAAAAAGAAAAGTTGATTGATTGTAAATGTC
1 ATTATATCTAAGAATCGAATTCTTTTTTAT-GAAAAAAAAGAAAAGTTAATTGATTGTAAATGTC
* * *
27670 AGACTGTAAGGATTAGACTAATATATGA
65 AAACTGCAAGGATTAGACTAATACATGA
27698 ATTATATCTAAGAATCGA
1 ATTATATCTAAGAATCGA
27716 TTGTAAATGT
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 14 0.15
92 81 0.84
93 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (92 bp):
ATTATATCTAAGAATCGAATTCTTTTTTATGAAAAAAAAGAAAAGTTAATTGATTGTAAATGTCA
AACTGCAAGGATTAGACTAATACATGA
Found at i:27745 original size:57 final size:57
Alignment explanation
Indices: 27657--27770 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
27647 AAAGTTGATT
** *
27657 GATTGTAAATGTCAGACTGTAAGGATTAGACTAATATATGAATTATATCTAAGAATC
1 GATTGTAAATGTCAGACTACAAGGATTAGACTAATACATGAATTATATCTAAGAATC
* * *
27714 GATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATC
1 GATTGTAAATGTCAGACTACAAGGATTAGACTAATACATGAATTATATCTAAGAATC
27771 AAATTCTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (57 bp):
GATTGTAAATGTCAGACTACAAGGATTAGACTAATACATGAATTATATCTAAGAATC
Found at i:27866 original size:88 final size:89
Alignment explanation
Indices: 27714--28067 Score: 455
Period size: 88 Copynumber: 3.9 Consensus size: 89
27704 TCTAAGAATC
* * *
27714 GATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGA--AATGCATGAATTATATCTGAGAATCAGATTCTT
27779 TTTTATAGAAAAAAGAAAAGTTGACT
64 TTTTATAGAAAAAAGAAAAGTTGACT
* * *
27805 GATTGTAAATGTTAGACTGCAAGGATTAG-AATGCATGAATTATATCTGTGAATCGGATTCTTTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGAAATGCATGAATTATATCTGAGAATCAGATTCTTTT
27869 TTATAG--AAAA-AAAAGTTGACT
66 TTATAGAAAAAAGAAAAGTTGACT
* *
27890 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAAAATCAGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGA--AATGCATGAATTATATCTGAGAATCAGATTCTT
* * *
27955 TTTTATAGAAAAAAAAGAAAGACTGATT
64 TTTTATAGAAAAAAGA-AAAG-TTGACT
* **
27983 GATTATAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATTGGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGA--AATGCATGAATTATATCTGAGAATCAGATTC-T
*
28048 TTTTTATAAAAAAAAAGAAA
63 TTTTTAT-AGAAAAAAGAAA
28068 GATTGCAAGG
Statistics
Matches: 235, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
85 39 0.17
86 4 0.02
88 75 0.32
90 4 0.02
91 29 0.12
92 4 0.02
93 62 0.26
94 10 0.04
95 8 0.03
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (89 bp):
GATTGTAAATGTCAGACTGCAAGGATTAGAAATGCATGAATTATATCTGAGAATCAGATTCTTTT
TTATAGAAAAAAGAAAAGTTGACT
Found at i:28023 original size:93 final size:93
Alignment explanation
Indices: 27714--28069 Score: 482
Period size: 93 Copynumber: 3.9 Consensus size: 93
27704 TCTAAGAATC
* * *
27714 GATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTT
* * *
27779 TTTTATAGAAAAAAGA-AAAG-TTGACT
66 TTTTATAGAAAAAAAAGAAAGACTGATT
* * *
27805 GATTGTAAATGTTAGACTGCAAGGATTAG---AATGCATGAATTATATCTGTGAATCGGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTT
* *
27867 TTTTATAG---AAAAA-AAAG-TTGACT
66 TTTTATAGAAAAAAAAGAAAGACTGATT
* *
27890 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATACATGAATTATATCTGAAAATCAGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTT
27955 TTTTATAGAAAAAAAAGAAAGACTGATT
66 TTTTATAGAAAAAAAAGAAAGACTGATT
* **
27983 GATTATAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATTGGATTCTT
1 GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC-T
28048 TTTTTATA-AAAAAAAAGAAAGA
65 TTTTTATAGAAAAAAAAGAAAGA
28070 TTGCAAGGAT
Statistics
Matches: 239, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
85 42 0.18
88 75 0.31
91 33 0.14
92 4 0.02
93 76 0.32
94 9 0.04
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (93 bp):
GATTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTT
TTTTATAGAAAAAAAAGAAAGACTGATT
Found at i:31097 original size:16 final size:17
Alignment explanation
Indices: 31068--31099 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
31058 TGTTCGAAAA
31068 AAAGTTATTAAAATTTG
1 AAAGTTATTAAAATTTG
31085 AAAGTTA-TAAAATTT
1 AAAGTTATTAAAATTT
31100 ATGATGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
AAAGTTATTAAAATTTG
Found at i:31367 original size:11 final size:11
Alignment explanation
Indices: 31330--31379 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
31320 TAATTTAAAA
31330 AAATAAATT-T
1 AAATAAATTAT
* *
31340 AATTAATTTAT
1 AAATAAATTAT
*
31351 AAATAAATTAA
1 AAATAAATTAT
*
31362 AAATAATTTAT
1 AAATAAATTAT
31373 AAATAAA
1 AAATAAA
31380 AAGTAATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
10 7 0.23
11 24 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATAAATTAT
Found at i:31371 original size:22 final size:21
Alignment explanation
Indices: 31330--31379 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
31320 TAATTTAAAA
* *
31330 AAATAAATTTAATTAATTTAT
1 AAATAAATTAAAATAATTTAT
31351 AAATAAATTAAAAATAATTTAT
1 AAATAAATT-AAAATAATTTAT
31373 AAATAAA
1 AAATAAA
31380 AAGTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAAATTAAAATAATTTAT
Found at i:32312 original size:65 final size:69
Alignment explanation
Indices: 32234--32376 Score: 163
Period size: 69 Copynumber: 2.1 Consensus size: 69
32224 TTTTTACAAA
**
32234 TTAATTAAATTT-AA-AAAATTTA-AAAAAT-AA-TAATGTATTAATTATTATTTTTAATAA-AA
1 TTAATTAAATTTAAAGAAAATTTATAAAAATAAATTAAAATATTAATTA--ATTTTTAATAATAA
*
32293 AAATAT
64 AAAAAT
* **
32299 TTAATTAACTTTAAAGAAAATTTATATTAATAAATTAAAATATTAATTAATTTTTAATAATAAAA
1 TTAATTAAATTTAAAGAAAATTTATAAAAATAAATTAAAATATTAATTAATTTTTAATAATAAAA
32364 AAAT
66 AAAT
*
32368 TTAAATAAA
1 TTAATTAAA
32377 AATAAAAAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
65 11 0.17
66 2 0.03
67 8 0.12
68 15 0.23
69 16 0.25
70 12 0.19
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (69 bp):
TTAATTAAATTTAAAGAAAATTTATAAAAATAAATTAAAATATTAATTAATTTTTAATAATAAAA
AAAT
Found at i:32371 original size:27 final size:29
Alignment explanation
Indices: 32317--32371 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
32307 CTTTAAAGAA
*
32317 AATTTATATTAATAAATTAAAATATTAATT
1 AATTTATAATAATAAA-TAAAATATTAATT
*
32347 AATTTTTAATAATAAA-AAAAT-TTAA
1 AATTTATAATAATAAATAAAATATTAA
32372 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 5 0.22
30 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTATAATAATAAATAAAATATTAATT
Found at i:32520 original size:123 final size:123
Alignment explanation
Indices: 32288--32645 Score: 432
Period size: 123 Copynumber: 2.9 Consensus size: 123
32278 TTATTTTTAA
*
32288 TAAAAA-AATATTTAATTAACTTTAAAGAAAATTTATATTAATAAATTAAAATATTAATTA-AT-
1 TAAAAATAATATTTAATTAA-TTT-AA-AAAA-TTACATTAATAAATTAAAATATTAATTATATG
* * *
32350 TTTTAAT-AATA-AAAAAATTTAAATAAAAATAAAAAAGGTTTATTATTATTATTTTTAATAAAA
62 TTTTTATAAAAATAAAAAATTT---T-AAAATAAAAAAGGTTTATTATTATAATTTTTAATAAAA
32413 T
123 T
*
32414 TAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAAT-TTAATTACTATGTT
1 TAAAAATAATATTTAATTAA-TTTAAAAAATTACATTAATAAATTAAAATATTAATTA-TATGTT
* *
32478 TTTATAAAAATAAAAAATTTTAAAAT-GAAAAGGTTTTTTATTATAATTTTTAATAAAAT
64 TTTATAAAAATAAAAAATTTTAAAATAAAAAAGGTTTATTATTATAATTTTTAATAAAAT
* *
32537 AAAAAATAATATTTAATTCAATTTAAAAATTTACATTAATAAATTAAAATATTAATTATTATG-T
1 TAAAAATAATATTTAATT-AATTTAAAAAATTACATTAATAAATTAAAATATTAATTA-TATGTT
* *
32601 TTT-TAAAAATAAAAAATTTT-AAATAAAAAAAGTTT-TTTTTATAAT
64 TTTATAAAAATAAAAAATTTTAAAATAAAAAAGGTTTATTATTATAAT
32646 AATATTTTTT
Statistics
Matches: 208, Mismatches: 15, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
121 13 0.06
122 25 0.12
123 85 0.41
124 36 0.17
125 7 0.03
126 14 0.07
127 19 0.09
128 9 0.04
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (123 bp):
TAAAAATAATATTTAATTAATTTAAAAAATTACATTAATAAATTAAAATATTAATTATATGTTTT
TATAAAAATAAAAAATTTTAAAATAAAAAAGGTTTATTATTATAATTTTTAATAAAAT
Found at i:32661 original size:21 final size:20
Alignment explanation
Indices: 32633--32675 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
32623 ATAAAAAAAG
32633 TTTTTTTTAT-AATAATATTT
1 TTTTTTTTATAAAT-ATATTT
*
32653 TTTTATTTTTTAAATATATTT
1 TTTT-TTTTATAAATATATTT
32674 TT
1 TT
32676 GAAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTTTATAAATATATTT
Found at i:32995 original size:22 final size:23
Alignment explanation
Indices: 32946--33001 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
32936 AATAATGATA
*
32946 AATTTTTTTAATTCCTTAAATGT
1 AATTTTTTTAATTCCTTAAATAT
* **
32969 TATTTTTTTAATTTGTT-AATAT
1 AATTTTTTTAATTCCTTAAATAT
32991 AATTTTTTTAA
1 AATTTTTTTAA
33002 ATTTAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
AATTTTTTTAATTCCTTAAATAT
Found at i:33004 original size:23 final size:24
Alignment explanation
Indices: 32925--33023 Score: 73
Period size: 23 Copynumber: 4.2 Consensus size: 24
32915 GAATAGATGG
*
32925 TTTTTT-ATTTAAAT-AATGATAAAT
1 TTTTTTAATTTAATTAAAT-AT-AAT
** * *
32949 TTTTTTAA-TTCCTTAAATGTTAT
1 TTTTTTAATTTAATTAAATATAAT
*
32972 TTTTTTAATTT-GTT-AATATAAT
1 TTTTTTAATTTAATTAAATATAAT
*
32994 TTTTTTAAATTTAATTAAATATCAT
1 TTTTTT-AATTTAATTAAATATAAT
33019 TTTTT
1 TTTTT
33024 ATTTTATTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
22 12 0.20
23 17 0.29
24 14 0.24
25 16 0.27
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TTTTTTAATTTAATTAAATATAAT
Found at i:33158 original size:36 final size:36
Alignment explanation
Indices: 33000--33158 Score: 101
Period size: 36 Copynumber: 4.4 Consensus size: 36
32990 TAATTTTTTT
* * *
33000 AAATTTAATTAAATATCATTTTTTATTTTATT-AAA
1 AAATATAATTAAATATTATTTTTAATTTTATTAAAA
* * * *
33035 AAATAATAA-TAAAAAATACTTTATATTTTTA-TAAAA
1 AAAT-ATAATTAAATATTA-TTTTTAATTTTATTAAAA
* * * * ****
33071 ACATATAATTAATATTTTAATTTTTAATGTAATTTTTT
1 AAATATAATTAA-ATATT-ATTTTTAATTTTATTAAAA
*
33109 AAATTTAATTAAATATTATTTTTAATTTTATTAAAA
1 AAATATAATTAAATATTATTTTTAATTTTATTAAAA
33145 AAATAATAA-TAAAT
1 AAAT-ATAATTAAAT
33159 CCTTTTTAAT
Statistics
Matches: 87, Mismatches: 29, Indels: 15
0.66 0.22 0.11
Matches are distributed among these distances:
35 15 0.17
36 43 0.49
37 17 0.20
38 12 0.14
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (36 bp):
AAATATAATTAAATATTATTTTTAATTTTATTAAAA
Found at i:33233 original size:103 final size:110
Alignment explanation
Indices: 32974--33239 Score: 361
Period size: 109 Copynumber: 2.5 Consensus size: 110
32964 AATGTTATTT
* * *
32974 TTTTAATTTGTTAATATAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAAT
1 TTTTAATTT-TTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
**
33039 AATAATAAAAAATACTTTATATTTTTATAAAAACATATAATTAATA
65 AATAATAAAAAATACTTTATATAATTATAAAAACATATAATTAATA
33085 TTTTAATTTTTAATGTAA-TTTTTTAAATTTAATTAAATATTATTTTTAATTTTATT-AAAAA-A
1 TTTTAATTTTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAATA
* *
33147 ATAATAATAAATCCTTT-T-TAATT-T-AAAA-A-ATAATTAATA
66 ATAATAAAAAATACTTTATATAATTATAAAAACATATAATTAATA
* *
33186 TTTTAATTTATTCATGTAATTTTTTTAAAATTAATTAAATATTATTTTTTAATT
1 TTTTAATTT-TTAATGTAATTTTTTTAAATTTAATTAAATATTA-TTTTTAATT
33240 ATAAAATAAT
Statistics
Matches: 143, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
101 19 0.13
102 9 0.06
103 27 0.19
104 10 0.07
105 3 0.02
106 1 0.01
107 16 0.11
108 5 0.03
109 36 0.25
110 8 0.06
111 9 0.06
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (110 bp):
TTTTAATTTTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAATA
ATAATAAAAAATACTTTATATAATTATAAAAACATATAATTAATA
Found at i:33283 original size:69 final size:70
Alignment explanation
Indices: 33161--33292 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 70
33151 TAATAAATCC
* * *
33161 TTTTTAATTTAAAAAATAATTAATATTTTAATTTATTCATGTAATTTTTTTAAAATTAATTAAAT
1 TTTTTAATTTAAAAAATAATTAATATATTAATTTATTCATCTAAATTTTTTAAAATTAATTAAAT
33226 ATTAT
66 ATTAT
* * *
33231 TTTTTAATTATAAAATAATAATTAATATATT-A-TTATTTA-CTAAATTTTTTAAATTTCATTAA
1 TTTTTAATT-TAAAA-AATAATTAATATATTAATTTATTCATCTAAATTTTTTAAAATTAATTAA
33293 TTTATAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
69 19 0.35
70 15 0.28
71 6 0.11
72 14 0.26
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (70 bp):
TTTTTAATTTAAAAAATAATTAATATATTAATTTATTCATCTAAATTTTTTAAAATTAATTAAAT
ATTAT
Found at i:34458 original size:13 final size:14
Alignment explanation
Indices: 34442--34478 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
34432 AAAAATTATT
*
34442 TTTTTAAAAATCA-
1 TTTTTAAAAATAAC
34455 TTTTTAAAAATAAC
1 TTTTTAAAAATAAC
34469 TTTTTAAAAA
1 TTTTTAAAAA
34479 ATAAACAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTTTAAAAATAAC
Found at i:34479 original size:15 final size:14
Alignment explanation
Indices: 34431--34482 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
34421 TTTCAATTTA
*
34431 AAAAAATTATTTTTT
1 AAAAAA-TAATTTTT
* *
34446 TAAAAATCATTTTT
1 AAAAAATAATTTTT
34460 -AAAAATAACTTTTT
1 AAAAAATAA-TTTTT
34474 AAAAAATAA
1 AAAAAATAA
34483 ACAGACCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 13 0.42
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAAATAATTTTT
Found at i:39165 original size:79 final size:75
Alignment explanation
Indices: 39026--39168 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 75
39016 TTTTGGAGAT
* * *
39026 AATAACGGGGTTGGAGTATCCCCTCGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTG
1 AATAACGGGGTTGGAGTATCCCCTCGAAAAATCGATGTTTTAGAAATAAAACCAGAGTTGGAGTG
39091 TCCCCTCGAA
66 TCCCCTCGAA
* * * *
39101 AATAACGGGGTTGGAGTATCCCCAATTGTGAAAAGTCGATGTTTTGGAAATAAAATCAGAGTTGG
1 AATAACGGGGTTGGAGTATCCCC---T-CGAAAAATCGATGTTTTAGAAATAAAACCAGAGTTGG
39166 AGT
62 AGT
39169 ATTCCCGATT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 23 0.40
78 1 0.02
79 33 0.58
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (75 bp):
AATAACGGGGTTGGAGTATCCCCTCGAAAAATCGATGTTTTAGAAATAAAACCAGAGTTGGAGTG
TCCCCTCGAA
Found at i:39195 original size:51 final size:51
Alignment explanation
Indices: 39111--39278 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 51
39101 AATAACGGGG
* ** * * *
39111 TTGGAGTATCCCCAATTGTGAAAAGTCGATGTTTTGGAAATAAAATCAGAG
1 TTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTGGAAATAAAATCAGAC
* * * * * *
39162 TTGGAGTATTCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAC
1 TTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTGGAAATAAAATCAGAC
* * * *
39213 TTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGGGA-
1 TTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTGGAAATAAAATC-AGAC
39264 TTGGAGTATCCCCGA
1 TTGGAGTATCCCCGA
39279 GATGAAAAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 95 0.97
52 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTGGAAATAAAATCAGAC
Found at i:41494 original size:27 final size:27
Alignment explanation
Indices: 41456--41509 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
41446 TTCCGACCCC
41456 AAAGATGAAACTTAGCATGATTTCTAA
1 AAAGATGAAACTTAGCATGATTTCTAA
41483 AAAGATGAAACTTAGCATGATTTCTAA
1 AAAGATGAAACTTAGCATGATTTCTAA
41510 TGATTTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (27 bp):
AAAGATGAAACTTAGCATGATTTCTAA
Found at i:41626 original size:20 final size:19
Alignment explanation
Indices: 41601--41715 Score: 131
Period size: 20 Copynumber: 5.8 Consensus size: 19
41591 AAAATGCCTG
*
41601 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
41621 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
* *
41641 AATGTATCGATATAATGAGC
1 AATGTATCGATACAATGA-A
*
41661 AATGTATCGATACAATACAA
1 AATGTATCGATACAAT-GAA
41681 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
*
41700 CAATGTATCGACACAA
1 -AATGTATCGATACAA
41716 ATTATGAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.04
20 80 0.95
21 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:44448 original size:12 final size:12
Alignment explanation
Indices: 44431--44458 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44421 TGGAATATCC
44431 GACGTATGTGGG
1 GACGTATGTGGG
44443 GACGTATGTGGG
1 GACGTATGTGGG
44455 GACG
1 GACG
44459 AATTCCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.11, G:0.50, T:0.21
Consensus pattern (12 bp):
GACGTATGTGGG
Found at i:44940 original size:13 final size:13
Alignment explanation
Indices: 44922--44946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44912 CATAAAATGT
44922 TGTATCGATACAA
1 TGTATCGATACAA
44935 TGTATCGATACA
1 TGTATCGATACA
44947 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44944 original size:33 final size:33
Alignment explanation
Indices: 44902--44966 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
44892 TTCAACAATT
44902 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
44935 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
44967 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:52390 original size:12 final size:13
Alignment explanation
Indices: 52373--52406 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
52363 CCTAATCTTC
52373 ACAAAAAAAA-AA
1 ACAAAAAAAACAA
52385 ACAAAAAAAACAA
1 ACAAAAAAAACAA
52398 A-AAAAAAAA
1 ACAAAAAAAA
52407 GGGAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAACAA
Found at i:52392 original size:9 final size:9
Alignment explanation
Indices: 52378--52403 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
52368 TCTTCACAAA
52378 AAAAAAAAC
1 AAAAAAAAC
52387 AAAAAAAAC
1 AAAAAAAAC
52396 AAAAAAAA
1 AAAAAAAA
52404 AAAGGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:52983 original size:126 final size:126
Alignment explanation
Indices: 52758--53009 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
52748 CCACACCACA
52758 TCTCTGCATGTGTCATTTAGTTGATAATATTTGATAACTGATTAAAATCTGTATCAGGATATCTT
1 TCTCTGCATGTGTCATTTAGTTGATAATATTTGATAACTGATTAAAATCTGTATCAGGATATCTT
52823 GGTATTACATAACAGGCAAGAAAAGTGAAGGAGTTCTGCTCACGCCTCGATTGGCAAGAGT
66 GGTATTACATAACAGGCAAGAAAAGTGAAGGAGTTCTGCTCACGCCTCGATTGGCAAGAGT
52884 TCTCTGCATGTGTCATTTAGTTGATAATATTTGATAACTGATTAAAATCTGTATCAGGATATCTT
1 TCTCTGCATGTGTCATTTAGTTGATAATATTTGATAACTGATTAAAATCTGTATCAGGATATCTT
52949 GGTATTACATAACAGGCAAGAAAAGTGAAGGAGTTCTGCTCACGCCTCGATTGGCAAGAGT
66 GGTATTACATAACAGGCAAGAAAAGTGAAGGAGTTCTGCTCACGCCTCGATTGGCAAGAGT
53010 CATAAACCTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (126 bp):
TCTCTGCATGTGTCATTTAGTTGATAATATTTGATAACTGATTAAAATCTGTATCAGGATATCTT
GGTATTACATAACAGGCAAGAAAAGTGAAGGAGTTCTGCTCACGCCTCGATTGGCAAGAGT
Found at i:53519 original size:30 final size:31
Alignment explanation
Indices: 53483--53564 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
53473 ATACCTTTTT
53483 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
53513 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
53544 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
53565 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:53606 original size:61 final size:62
Alignment explanation
Indices: 53541--54253 Score: 626
Period size: 61 Copynumber: 11.0 Consensus size: 62
53531 GCATTTTTTC
* *
53541 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
* * * *
53602 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
* * * * * *
53664 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCCT
*
53726 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACC-----
53790 CT
61 CT
*
53792 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACC--
53857 TTTCT
61 ---CT
* *
53862 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-CT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTC-CTTTT-AAAGCCCACAACTCCGTGGCACCC
53926 T
62 T
* * * *
53927 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCACCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCA-C--C--
53992 CT
61 CT
* * * *
53994 TTTCAAAGCCCACAACTCTGTGGCACCTTCTT-CTTTTCAAAGCCCACGACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-AAAGCCCACAACTCCGTGGCAC-CCT
** *
54058 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTCCT-AAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C---
*
54122 TT
61 CT
* * *
54124 TCTTCTAAGCCCACAACTCCGTGGCA-C-----CCTTTT-AAGCCCATAACTTCGTGGCACTTTT
1 T-TT-AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC----
*
54182 TTCAT
60 --CCT
* * * *
54187 TTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTTAAAGCCCACAACTCCGTGGCACC--TTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
54251 TTT
1 TTT
54254 TCCCTTTTAA
Statistics
Matches: 562, Mismatches: 48, Indels: 81
0.81 0.07 0.12
Matches are distributed among these distances:
60 3 0.01
61 137 0.24
62 97 0.17
63 50 0.09
64 38 0.07
65 5 0.01
66 12 0.02
67 31 0.06
68 71 0.13
69 10 0.02
70 51 0.09
71 57 0.10
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCT
Found at i:53648 original size:34 final size:33
Alignment explanation
Indices: 53518--54286 Score: 535
Period size: 34 Copynumber: 23.6 Consensus size: 33
53508 GTCTCAAAGT
* * *
53518 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
53549 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
53582 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
53610 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
53644 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
53672 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
53706 CCACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* *
53733 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
53767 CCACAACTCCGTGGCACCTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
53800 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
53837 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
53871 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
53908 CCACGACTCCGTGGCAC----TT-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
53935 CCACAACTCCGTGGCACCTTCTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * * *
53969 CCACAGCTCCATGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
54003 CCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT--AAGC
* * *
54037 CCACGACTCCGTGGCAC--TCTT-T-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
*
54066 CCACAACTCCGTGGCACTCTTTTTC-CTCCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCT-TTAAGC
*
54100 CCACAACTCTGTGGCACTCTTTTT-TCTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
54134 CCACAACTCCGTGGCAC-----CCT-TTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * * *
54161 CCATAACTTCGTGGCACTTTTTTCATTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
54195 CCACAACTCCGTGGCACCTTTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCA-CTTTTTTCTC-TTT-AAGC
* *
54231 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTTAAGC
54266 CCACAACTCCGTGGCATCTTT
1 CCACAACTCCGTGGCA-CTTT
54287 CTCCCTTCCT
Statistics
Matches: 610, Mismatches: 63, Indels: 126
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.00
27 69 0.11
28 42 0.07
29 24 0.04
31 20 0.03
32 16 0.03
33 59 0.10
34 245 0.40
35 49 0.08
36 43 0.07
37 42 0.07
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:53737 original size:27 final size:27
Alignment explanation
Indices: 53699--53750 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
53689 TTTTTTCATC
*
53699 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
53726 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
53751 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:54039 original size:166 final size:167
Alignment explanation
Indices: 53756--54253 Score: 495
Period size: 165 Copynumber: 3.0 Consensus size: 167
53746 GCACCTTTTT
* **
53756 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTT
1 CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCATGGCACTCTT
* *
53821 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGC
66 CTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGC
53886 ACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA
130 ACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA
*
53924 CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAGCTCCATGGCAC-CT
1 CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCATGGCACTCT
* *
53988 TCTT-CTTTTCAAAGCCCACAACTCTGTGGCACCTTCTTCT-TTTCAAAGCCCACGACTCCGTGG
65 TCTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTT-AAAGCCCACAACTCCGTGG
*
54051 CA--C----TCT-TTTT-AAAGCCCACAACTCCGTGGCA
129 CACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA
* * * * *
54082 CTCTTTTTCCTCCTAAGCCCACAACTCTGTGGCACTCTTTTTTCTTCT-AAGCCCACAACTCCGT
1 --C-TTTT--T--AAAGCCCACAACTCCGTGGCAC-C-TTCTTCTTTTAAAGCCCACAACTCCAT
* * * * * *
54146 GGCA-----C--CCTTTT--AAGCCCATAACTTCGTGGCACTTTTTTCAT-TTTTAAGTCCACAA
57 GGCACTCTTCTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC-TGTTTAAAGCCCACAA
* *
54201 CTCCGTGGCAC-CTTTTTTTTCTTTT-AAAGCCCACAACTCCGTGGCA
121 CTCCGTGGCACTC-TTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA
54247 CTCTTTT
1 CT-TTTT
54254 TCCCTTTTAA
Statistics
Matches: 285, Mismatches: 24, Indels: 49
0.80 0.07 0.14
Matches are distributed among these distances:
158 61 0.21
159 9 0.03
160 9 0.03
161 6 0.02
162 1 0.00
163 5 0.02
164 3 0.01
165 66 0.23
166 58 0.20
167 5 0.02
168 39 0.14
169 23 0.08
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (167 bp):
CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCATGGCACTCTT
CTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTGTTTAAAGCCCACAACTCCGTGGCA
CTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA
Found at i:54293 original size:34 final size:35
Alignment explanation
Indices: 54150--54286 Score: 161
Period size: 35 Copynumber: 3.9 Consensus size: 35
54140 CTCCGTGGCA
* *
54150 CCCTTTTAAGCCCATAACTTCGTGGCA-CTTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTT
** * *
54184 CATTTTTAAGTCCACAACTCCGTGGCACCTTTTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTT
**
54219 TTCTTTTAAAGCCCACAACTCCGTGGCA-CTCTTTTT
1 CCCTTTT-AAGCCCACAACTCCGTGGCATCT-TTTTT
*
54255 CCCTTTTAAGTCCACAACTCCGTGGCATCTTT
1 CCCTTTTAAGCCCACAACTCCGTGGCATCTTT
54287 CTCCCTTCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
34 22 0.25
35 34 0.39
36 31 0.36
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.39
Consensus pattern (35 bp):
CCCTTTTAAGCCCACAACTCCGTGGCATCTTTTTT
Found at i:54300 original size:71 final size:70
Alignment explanation
Indices: 54157--54306 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 70
54147 GCACCCTTTT
* * * * **
54157 AAGCCCATAACTTCGTGGCACTTTTTTCATTTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTC
1 AAGCCCACAACTCCGTGGCACTTTTTTCACTTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
*
54222 TTTTA
66 TTCTA
* *
54227 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATC-TTTCTCC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCACTTTTAAGTCCACAACTCCGTGGCACCTTTTCTCC
54291 CTTCCTA
65 CTT-CTA
54298 AAGCCCACA
1 AAGCCCACA
54307 CAAGTCGGTG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
70 27 0.39
71 42 0.61
ACGTcount: A:0.21, C:0.33, G:0.11, T:0.35
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCACTTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
TTCTA
Found at i:54334 original size:33 final size:35
Alignment explanation
Indices: 54291--54360 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
54281 ATCTTTCTCC
54291 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
54325 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
54359 CT
1 CT
54361 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:54424 original size:49 final size:49
Alignment explanation
Indices: 54360--55119 Score: 913
Period size: 49 Copynumber: 15.8 Consensus size: 49
54350 GCAACCCTTC
* * * *
54360 TAAGCCCAATATAGCTGGCCTTGAGTCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
54409 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * * *
54452 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* * *
54504 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
54553 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
54596 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
54645 TATGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
54688 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* * *
54740 TAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
54789 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
54838 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
54887 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
54936 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA-CCTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
54984 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
55027 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* *
55079 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
55120 CTTTTACATC
Statistics
Matches: 630, Mismatches: 48, Indels: 65
0.85 0.06 0.09
Matches are distributed among these distances:
43 154 0.24
45 4 0.01
47 1 0.00
48 45 0.07
49 304 0.48
50 8 0.01
52 114 0.18
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:54625 original size:144 final size:142
Alignment explanation
Indices: 54360--55114 Score: 1026
Period size: 144 Copynumber: 5.3 Consensus size: 142
54350 GCAACCCTTC
* * * * *
54360 TAAGCCCAATATAGCTGGCCTTGAGTCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
54425 GGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
54490 ACCTTTTCCATCTT
131 ACC-TTT-CATCTT
* *
54504 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATTTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
54569 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
*
54634 ATC-TTCATCTT
131 ACCTTTCATCTT
* *
54645 TATGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
54704 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCCTTGACTCAG
66 GGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
54769 CACATTGGCACC-TTCATCTT
122 CATATTGGCACCTTTCATCTT
*
54789 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * *
54854 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
54919 ATTGGCACC-TTCATCTT
125 ATTGGCACCTTTCATCTT
* *
54936 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
55000 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
55065 ACCTTTTCCATCTT
131 ACC-TTT-CATCTT
*
55079 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
55115 ACATCCTTTT
Statistics
Matches: 556, Mismatches: 37, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
135 40 0.07
137 1 0.00
140 40 0.07
141 43 0.08
142 6 0.01
143 40 0.07
144 208 0.37
146 44 0.08
147 94 0.17
148 1 0.00
150 39 0.07
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (142 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
ACCTTTCATCTT
Found at i:54778 original size:236 final size:235
Alignment explanation
Indices: 54355--55070 Score: 1045
Period size: 236 Copynumber: 3.0 Consensus size: 235
54345 CGGTGGCAAC
* *
54355 CCTTCTAAGCCCAATATAGCTGGCCTTGAGTCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
* *
54420 TAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
54485 TTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
130 TTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA-
54550 TTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
194 TTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
* *
54592 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTATGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
54657 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
54722 TGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATC
131 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT-
* *
54787 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
195 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
* * * *
54828 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTC
*
54893 CAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
60 CAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTT
* * * *
54958 GAATTAGCACATTGGCACC---T-CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
119 GAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT
* *
55019 GGCA-C--C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCA
184 GGCACCTTCATTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
55066 CCTTT
1 CCTTT
55071 TCCATCTTTA
Statistics
Matches: 439, Mismatches: 27, Indels: 31
0.88 0.05 0.06
Matches are distributed among these distances:
232 4 0.01
234 1 0.00
235 1 0.00
236 220 0.50
237 4 0.01
238 37 0.08
240 1 0.00
241 1 0.00
242 84 0.19
243 1 0.00
244 42 0.10
245 1 0.00
246 1 0.00
248 41 0.09
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (235 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATT
TTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:55154 original size:56 final size:52
Alignment explanation
Indices: 55024--55162 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
55014 ACATTGGCAC
* *
55024 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
55076 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTACATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CCTTTT-C--CAT
* * * *
55132 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
55163 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 6 0.08
54 1 0.01
56 28 0.39
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:55772 original size:12 final size:12
Alignment explanation
Indices: 55755--55782 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
55745 TGGAATATCC
55755 GACGTATGTGGG
1 GACGTATGTGGG
55767 GACGTATGTGGG
1 GACGTATGTGGG
55779 GACG
1 GACG
55783 AATTCCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.11, G:0.50, T:0.21
Consensus pattern (12 bp):
GACGTATGTGGG
Found at i:56264 original size:13 final size:13
Alignment explanation
Indices: 56246--56270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56236 CATAAAATGT
56246 TGTATCGATACAA
1 TGTATCGATACAA
56259 TGTATCGATACA
1 TGTATCGATACA
56271 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:56268 original size:33 final size:33
Alignment explanation
Indices: 56226--56290 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
56216 TTCAACAATT
56226 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
56259 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
56291 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:61773 original size:20 final size:20
Alignment explanation
Indices: 61750--61799 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
61740 ATTCATAGAA
61750 TATCGATACAAAGCAATTTG
1 TATCGATACAAAGCAATTTG
**
61770 TATCGATACTTAGCAATTTG
1 TATCGATACAAAGCAATTTG
*
61790 CATCGATACA
1 TATCGATACA
61800 TCTGGATGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACAAAGCAATTTG
Found at i:61917 original size:25 final size:22
Alignment explanation
Indices: 61898--61940 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61888 TACATTAAGT
61898 ATTT-TTACTTTGAAAAACATTA
1 ATTTATTAC-TTGAAAAACATTA
*
61920 ATTTATTGCTTGAAAAACATT
1 ATTTATTACTTGAAAAACATT
61941 TAGACTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTATTACTTGAAAAACATTA
Found at i:62669 original size:20 final size:20
Alignment explanation
Indices: 62644--62711 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
62634 AGAATTGATT
62644 ACCTTTAAGGCAAAGGTATA
1 ACCTTTAAGGCAAAGGTATA
* * *
62664 ACCTTTAAGGCAAAGAATTGCTT
1 ACCTTTAAGGCAAAG--GT-ATA
62687 ACCTTTAAGGCAAAGGTATA
1 ACCTTTAAGGCAAAGGTATA
62707 ACCTT
1 ACCTT
62712 ACAAACCTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 21 0.54
21 1 0.03
22 1 0.03
23 16 0.41
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
ACCTTTAAGGCAAAGGTATA
Found at i:62694 original size:23 final size:23
Alignment explanation
Indices: 62633--62701 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
62623 AATTCACTAC
62633 AAGAATTGATTACCTTTAAGGCA
1 AAGAATTGATTACCTTTAAGGCA
* *
62656 AAG--GT-ATAACCTTTAAGGCA
1 AAGAATTGATTACCTTTAAGGCA
*
62676 AAGAATTGCTTACCTTTAAGGCA
1 AAGAATTGATTACCTTTAAGGCA
62699 AAG
1 AAG
62702 GTATAACCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 17 0.45
21 1 0.03
22 1 0.03
23 19 0.50
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (23 bp):
AAGAATTGATTACCTTTAAGGCA
Found at i:63280 original size:20 final size:20
Alignment explanation
Indices: 63255--63312 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
63245 CTGCTAGTTT
*
63255 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
* *
63275 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGTA
63294 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
63313 TCGATATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:63938 original size:21 final size:19
Alignment explanation
Indices: 63892--63938 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
63882 AGGCTCTTGT
63892 TAAAAAATTTTCCCTTTGA
1 TAAAAAATTTTCCCTTTGA
*
63911 AACAAAAATTTCTCCCCTTTGA
1 TA-AAAAATTT-T-CCCTTTGA
63933 TAAAAA
1 TAAAAA
63939 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.35
21 5 0.22
22 9 0.39
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (19 bp):
TAAAAAATTTTCCCTTTGA
Found at i:65670 original size:22 final size:21
Alignment explanation
Indices: 65634--65684 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65624 TTTTGTTGAT
65634 AATTTTG-A-TGAAAAATGAAG
1 AATTTTGAAGTGAAAAAT-AAG
*
65654 TATTTTGAAGTGAAAAATAAG
1 AATTTTGAAGTGAAAAATAAG
*
65675 AAATTTGAAG
1 AATTTTGAAG
65685 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (21 bp):
AATTTTGAAGTGAAAAATAAG
Found at i:78165 original size:32 final size:33
Alignment explanation
Indices: 78121--78190 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
78111 ACATTTTACT
*
78121 ATGTATCGATACATTATATCGATACAATGT-CC
1 ATGTATCAATACATTATATCGATACAATGTCCC
*
78153 ATGTATCAATACATTGTATCGATACAATGTCCC
1 ATGTATCAATACATTATATCGATACAATGTCCC
78186 ATGTA
1 ATGTA
78191 CTGCCAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 28 0.80
33 7 0.20
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
ATGTATCAATACATTATATCGATACAATGTCCC
Found at i:78248 original size:19 final size:20
Alignment explanation
Indices: 78221--78272 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
78211 TACAATTCTT
* *
78221 CATGGATCGATACAATG-AA
1 CATGTATCGATACAAAGCAA
*
78240 CATGTATCGATATAAAGCAA
1 CATGTATCGATACAAAGCAA
*
78260 TATGTATCGATAC
1 CATGTATCGATAC
78273 TTCTGGACCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:79594 original size:19 final size:20
Alignment explanation
Indices: 79570--79623 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
79560 ACATTATGCT
**
79570 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGGACAA
79589 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
79609 TTGTATCGATACATG
1 TTGTATCGATACATG
79624 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:87303 original size:52 final size:52
Alignment explanation
Indices: 87225--87353 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
87215 CGAAATATGA
87225 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
87277 AAATTTGCCTGCATGAATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
87329 AAACTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
87354 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:87453 original size:19 final size:18
Alignment explanation
Indices: 87429--87526 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
87419 TAGCTTACAT
87429 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
87448 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
87461 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
87480 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
87493 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
87513 TGTATCGATACAAA
1 TGTATCGATACAAA
87527 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:87464 original size:32 final size:32
Alignment explanation
Indices: 87424--87524 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
87414 GGCAGTAGCT
*
87424 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
87456 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
87488 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
87521 TACA
1 TACA
87525 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:87466 original size:13 final size:13
Alignment explanation
Indices: 87448--87504 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
87438 ACAAAACTTA
87448 TGTATCGATACAT
1 TGTATCGATACAT
87461 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
87479 ATGTATCGATACAT
1 -TGTATCGATACAT
87493 TGTATCGATACA
1 TGTATCGATACA
87505 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:88297 original size:52 final size:50
Alignment explanation
Indices: 88239--88362 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 50
88229 CAATGTGCTG
*
88239 AAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTC
1 AAGGCCAGCTACATTGGACTTAAAGAT-G-AAAGGTGCCAATATGCTGATTC
* *
88291 AAGGCCAGCTATATTGGAC-T-----T-AAAGGTGCCAATGTGCTGATTC
1 AAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTC
88334 AAGGCCAGCTACATTGGACTTAAAGATGA
1 AAGGCCAGCTACATTGGACTTAAAGATGA
88363 TGAGGACAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
43 39 0.64
44 1 0.02
46 1 0.02
49 1 0.02
50 1 0.02
51 1 0.02
52 17 0.28
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (50 bp):
AAGGCCAGCTACATTGGACTTAAAGATGAAAGGTGCCAATATGCTGATTC
Found at i:88330 original size:43 final size:43
Alignment explanation
Indices: 88269--88358 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
88259 TAAAGATGGA
*
88269 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
88312 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
88355 AAAG
1 AAAG
88359 ATGATGAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:88553 original size:218 final size:214
Alignment explanation
Indices: 88104--88577 Score: 741
Period size: 214 Copynumber: 2.2 Consensus size: 214
88094 TTTGCAATGG
* * * * * **
88104 GCCACTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAGATGATGAGGATGAAGAGTGATAAA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGACAAAGAGTGATAAA
* * * **
88169 AGGACCGATACATTGATTCACGGCCAATGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAATG
66 AGGACCAATACATCGATTCACGACCAACAATATTGGGTTCAAAGATGAGAAAAAGGATGTCAATG
**
88234 TGCTGAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
131 TGCTGAAGGCCAGCTACATTGAACTTAAAGACAGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
88299 CTATATTGGACTTAAAGGT
196 CTATATTGGACATAAAGGT
88318 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGACAAAGAGTGATAAA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGACAAAGAGTGATAAA
* * *
88383 AGGACCAATACGTCGATTCACGACCAACAATATTGGGTTTAAAGATGAGAAAAATGATGTCAATG
66 AGGACCAATACATCGATTCACGACCAACAATATTGGGTTCAAAGATGAGAAAAAGGATGTCAATG
*
88448 TGCTGATTCAAGGCCAGTTACATTGAACTTAAAGACAGAAAAGGTGCCAATATGCTGATTCAAGG
131 TGCTG----AAGGCCAGCTACATTGAACTTAAAGACAGAAAAGGTGCCAATATGCTGATTCAAGG
88513 CCAGCTATATTGGACATAAAGGT
192 CCAGCTATATTGGACATAAAGGT
88536 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
88578 AGAAGGTGCC
Statistics
Matches: 237, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
214 120 0.51
218 117 0.49
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (214 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGAGGACAAAGAGTGATAAA
AGGACCAATACATCGATTCACGACCAACAATATTGGGTTCAAAGATGAGAAAAAGGATGTCAATG
TGCTGAAGGCCAGCTACATTGAACTTAAAGACAGAAAAGGTGCCAATATGCTGATTCAAGGCCAG
CTATATTGGACATAAAGGT
Found at i:88603 original size:49 final size:49
Alignment explanation
Indices: 88443--88765 Score: 349
Period size: 43 Copynumber: 6.9 Consensus size: 49
88433 AAAATGATGT
* * *
88443 CAATGTGCTGATTCAAGGCCAGTTACATTGAACTTAAAGACAGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-AG--AAGGTGC
* *
88495 CAATATGCTGATTCAAGGCCAGCTATATTGGAC----A-TA-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
*
88538 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
88587 CAATATGCTGATTCAAGGCCAGCTATATTGGA-TT----TA-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
88630 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* * *
88679 CAATATGCTAACTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
* *
88722 CAATGTGCTGATTCAAGGACAGCGATATTGGACTTAGAAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGAAGA
88766 CGCCACCAAC
Statistics
Matches: 227, Mismatches: 25, Indels: 40
0.78 0.09 0.14
Matches are distributed among these distances:
43 112 0.49
44 3 0.01
46 1 0.00
47 1 0.00
48 4 0.02
49 76 0.33
50 1 0.00
52 29 0.13
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAGAAGGTGC
Found at i:88617 original size:92 final size:92
Alignment explanation
Indices: 88443--88765 Score: 520
Period size: 92 Copynumber: 3.5 Consensus size: 92
88433 AAAATGATGT
* *
88443 CAATGTGCTGATTCAAGGCCAGTTACATTGAACTTAAAGACAGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG--AAGGTGCCAATATGCTGATT
*
88508 CAAGGCCAGCTATATTGGACATAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
88538 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
88603 GGCCAGCTATATTGGATTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * *
88630 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTAACTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
88695 GGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * *
88722 CAATGTGCTGATTCAAGGACAGCGATATTGGACTTAGAAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGAAGA
88766 CGCCACCAAC
Statistics
Matches: 215, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
92 169 0.79
93 6 0.03
94 2 0.01
95 38 0.18
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:88821 original size:29 final size:28
Alignment explanation
Indices: 88767--88849 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
88757 AGAAGAAGAC
88767 GCCACCAACTTGTGTGGGCTTTTGAAAGGGTT
1 GCCACCAACTTGTGT--GCTTTTGAAA--GTT
88799 G-CACCAACTTGTGTGCTTTTGAAAGTT
1 GCCACCAACTTGTGTGCTTTTGAAAGTT
** *
88826 GCCACTGACTTGTGGGCTTTTGAA
1 GCCACCAACTTGTGTGCTTTTGAA
88850 GAGATACCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.09
28 19 0.40
29 10 0.21
31 13 0.28
32 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (28 bp):
GCCACCAACTTGTGTGCTTTTGAAAGTT
Found at i:88897 original size:59 final size:59
Alignment explanation
Indices: 88825--89261 Score: 560
Period size: 59 Copynumber: 7.4 Consensus size: 59
88815 TTTTGAAAGT
* *
88825 TGCCACTGACTTGTGGGCTTTTGAAGAGATACCATTGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
* ** *
88884 TGCCACT-ACCTTGTGGGCTTTGGAAAAGATGGCACTGACTTGTGGGTTTTGGAAAAGGG
1 TGCCACTGA-CTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
* *
88943 TGCCATTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTAGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
*
89002 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
* * * * *
89061 TGCTACTGACTTATGGG-ATTTGAAAAAGATGCCACTGACTTGTGGGCTTTGGAAAA-GA
1 TGCCACTGACTTGTGGGCTTTTG-AAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
* * * * * * *
89119 TGCCACTAACTTGTGGGCTTTGGAAAAAGGTGCCACTCACTTGTGGGCTTTTGAAAA-GA
1 TGCCACTGACTTGTGGGCTTTTG-AAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
* * * * * *
89178 TACCACTGACTTGTGGGCTTTGGAAAAGGGTTCCACTGACTTGTGGGCTTT-GAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAA-GATACCACTGACTTGTGGGCTTTGGAAAAGGG
89237 TGCCACTGACTTGTGGGCTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
89262 GGGTGAGGAA
Statistics
Matches: 337, Mismatches: 35, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
58 29 0.09
59 307 0.91
60 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (59 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGG
Found at i:89044 original size:147 final size:144
Alignment explanation
Indices: 88805--89261 Score: 594
Period size: 147 Copynumber: 3.1 Consensus size: 144
88795 GGTTGCACCA
* * * * * * *
88805 ACTTGTGTGCTTTTG-AAAGTTGCCACTGACTTGTGGGCTTTTGAAGAGATACCATTGACTTGTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGTGCCACTGACTTGTG
* * * * *
88869 GGCTTTGGAAAAGGGTGCCACTACCTTGTGGGCTTTGGAAAAGATGGCACTGACTTGTGGGTTTT
66 GGCTTTTGAAAA-GATACCACTAACTTGTGGGCTTTGGAAAAG-TGGCACTGACTTGTGGGATTT
* * *
88934 GGAAAAGGGTGCCATTG
129 -GAAAAAGATGCCACTG
* *
88951 ACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTAGGCTTTGGAAAAGGGTGCCACTGACTTGT
1 ACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAA-GGTGCCACTGACTTGT
* *
89016 GGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGGTGCTACTGACTTATGGGATT
65 GGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGTG-GC-ACTGACTTGTGGGATT
89081 TGAAAAAGATGCCACTG
128 TGAAAAAGATGCCACTG
* * *
89098 ACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTGGAAAAAGGTGCCACTCACTTGT
1 ACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGG-AAAAGGTGCCACTGACTTGT
* *
89163 GGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAG-GGTTCCACTGACTTGTGGGCT
65 GGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGTGG---CACTGACTTGTGGGAT
89227 TTGAAAAAGATGCCACTG
127 TTGAAAAAGATGCCACTG
89245 ACTTGTGGGCTTTTGAA
1 ACTTGTGGGCTTTTGAA
89262 GGGTGAGGAA
Statistics
Matches: 275, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
145 1 0.00
146 16 0.06
147 213 0.77
148 45 0.16
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (144 bp):
ACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGTGCCACTGACTTGTG
GGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGTGGCACTGACTTGTGGGATTTGA
AAAAGATGCCACTG
Found at i:90715 original size:1 final size:1
Alignment explanation
Indices: 90711--90797 Score: 84
Period size: 1 Copynumber: 87.0 Consensus size: 1
90701 GTTGTTGTTG
* * * * * * *
90711 TTTTTGTTTTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* **
90776 TTTATTTGGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
90798 GTGGAGGACG
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.01, C:0.00, G:0.10, T:0.89
Consensus pattern (1 bp):
T
Found at i:90731 original size:18 final size:17
Alignment explanation
Indices: 90708--90797 Score: 117
Period size: 18 Copynumber: 4.9 Consensus size: 17
90698 TTTGTTGTTG
90708 TTGTTTTTGTTTTTTTTT
1 TTGTTTTT-TTTTTTTTT
90726 TTGTTTTTTTTTTGTTTT
1 TTGTTTTTTTTTT-TTTT
90744 TTGTTTTTTGTTTTTTTTT
1 TTG-TTTTT-TTTTTTTTT
90763 TTGTTTTTTTTTGTTTATT
1 TTGTTTTTTTTT-TTT-TT
*
90782 TGGTTTTTTTTTTTTT
1 TTGTTTTTTTTTTTTT
90798 GTGGAGGACG
Statistics
Matches: 66, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
17 10 0.15
18 26 0.39
19 25 0.38
20 5 0.08
ACGTcount: A:0.01, C:0.00, G:0.11, T:0.88
Consensus pattern (17 bp):
TTGTTTTTTTTTTTTTT
Found at i:90752 original size:37 final size:35
Alignment explanation
Indices: 90696--90797 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 35
90686 ATCCGGACCC
90696 TTTTTGTTGTTGTTGTTTTTGTTTTTTTTTTTGTTTTT
1 TTTTTGTT-TT-TTGTTTTTGTTTTTTTTTTTG-TTTT
90734 TTTTTGTTTTTTGTTTTTTGTTTTTTTTTTTGTTTT
1 TTTTTGTTTTTTG-TTTTTGTTTTTTTTTTTGTTTT
*
90770 TTTTTGTTTATTTGGTTTT-TTTTTTTTT
1 TTTTTGTTT-TTTGTTTTTGTTTTTTTTT
90798 GTGGAGGACG
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
35 9 0.15
36 20 0.33
37 24 0.39
38 8 0.13
ACGTcount: A:0.01, C:0.00, G:0.13, T:0.86
Consensus pattern (35 bp):
TTTTTGTTTTTTGTTTTTGTTTTTTTTTTTGTTTT
Found at i:104694 original size:52 final size:52
Alignment explanation
Indices: 104609--104737 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
104599 CGAAATATGA
104609 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
104661 AAATTTGCTTGCATATATCGATATATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
104713 AAACTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
104738 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:104824 original size:19 final size:19
Alignment explanation
Indices: 104800--104884 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
104790 TAGCTTACAT
104800 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
104819 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
104838 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
104851 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
104871 TGTATCGATACAAA
1 TGTATCGATACAAA
104885 TCGTTGAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
16 2 0.04
19 30 0.53
20 13 0.23
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:104856 original size:13 final size:13
Alignment explanation
Indices: 104838--104862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104828 ACAACACTTA
104838 TGTATCGATACAT
1 TGTATCGATACAT
104851 TGTATCGATACA
1 TGTATCGATACA
104863 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:104860 original size:32 final size:33
Alignment explanation
Indices: 104819--104882 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
104809 ACAAAACTTA
104819 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
104851 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
104883 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:105355 original size:13 final size:13
Alignment explanation
Indices: 105337--105361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105327 CATTATGCTT
105337 TGTATCGATACAA
1 TGTATCGATACAA
105350 TGTATCGATACA
1 TGTATCGATACA
105362 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:105361 original size:33 final size:32
Alignment explanation
Indices: 105316--105380 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
105306 ACACACCCAG
*
105316 ATGTATCAATACAT-TATGCTTTGTATCGATACA
1 ATGTATCAATACATGT-T-CATTGTATCGATACA
*
105349 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCAATACATGTTCATTGTATCGATACA
105381 TGGACAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
ATGTATCAATACATGTTCATTGTATCGATACA
Found at i:105392 original size:20 final size:20
Alignment explanation
Indices: 105346--105402 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
105336 TTGTATCGAT
*
105346 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
105365 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
105384 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
105403 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:105456 original size:20 final size:19
Alignment explanation
Indices: 105431--105484 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
105421 CTACCACTGT
105431 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
105451 TTGTATCGATACAAGATGAA
1 TTGTATCGATACATGA-GAA
105471 TTGTATCGATACAT
1 TTGTATCGATACAT
105485 TACTTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:111671 original size:13 final size:13
Alignment explanation
Indices: 111653--111678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111643 CAATTTTTTG
111653 TGTATCGATACAT
1 TGTATCGATACAT
111666 TGTATCGATACAT
1 TGTATCGATACAT
111679 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:111690 original size:32 final size:33
Alignment explanation
Indices: 111633--111696 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
111623 TACAAGCCAA
**
111633 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
111666 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
111697 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:116950 original size:13 final size:13
Alignment explanation
Indices: 116932--116957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116922 CAATTTTTTG
116932 TGTATCGATACAT
1 TGTATCGATACAT
116945 TGTATCGATACAT
1 TGTATCGATACAT
116958 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116969 original size:32 final size:33
Alignment explanation
Indices: 116912--116975 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
116902 TACAAGCCAA
**
116912 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
116945 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
116976 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:118377 original size:15 final size:15
Alignment explanation
Indices: 118357--118392 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
118347 CTAGTTCGAT
*
118357 AATTTTCTTTTCAAG
1 AATTTTATTTTCAAG
*
118372 AATTTTATTTTCAAT
1 AATTTTATTTTCAAG
118387 AATTTT
1 AATTTT
118393 TGATTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (15 bp):
AATTTTATTTTCAAG
Found at i:120369 original size:20 final size:20
Alignment explanation
Indices: 120344--120400 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
120334 TATTGTTAGT
120344 TTCATGTATTGATACAATTC
1 TTCATGTATTGATACAATTC
* * *
120364 TTCATGTATCGAGACAA-TG
1 TTCATGTATTGATACAATTC
**
120383 AGCATGTATTGATACAAT
1 TTCATGTATTGATACAAT
120401 GTATCGATAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TTCATGTATTGATACAATTC
Found at i:121392 original size:33 final size:33
Alignment explanation
Indices: 121330--121394 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
121320 TACCACTATT
* *
121330 TGTATCGATACATGGCATAATGTACCGATACAA
1 TGTATCGATACATGGAAGAATGTACCGATACAA
*
121363 TGTATCGATACAT-GAAGAATTGTATCGATACA
1 TGTATCGATACATGGAAGAA-TGTACCGATACA
121395 CTGCATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (33 bp):
TGTATCGATACATGGAAGAATGTACCGATACAA
Found at i:125293 original size:20 final size:20
Alignment explanation
Indices: 125268--125323 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
125258 TTTTTACCCA
*
125268 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTATC
* * *
125288 AATGTATCGATGCATGTATG
1 AATGTATCGATACATTTATC
125308 AATGTATCGATACATT
1 AATGTATCGATACATT
125324 CTGTCTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTATC
Found at i:135352 original size:20 final size:20
Alignment explanation
Indices: 135329--135413 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
135319 AAGCACCAAG
135329 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
135349 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
135379 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
135400 ATGTATCGATACAT
1 ATGTATCGATACAT
135414 CTAGTTAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
20 27 0.50
21 2 0.04
24 5 0.09
27 5 0.09
30 2 0.04
31 13 0.24
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:136187 original size:13 final size:13
Alignment explanation
Indices: 136169--136193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136159 ATTACTCAAA
136169 TGTATCGATACAT
1 TGTATCGATACAT
136182 TGTATCGATACA
1 TGTATCGATACA
136194 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:136258 original size:52 final size:52
Alignment explanation
Indices: 136202--136326 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
136192 CACTGATCTT
*
136202 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
136254 TGTATCGATACATGCAGGCAAATTTGCCCAGGTGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
136306 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
136327 TTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:146692 original size:12 final size:12
Alignment explanation
Indices: 146675--146737 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
146665 TCTTTTGTAC
146675 CAAAAAAACAAA
1 CAAAAAAACAAA
*
146687 C-AAAAAA-AAC
1 CAAAAAAACAAA
146697 CAAGAAAAA-AAA
1 CAA-AAAAACAAA
*
146709 -TAAAAAACAAA
1 CAAAAAAACAAA
*
146720 CAAACAAACAAA
1 CAAAAAAACAAA
146732 CAAAAA
1 CAAAAA
146738 GGGGTCTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 8 0.20
11 11 0.27
12 22 0.54
ACGTcount: A:0.81, C:0.16, G:0.02, T:0.02
Consensus pattern (12 bp):
CAAAAAAACAAA
Found at i:148087 original size:29 final size:28
Alignment explanation
Indices: 147980--148216 Score: 235
Period size: 28 Copynumber: 8.1 Consensus size: 28
147970 CTAGAACATT
*
147980 CATCTCTTT-AAAGCCCACAGGTCAGTGG
1 CATC-CTTTCAAAGCCCACAAGTCAGTGG
*
148008 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
148036 CATCCTTTCAAAGCCCACAAGTCAATGG
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
*
148064 CAT-CTCTTCAAAAGACCACAAGTCAGTGG
1 CATCCT-TTC-AAAGCCCACAAGTCAGTGG
* * * *
148093 CACCCTTTCAGAGCCCATAAGTCAGTGA
1 CATCCTTTCAAAGCCCACAAGTCAGTGG
148121 CATACCCTTTCAAAGCCCACAAGTCAGTGG
1 CAT--CCTTTCAAAGCCCACAAGTCAGTGG
* * **
148151 CACCCTTTCTAAGCCCACACAAGTTGGTGG
1 CATCCTTTCAAAG-CC-CACAAGTCAGTGG
* *
148181 CAACTCTTTTCAAAGCTCACACAAGTTAGTGG
1 C-A-TCCTTTCAAAGC-C-CACAAGTCAGTGG
148213 CATC
1 CATC
148217 TTTTTTTTAA
Statistics
Matches: 175, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.03
28 79 0.45
29 24 0.14
30 40 0.23
31 3 0.02
32 23 0.13
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:148108 original size:57 final size:55
Alignment explanation
Indices: 147985--148214 Score: 228
Period size: 57 Copynumber: 4.0 Consensus size: 55
147975 ACATTCATCT
* * * *
147985 CTTTAAAGCCCACAGGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTCAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
* *
148040 CTTTCAAAGCCCACAAGTCAATGGCAT-CTCTTCAAAAGACCACAAGTCAGTGGCACC
1 CTTTC-AAGCCCACAAGTCAGTGGCATCCT-TTC-AAAGCCCACAAGTCAGTGGCACC
* *
148097 CTTTCAGAGCCCATAAGTCAGTGACATACCCTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCA-AGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCCCACAAGTCAGTGGCACC
** * *
148155 CTTTCTAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCTCACACAAGTTAGTGGCA
1 CTTTC-AAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGC-C-CACAAGTCAGTGGCA
148215 TCTTTTTTTT
Statistics
Matches: 145, Mismatches: 16, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
55 6 0.04
56 23 0.16
57 42 0.29
58 29 0.20
59 6 0.04
60 22 0.15
61 2 0.01
62 15 0.10
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (55 bp):
CTTTCAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:149216 original size:20 final size:20
Alignment explanation
Indices: 149160--149216 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
149150 TTCGACCCAG
*
149160 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTGA
*
149180 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTTGA
149200 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
149217 GTCTTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTGA
Found at i:149259 original size:20 final size:20
Alignment explanation
Indices: 149234--149271 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
149224 TAACCAGATG
149234 AATAATGTATCGAAACATTA
1 AATAATGTATCGAAACATTA
*
149254 AATAATGTATCGATACAT
1 AATAATGTATCGAAACAT
149272 CTAGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
AATAATGTATCGAAACATTA
Found at i:151255 original size:13 final size:13
Alignment explanation
Indices: 151237--151262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
151227 TACAGCAAGT
151237 ATGTATCGATACA
1 ATGTATCGATACA
151250 ATGTATCGATACA
1 ATGTATCGATACA
151263 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:153507 original size:21 final size:21
Alignment explanation
Indices: 153474--153518 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
153464 TTGCAAGTTG
*
153474 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
153496 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
153516 AAA
1 AAA
153519 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:155336 original size:15 final size:15
Alignment explanation
Indices: 155316--155346 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
155306 TAAAAATGTC
*
155316 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
155331 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
155346 C
1 C
155347 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:156854 original size:20 final size:20
Alignment explanation
Indices: 156775--156854 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
156765 AATGTCCAAA
*
156775 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
*
156795 ATGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
156820 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
156840 TTGTATCGATACATT
1 ATGTATCGATACATT
156855 GTATCGATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
20 32 0.63
24 1 0.02
25 18 0.35
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:156858 original size:13 final size:13
Alignment explanation
Indices: 156840--156878 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
156830 ACATTTTTCT
156840 TTGTATCGATACA
1 TTGTATCGATACA
156853 TTGTATCGATACA
1 TTGTATCGATACA
*
156866 CTGTATCGATACA
1 TTGTATCGATACA
156879 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:159426 original size:13 final size:13
Alignment explanation
Indices: 159408--159433 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159398 TACAGTAAGT
159408 ATGTATCGATACA
1 ATGTATCGATACA
159421 ATGTATCGATACA
1 ATGTATCGATACA
159434 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Done.