Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1845
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: 111620
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Found at i:365 original size:3 final size:3
Alignment explanation
Indices: 346--417 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
336 CTCAGCCTCC
* ** * *
346 CTT CTT TTT CTTT CTT CTT CTT CCC CGT CTT CTT TTT CTT CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
392 CTCC CTT CTT CTT -TT CTT CTT CTT CT
1 CT-T CTT CTT CTT CTT CTT CTT CTT CT
418 AGGCTAGGGT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
2 2 0.04
3 48 0.87
4 5 0.09
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:370 original size:24 final size:24
Alignment explanation
Indices: 343--417 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 24
333 TCTCTCAGCC
343 TCCCTTCTTTTTCTTTCTTCTTCT
1 TCCCTTCTTTTTCTTTCTTCTTCT
367 TCCCCGTCTTCTTTTTC-TTCTTCTTC-
1 T--CC--CTTCTTTTTCTTTCTTCTTCT
393 TCCCTTCTTCTTT-TCTTCTTCTTCT
1 TCCCTTCTT-TTTCT-TTCTTCTTCT
418 AGGCTAGGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 12 0.28
26 3 0.07
27 9 0.21
28 10 0.23
ACGTcount: A:0.00, C:0.36, G:0.01, T:0.63
Consensus pattern (24 bp):
TCCCTTCTTTTTCTTTCTTCTTCT
Found at i:3786 original size:22 final size:22
Alignment explanation
Indices: 3758--3804 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
3748 TAAGATTAAC
3758 AAATAAGGGCTCTAGTCAAACT
1 AAATAAGGGCTCTAGTCAAACT
3780 AAATAAGGGCTCTAGTCAAACT
1 AAATAAGGGCTCTAGTCAAACT
3802 AAA
1 AAA
3805 CCTTGAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (22 bp):
AAATAAGGGCTCTAGTCAAACT
Found at i:5674 original size:15 final size:16
Alignment explanation
Indices: 5642--5676 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5632 GCTACCAAAA
*
5642 AAAAAAAAAGCAAGGG
1 AAAAAAAAAGCAAAGG
5658 AAAAAAAAAG-AAAGG
1 AAAAAAAAAGCAAAGG
5673 AAAA
1 AAAA
5677 GAGCTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGCAAAGG
Found at i:6071 original size:9 final size:8
Alignment explanation
Indices: 6016--6061 Score: 74
Period size: 8 Copynumber: 5.6 Consensus size: 8
6006 GTTTGCTAAT
6016 TTGTTAAC
1 TTGTTAAC
6024 TTGTTTAAC
1 TTG-TTAAC
6033 TTGTTAAC
1 TTGTTAAC
6041 TTGTTAAC
1 TTGTTAAC
*
6049 TTGCTAAC
1 TTGTTAAC
6057 TTGTT
1 TTGTT
6062 TAACATGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 27 0.77
9 8 0.23
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (8 bp):
TTGTTAAC
Found at i:6623 original size:34 final size:34
Alignment explanation
Indices: 6580--6647 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
6570 AAATATGGTA
6580 TTTGGAAATAAAACATTCGAATGTTCAATAGATG
1 TTTGGAAATAAAACATTCGAATGTTCAATAGATG
6614 TTTGGAAATAAAACATTCGAATGTTCAATAGATG
1 TTTGGAAATAAAACATTCGAATGTTCAATAGATG
6648 CCAATAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (34 bp):
TTTGGAAATAAAACATTCGAATGTTCAATAGATG
Found at i:6923 original size:15 final size:15
Alignment explanation
Indices: 6903--6934 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6893 TATTGTGGTC
6903 ATTACTTGGCATCAA
1 ATTACTTGGCATCAA
6918 ATTACTTGGCATCAA
1 ATTACTTGGCATCAA
6933 AT
1 AT
6935 GCAACCATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (15 bp):
ATTACTTGGCATCAA
Found at i:10963 original size:20 final size:20
Alignment explanation
Indices: 10925--10976 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
10915 CTACAATTTG
*
10925 TATCGATACAATTAGTGAATA
1 TATCGATAC-ATAAGTGAATA
* *
10946 TATTGATACATAAGTGAATG
1 TATCGATACATAAGTGAATA
10966 TATCGATACAT
1 TATCGATACAT
10977 GCCTCAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
TATCGATACATAAGTGAATA
Found at i:13362 original size:33 final size:33
Alignment explanation
Indices: 13316--13384 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
13306 CTACCACTGT
*
13316 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
* * *
13349 TTGTATTGCTACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
13382 TTG
1 TTG
13385 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:19309 original size:21 final size:21
Alignment explanation
Indices: 19275--19314 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19265 ATGTGATGTA
* *
19275 GTGATTTTTAATGATTTTGTT
1 GTGATTTTGAATGAATTTGTT
*
19296 GTGATTTTGGATGAATTTG
1 GTGATTTTGAATGAATTTG
19315 GTGTTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
GTGATTTTGAATGAATTTGTT
Found at i:19507 original size:13 final size:13
Alignment explanation
Indices: 19489--19528 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
19479 ACAATATTCC
19489 TTGTATCGATACA
1 TTGTATCGATACA
19502 TTGTATCGATACA
1 TTGTATCGATACA
*
19515 TTGTATTGATACA
1 TTGTATCGATACA
19528 T
1 T
19529 GAGTTACCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:21444 original size:22 final size:22
Alignment explanation
Indices: 21419--21474 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
21409 ACAATTGACA
*
21419 AAGGGGGAGAAATGCCTTGATT
1 AAGGGGGAGAAATGCCTTAATT
* * *
21441 AAGGGGCAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCCTTAATT
*
21463 AAGAGGGAGAAA
1 AAGGGGGAGAAA
21475 AACGAAAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.32, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAATGCCTTAATT
Found at i:22015 original size:20 final size:19
Alignment explanation
Indices: 21992--22064 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
21982 CTCACCCAGA
*
21992 TGTATCGATACATTGTGCTT
1 TGTATCGATACA-TGTGCAT
*
22012 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTGCAT
*
22031 TGTATCGATATATG-GACAAT
1 TGTATCGATACATGTG-C-AT
22051 TGTATCGATACATG
1 TGTATCGATACATG
22065 AAATTGGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 19 0.41
20 27 0.59
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTGCAT
Found at i:22130 original size:13 final size:13
Alignment explanation
Indices: 22109--22161 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
22099 CGATACATGG
*
22109 TACAATGTATCGA
1 TACATTGTATCGA
22122 TACATTGTATCGA
1 TACATTGTATCGA
22135 TACA-TG-AT-G-
1 TACATTGTATCGA
22144 -A-ATTGTATCGA
1 TACATTGTATCGA
22155 TACATTG
1 TACATTG
22162 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:22135 original size:33 final size:33
Alignment explanation
Indices: 22093--22161 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
22083 CTACCACTGT
*
22093 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
22126 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
22159 TTG
1 TTG
22162 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:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:23963 original size:156 final size:155
Alignment explanation
Indices: 23749--24149 Score: 414
Period size: 156 Copynumber: 2.6 Consensus size: 155
23739 AGGGATTTTA
* * * * * * *
23749 AAAATGGAATTAACCTATCTTAAATACCCACTTTCGGCATAAAAGTAGACTCACTGACAACCTAA
1 AAAATGGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCAGACCCAATGACAACCTAG
** * * *
23814 GACTCGGTTCTATGAAATTATAAAAATACCCTTAGGGGATA-TTTTCGACGGAAAAGTGACC-GA
66 GACTCGGTTCTAAAAAATTACAAAAATACCCTTAGGGGATACCTTT-GACAGAAAAGT-ACCTGA
* * * *
23877 TATCCCTAAAAGATTTAAAAAGGATTAC
129 CACCCCTAAAAGACTTAAAAA-GATCAC
* ** *
23905 AAAATGGGATGAACCTATCCTAAATACCCACTTTCGGCATTAAAGCAGACCCGGTGACAACCTTG
1 AAAATGGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCAGACCCAATGACAACCTAG
* * * * * * *
23970 GACTTGGTTTTAAAAAATTACAAAAATGCCTTTTGGGGATACCTTTGACATAAAAGTACCTGGCA
66 GACTCGGTTCTAAAAAATTACAAAAATACCCTTAGGGGATACCTTTGACAGAAAAGTACCTGACA
* *
24035 CCCCTAAAGGACTTAAAAAGATCAT
131 CCCCTAAAAGACTTAAAAAGATCAC
* * ** * * *
24060 AAAA-AGGACGAACCTATCCTAAATACCCACTTTTAGCGTAAAAGCGGACCCTATGACAACCTAG
1 AAAATGGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCAGACCCAATGACAACCTAG
*
24124 GACTC-ATTCTAAAAAATTACAAAAAT
66 GACTCGGTTCTAAAAAATTACAAAAAT
24150 GTCCTTATAG
Statistics
Matches: 202, Mismatches: 41, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
153 19 0.09
154 54 0.27
155 11 0.05
156 115 0.57
157 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (155 bp):
AAAATGGGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGCAGACCCAATGACAACCTAG
GACTCGGTTCTAAAAAATTACAAAAATACCCTTAGGGGATACCTTTGACAGAAAAGTACCTGACA
CCCCTAAAAGACTTAAAAAGATCAC
Found at i:27902 original size:52 final size:52
Alignment explanation
Indices: 27754--27882 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
27744 CGAAATATGA
*
27754 AAATTTGTCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
27806 AAATTTGCGTGTATGTATCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
27858 AGATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
27883 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:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:27982 original size:19 final size:19
Alignment explanation
Indices: 27958--28055 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
27948 TAGCTTACAT
27958 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
27977 TGTATCG-----AAACAT-
1 TGTATCGATACAAAACTTA
*
27990 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
28009 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
28022 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
28042 TGTATCGATACAAA
1 TGTATCGATACAAA
28056 TCGTTGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 25
0.68 0.04 0.27
Matches are distributed among these distances:
13 18 0.29
14 6 0.10
16 2 0.03
18 4 0.06
19 19 0.31
20 13 0.21
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:27995 original size:32 final size:32
Alignment explanation
Indices: 27954--28049 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
27944 GCAGTAGCTT
*
27954 ACATTGTATCGATACAAAACTTATGTATCGAA
1 ACATTGTATCGATACAACACTTATGTATCGAA
*
27986 ACATTGTATCGATACAACACTTATGTATCGAT
1 ACATTGTATCGATACAACACTTATGTATCGAA
28018 ACATTGTATCGATACAACACTTTATGTATCGA
1 ACATTGTATCGATACAACAC-TTATGTATCGA
28050 TACAAATCGT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.82
33 11 0.18
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
ACATTGTATCGATACAACACTTATGTATCGAA
Found at i:28030 original size:13 final size:13
Alignment explanation
Indices: 27977--28033 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
27967 ACAAAACTTA
*
27977 TGTATCGAAACAT
1 TGTATCGATACAT
27990 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
28008 ATGTATCGATACAT
1 -TGTATCGATACAT
28022 TGTATCGATACA
1 TGTATCGATACA
28034 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29714 original size:79 final size:79
Alignment explanation
Indices: 29577--29729 Score: 180
Period size: 79 Copynumber: 1.9 Consensus size: 79
29567 GAGTACCCTG
* * ** * * ***
29577 ATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCTTTGGAAATAACAGGG
1 ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAAGATTGGAGTATCCCCTCAAAAATAACAGGG
*
29642 TTTGAGTATTCCTA
66 TTGGAGTATTCCTA
* * * *
29656 ATTATAGAAAATTGGTGTTTTGAAAATAAAATCAAGATTGTAGTATCCCCTCAAAAATAACGGGG
1 ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAAGATTGGAGTATCCCCTCAAAAATAACAGGG
29721 TTGGAGTAT
66 TTGGAGTAT
29730 CCTCGCGAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (79 bp):
ATTATAGAAAATCGGTGTTCTGAAAATAAAATCAAGATTGGAGTATCCCCTCAAAAATAACAGGG
TTGGAGTATTCCTA
Found at i:29731 original size:28 final size:28
Alignment explanation
Indices: 29697--29762 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
29687 TCAAGATTGT
*
29697 AGTATCCCCTCAAAAATAACGGGGTTGG
1 AGTATCCCCGCAAAAATAACGGGGTTGG
* *
29725 AGTATCCTCGCGAAAATAACGGGGTTGG
1 AGTATCCCCGCAAAAATAACGGGGTTGG
29753 AGTATCCCCG
1 AGTATCCCCG
29763 ATTGTGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (28 bp):
AGTATCCCCGCAAAAATAACGGGGTTGG
Found at i:29807 original size:79 final size:78
Alignment explanation
Indices: 29718--30001 Score: 460
Period size: 79 Copynumber: 3.6 Consensus size: 78
29708 AAAAATAACG
* *
29718 GGGTTGGAGTATCCTCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
**
29783 TAGGAATAAAACC
66 TAGGAATAAAGTC
*
29796 AGGGTTGGAGTATCCCCTCGAATATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
1 -GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
29861 TTAGGAATAAAGTC
65 TTAGGAATAAAGTC
* * *
29875 GAGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
1 G-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
29940 TTAGGAATAAAGTC
65 TTAGGAATAAAGTC
*
29954 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1 -GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
30002 GATTAACGGG
Statistics
Matches: 192, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
78 1 0.01
79 190 0.99
80 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
TAGGAATAAAGTC
Found at i:30016 original size:27 final size:28
Alignment explanation
Indices: 29953--30024 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
29943 GGAATAAAGT
**
29953 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
29981 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
30008 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
30025 TGATTGTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:32467 original size:13 final size:13
Alignment explanation
Indices: 32449--32474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32439 ACAAATATTG
32449 ATGTATCGATACA
1 ATGTATCGATACA
32462 ATGTATCGATACA
1 ATGTATCGATACA
32475 TTCTACAAAT
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:33526 original size:61 final size:61
Alignment explanation
Indices: 33431--33666 Score: 241
Period size: 61 Copynumber: 3.9 Consensus size: 61
33421 GGAAGGAAGT
* * *
33431 GTGTCCTAGTCTTTGAGGACTGAAATGTTCCACCAACTCGTGTGGGCTTTGAAAAGA-AAA
1 GTGTCCTACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAA
* *
33491 GGTGTCCTACCCTTTGAGGACTGGAATGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA
1 -GTGTCCTACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAA
** * * * * *
33553 GCATCCTGCTCTTTGAAGACTGAAAAGTGCCACCAAATTGTGTGGGCTTT-AAAAGGAGAAG
1 GTGTCCTACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAA
** * * * *
33614 GCATCTTGCTCTTTGAGGACTGAAA-GTACCACCGACTTGTGT-GGCTTT-AAAAG
1 GTGTCCTACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAAG
33667 GCATCTTGCT
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
58 1 0.01
59 14 0.09
60 14 0.09
61 116 0.76
62 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (61 bp):
GTGTCCTACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAA
Found at i:34186 original size:26 final size:26
Alignment explanation
Indices: 34157--34239 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
34147 GTGTGGGCTT
34157 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
34183 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
34210 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
34238 TG
1 TG
34240 GAAAATGCCA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 13 0.32
27 5 0.12
28 5 0.12
29 11 0.28
30 3 0.08
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:34406 original size:55 final size:55
Alignment explanation
Indices: 33733--34404 Score: 940
Period size: 55 Copynumber: 11.9 Consensus size: 55
33723 GATTAGGAAG
33733 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCTGCTCTTTGAGGACTGGAAAA
*
33794 TGCCAGCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* * * *
33854 TGCCACCCACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGTTTTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTCCTGCTCTTTGAGGACTGGAAAA
* * * *
33915 TGCCACCAACATGTGTGGGATTTAAAAGGCGTCCTGCTCTTTGAGAACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
*
33970 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-A
* *
34025 TGCTACCAACTTTTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* *
34080 TGCCACTAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTTTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAA
*
34135 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-A
34190 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
*
34245 TGCCACTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
* * *
34300 TGCCACTAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACTGGAAA-A
34355 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
34405 AAGGGTGAAA
Statistics
Matches: 558, Mismatches: 37, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
54 16 0.03
55 399 0.72
56 18 0.03
60 58 0.10
61 67 0.12
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:35485 original size:16 final size:16
Alignment explanation
Indices: 35466--35512 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
35456 CTTTTCTCTC
35466 TTTTTTCTTTG-TTTTG
1 TTTTTT-TTTGTTTTTG
35482 TTTTTTTTTGTTTTTG
1 TTTTTTTTTGTTTTTG
35498 TTTTTGTTTT-TTTTT
1 TTTTT-TTTTGTTTTT
35513 TTGAGAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:35495 original size:6 final size:6
Alignment explanation
Indices: 35473--35515 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
35463 CTCTTTTTTC
*
35473 TTTG-T TTTG-T TTT-TT TTTGTT TTTGTT TTTGTT TTTTTT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTG
35516 AGAAAGAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 12 0.35
6 22 0.65
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTGTT
Found at i:47070 original size:20 final size:20
Alignment explanation
Indices: 47045--47118 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
47035 GTAAAAAGAC
47045 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
47065 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
47085 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
47105 AAAATGTATCGATA
1 AGAATGTATCGATA
47119 TATCTAGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:47901 original size:49 final size:47
Alignment explanation
Indices: 47845--47999 Score: 190
Period size: 46 Copynumber: 3.3 Consensus size: 47
47835 CAACGTGCCA
* *
47845 ATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAA--CAAAGGTGGACCAATGTGCTG
* * *
47894 ATTCAAGGCTAGCGACATTAGGCTAATAAAGGTGGA-CAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAACAAAGGTGGACCAATGTGCTG
* * *
47940 ATTCAAGGCCAGTGACATTGAGCTAACAAAGGT-G-CCAATATGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAACAAAGGTGGACCAATGTGCTG
*
47985 ATTCAATGCCAGCGA
1 ATTCAAGGCCAGCGA
48000 TATCGGACTT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
45 23 0.25
46 38 0.41
47 8 0.09
49 24 0.26
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (47 bp):
ATTCAAGGCCAGCGACATTGGGCTAACAAAGGTGGACCAATGTGCTG
Found at i:48133 original size:30 final size:30
Alignment explanation
Indices: 48092--48903 Score: 714
Period size: 28 Copynumber: 27.5 Consensus size: 30
48082 CACTAACTTG
* * *
48092 TGTGGGGTTTGAAAAGAGTTGCCACCGGCT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * *
48122 CGTGGGCTTTGAAAAGAGTTACCACTGGCT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48152 TGTGGGCTTTGAAAAGAG-TGCCATTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48181 TGTGGGCTTTG-AAAG-GGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48209 TGTGGGCTTTG-AAAG-GGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * *
48237 TGTGGGCTTTAAAAAGAG-TGCCATTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48266 TGTGGGCTTTGAAAGGAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
* *
48297 GTGTGGGCTTT-AAAA-AGATGCCATTGACT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48326 TGTGGGCTTTG-AAAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * **
48355 TATGGGCTTTGAAAGGAGTTGCCACCAACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
48386 GTGTGGGCTTTGAAAAGA--TGCCACTGACT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48415 TGTGGGCTTTAAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
* *
48446 ATGTGGGCTTTGAAAGGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
*
48478 GTGTGGGCTTT-AAAA-AGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* *
48507 TGTGGGCTTT-AAAAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
*
48536 TGTGGGCTTTG-AAAGTAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAG-AGTTGCCACTGAC-T
*
48567 GTGTGGGCTTTG-AAAG-GGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGACT
48596 TGTGGGCTTTGAAAAGAGTTGCCACTGACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
* * *
48627 CTATGGGCTTTGAAAGGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
*
48659 CTGTGGGCTTTGAAAAGA--TGCCACTAACT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * * *
48688 TTTGGACTTTG-AGAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * *
48717 TGTGGGCTTTGAAAGGAGTTACCACCGACTT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGAC-T
* *
48748 ATGTGGGCTTTG-AAAG-GGTGCCACTGATT
1 -TGTGGGCTTTGAAAAGAGTTGCCACTGACT
*
48777 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * * *
48805 TGTGGGCTTTG-GAAG-GGTGCCAGTGATT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * * *
48833 TGTGGACTTT-AAAAG-GATGCCACGGAGT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
* * *
48861 TGTGGACTTT-AAAAG-GATGCCACTGAGT
1 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
*
48889 TGTGGACTTT-AAAAG
1 TGTGGGCTTTGAAAAG
48904 GATGCCAAAG
Statistics
Matches: 672, Mismatches: 80, Indels: 62
0.83 0.10 0.08
Matches are distributed among these distances:
27 5 0.01
28 230 0.34
29 126 0.19
30 162 0.24
31 15 0.02
32 134 0.20
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (30 bp):
TGTGGGCTTTGAAAAGAGTTGCCACTGACT
Found at i:48354 original size:89 final size:89
Alignment explanation
Indices: 48079--48905 Score: 937
Period size: 89 Copynumber: 9.3 Consensus size: 89
48069 TAAAAAAAAG
* * * *
48079 TGCCACTAACTTGTGTGGGGTTTGAAAAGAGTTGCCACCGGC-T-CGTGGGCTTTGAAAAGAGTT
1 TGCCACTAAC-T-TGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGA--T
* *
48142 ACCACTGGCTTGTGGGCTTTGAAA-AGA
62 GCCACTGACTTGTGGGCTTTGAAAGAGA
* ** * *
48169 GTGCCATTAACTTGTGGGCTTTGAAAGG-G-TGCCACTAAC-T-TGTGGGCTTTGAAAGGGTGCC
1 -TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCC
* *
48230 ACTAACTTGTGGGCTTT-AAAAAGA
65 ACTGACTTGTGGGCTTTGAAAGAGA
* *
48254 GTGCCATTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTAAAAAGATGCC
1 -TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCC
*
48319 ATTGACTTGTGGGCTTTGAAAGAGA
65 ACTGACTTGTGGGCTTTGAAAGAGA
* *
48344 TGCCACTAACTTATGGGCTTTGAAAGGAGTTGCCACCAACTTGTGTGGGCTTTGAAAAGATGCCA
1 TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCCA
* *
48409 CTGACTTGTGGGCTTTAAAAAGAGT
66 CTGACTTGTGGGCTTT-GAAAGAGA
** *
48434 TGCCACCGACTTATGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTAAAAAGATGC
1 TGCCACTAAC-T-TGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGC
*
48499 CACTGACTTGTGGGCTTTAAAAGAGA
64 CACTGACTTGTGGGCTTTGAAAGAGA
* * *
48525 TGCCACTAACTTGTGGGCTTTGAAAGTAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTGCCA
1 TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCCA
*
48590 CTGACTTGTGGGCTTTGAAAAGAGT
66 CTGACTTGTGGGCTTTG-AAAGAGA
* * *
48615 TGCCACTGACTTCTATGGGCTTTGAAAGGAGTTGCCACCGACTTCTGTGGGCTTTGAAAAGATGC
1 TGCCACTAAC-T-TGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGC
* * * *
48680 CACTAACTTTTGGACTTTGAGAGAGA
64 CACTGACTTGTGGGCTTTGAAAGAGA
* * * * *
48706 TGCCACTGACTTGTGGGCTTTGAAAGGAGTTACCACCGACTTATGTGGGCTTTGAAAGGGTGCCA
1 TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCCA
* *
48771 CTGATTTGTGGGCTTTGAAAG-GG
66 CTGACTTGTGGGCTTTGAAAGAGA
* * ** *
48794 TGCCACTGACTTGTGGGCTTTGGAAGG-G-TGCCAGTGA-TT-TGTGGACTTT-AAAAGGATGCC
1 TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAA-GATGCC
* * * *
48854 ACGGAGTTGTGGACTTTAAAAG-GA
65 ACTGACTTGTGGGCTTTGAAAGAGA
* * * *
48878 TGCCACTGAGTTGTGGACTTTAAAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAGGA
48906 TGCCAAAGAG
Statistics
Matches: 643, Mismatches: 79, Indels: 34
0.85 0.10 0.04
Matches are distributed among these distances:
83 3 0.00
84 59 0.09
85 51 0.08
86 7 0.01
87 31 0.05
88 29 0.05
89 254 0.40
90 38 0.06
91 41 0.06
92 130 0.20
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (89 bp):
TGCCACTAACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGATGCCA
CTGACTTGTGGGCTTTGAAAGAGA
Found at i:48489 original size:181 final size:179
Alignment explanation
Indices: 48071--48905 Score: 1036
Period size: 181 Copynumber: 4.7 Consensus size: 179
48061 TTTTTTTTTA
* * * * * *
48071 AAAAAAAG-TGCCACTAACTTGTGTGGGGTTTGAAAAGAGTTGCCACCGGC-TCGTGGGCTTTGA
1 AAAAAGAGTTGCCACTGACTT-TGTGGGCTTTGAAAGGAGTTGCCACCGACTTTGTGGGCTTT-A
* * * *
48134 AAAGAGTTACCACTGGCTTGTGGGCTTTGAAA-AGAGTGCCATTAACTTGTGGGCTTTGAAAGG-
64 AAA-AGATGCCACTGACTTGTGGGCTTTGAAAGAGA-TGCCACTAACTTGTGGGCTTTGAAAGGA
* *
48197 G-TGCCACTAAC-T-TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT
127 GTTGCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* *
48247 AAAAAGAG-TGCCATTAAC-TTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTAA
1 AAAAAGAGTTGCCACTGACTTTGTGGGCTTTGAAAGGAGTTGCCACCGACTT-TGTGGGCTTTAA
* *
48310 AAAGATGCCATTGACTTGTGGGCTTTGAAAGAGATGCCACTAACTTATGGGCTTTGAAAGGAGTT
65 AAAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGAGTT
* *
48375 GCCACCAACTTGTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT
130 GCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
*
48425 AAAAAGAGTTGCCACCGACTTATGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTA
1 AAAAAGAGTTGCCACTGACTT-TGTGGGCTTTGAAAGGAGTTGCCACCGACTT-TGTGGGCTTTA
* *
48490 AAAAGATGCCACTGACTTGTGGGCTTTAAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGTAGT
64 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGAGT
*
48555 TGCCACCGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
129 TGCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* * *
48606 GAAAAGAGTTGCCACTGACTTCTATGGGCTTTGAAAGGAGTTGCCACCGACTTCTGTGGGCTTTG
1 AAAAAGAGTTGCCACTGACTT-TGTGGGCTTTGAAAGGAGTTGCCACCGACTT-TGTGGGCTTTA
* * * * *
48671 AAAAGATGCCACTAACTTTTGGACTTTGAGAGAGATGCCACTGACTTGTGGGCTTTGAAAGGAGT
64 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGAGT
* * * *
48736 TACCACCGACTTATGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTT
129 TGCCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* * * ** *
48787 -GAAAG-GGTGCCACTGAC-TTGTGGGCTTTGGAAGG-G-TGCCAGTGA-TTTGTGGACTTTAAA
1 AAAAAGAGTTGCCACTGACTTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTTGTGGGCTTTAAA
* * * * * * * * *
48846 AGGATGCCACGGAGTTGTGGACTTTAAAAG-GATGCCACTGAGTTGTGGACTTTAAAAGGA
66 AAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGA
48906 TGCCAAAGAG
Statistics
Matches: 589, Mismatches: 60, Indels: 24
0.88 0.09 0.04
Matches are distributed among these distances:
172 27 0.05
173 34 0.06
174 77 0.13
175 17 0.03
176 35 0.06
177 15 0.03
178 44 0.07
179 18 0.03
180 5 0.01
181 317 0.54
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (179 bp):
AAAAAGAGTTGCCACTGACTTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTTGTGGGCTTTAAA
AAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGAGTTG
CCACCAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
Found at i:48916 original size:28 final size:28
Alignment explanation
Indices: 48749--48976 Score: 235
Period size: 28 Copynumber: 8.2 Consensus size: 28
48739 CACCGACTTA
* * * * *
48749 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
* * * * *
48777 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
* ** * ** *
48805 TGTGGGCTTTGGAAGGGTGCCAGTGATT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
*
48833 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
*
48861 TGTGGACTTTAAAAGGATGCCACTGAGT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
*
48889 TGTGGACTTTAAAAGGATGCCAAAGAGT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
*
48917 TGTGGAC-TT-AAAGGATGCCATAGAGT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
*
48943 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACAGAGT
*
48971 TATGGA
1 TGTGGA
48977 GTTTGAAGAG
Statistics
Matches: 180, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.13
27 4 0.02
28 153 0.85
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.28
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACAGAGT
Found at i:48917 original size:56 final size:56
Alignment explanation
Indices: 48151--48983 Score: 368
Period size: 60 Copynumber: 14.2 Consensus size: 56
48141 TACCACTGGC
* * * * * * * * *
48151 TTGTGGGCTTTGAAAAGAGTGCCATTAACTTGTGGGCTTTGAAAGGGTGCCACTA-AC
1 TTGTGGACTTTGAAAGGA-TGCCACTGAGTTGTGGACTTTAAAAGGATGCCAC-AGAG
* * * * * * * *
48208 TTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCATTA-AC
1 TTGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGA-TGCCA-CAGAG
* * * * * ** *
48265 TTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTAAAAAGATGCCATTGAC
1 TTGTGGACTTTGAAAGGA--TGCCACTGA-GT-TGTGGACTTTAAAAGGATGCCACAGAG
* * * * * * *
48325 TTGTGGGCTTTGAAAGAGATGCCACTAACTTATGGGCTTTGAAAGGAGTTGCCACCA-ACT
1 TTGTGGACTTTGAAAG-GATGCCACTGAGTTGTGGACTTTAAAAGGA--TGCCA-CAGA-G
* * * * * * *
48385 TGTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACT
1 T-TGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTT-AAAAG-GATGCCACAGA-G
* * * * * * *
48445 TATGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGTGGGCTTTAAAAAGATGCCACTGAC
1 T-TGTGGACTTTGAAAGGA--TGCCACTGA-GT-TGTGGACTTTAAAAGGATGCCACAGAG
* * * * * * * * *
48506 TTGTGGGCTTTAAAAGAGATGCCACTAACTTGTGGGCTTTGAAAGTAGTTGCCACCGACT
1 TTGTGGACTTTGAAAG-GATGCCACTGAGTTGTGGACTTTAAAAG--GATGCCACAGA-G
* * * * * * *
48566 TGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 T-TGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTT-AAAAG-GATGCCACAGA-G
* * * * * *
48626 TCTATGGGCTTTGAAAGGAGTTGCCACCGACTTCTGTGGGCTTTGAAAA-GATGCCACTA-AC
1 T-TGTGGACTTTGAAAGGA--TGCCACTGA-GT-TGTGGACTTT-AAAAGGATGCCAC-AGAG
* * * * * * * *
48687 TTTTGGACTTTGAGAGAGATGCCACTGACTTGTGGGCTTTGAAAGGAGTTACCACCGACT
1 TTGTGGACTTTGAAAG-GATGCCACTGAGTTGTGGACTTTAAAAGGA--TGCCACAGA-G
* * * * * * * *
48747 TATGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGAC
1 T-TGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACAGAG
* * * * * *
48804 TTGTGGGCTTTGGAAGGGTGCCAGTGATTTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACAGAG
* *
48860 TTGTGGACTTTAAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGATGCCAAAGAG
1 TTGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACAGAG
*
48916 TTGTGGAC-TT-AAAGGATGCCA-TAGAGTTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTGAAAGGATGCCACT-GAGTTGTGGACTTTAAAAGGATGCCACAGAG
* *
48970 TTATGGAGTTTGAA
1 TTGTGGACTTTGAA
48984 GAGTCGCAGT
Statistics
Matches: 641, Mismatches: 94, Indels: 83
0.78 0.11 0.10
Matches are distributed among these distances:
53 1 0.00
54 46 0.07
55 4 0.01
56 133 0.21
57 81 0.13
58 10 0.02
59 52 0.08
60 176 0.27
61 73 0.11
62 34 0.05
63 6 0.01
64 25 0.04
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (56 bp):
TTGTGGACTTTGAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGATGCCACAGAG
Found at i:50271 original size:17 final size:17
Alignment explanation
Indices: 50241--50291 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
50231 ATTGTTCCCT
50241 TTTTATTTTGCTTTTGCA
1 TTTT-TTTTGCTTTTGCA
50259 CTTTTTTTT-CTTTT-CA
1 -TTTTTTTTGCTTTTGCA
50275 TTTTTTTGTGCTTTTGC
1 TTTTTTT-TGCTTTTGC
50292 TTTCGACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.24
16 3 0.10
17 10 0.34
18 5 0.17
19 4 0.14
ACGTcount: A:0.06, C:0.14, G:0.10, T:0.71
Consensus pattern (17 bp):
TTTTTTTTGCTTTTGCA
Found at i:53795 original size:21 final size:21
Alignment explanation
Indices: 53762--53802 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53752 CTAAGTAAAA
53762 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
53783 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
53803 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:53962 original size:52 final size:53
Alignment explanation
Indices: 53883--54016 Score: 225
Period size: 53 Copynumber: 2.5 Consensus size: 53
53873 AGATTGCATA
*
53883 GTATCGATACACATAAATATGTATCGATATAGGACA-TTGCAGTAGCCAAATTT
1 GTATCGATACACA-AAATATGTATCGATATAGGACACTGGCAGTAGCCAAATTT
* *
53936 GTATCGATACACACAATATGTATCGATATAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACAAAATATGTATCGATATAGGACACTGGCAGTAGCCAAATTT
53989 GTATCGATACACAAAATATGTATCGATA
1 GTATCGATACACAAAATATGTATCGATA
54017 CATTGGTAGT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 20 0.26
53 56 0.74
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (53 bp):
GTATCGATACACAAAATATGTATCGATATAGGACACTGGCAGTAGCCAAATTT
Found at i:54061 original size:10 final size:10
Alignment explanation
Indices: 54042--54072 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
54032 AATCTCATTT
54042 TCACTGTTCA
1 TCACTGTTCA
*
54052 TCACTATTCA
1 TCACTGTTCA
54062 TCACTGTTCA
1 TCACTGTTCA
54072 T
1 T
54073 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:54094 original size:21 final size:22
Alignment explanation
Indices: 54060--54114 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
54050 CATCACTATT
54060 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
54082 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
54103 CATCACTGTTCA
1 CATCACTGTTCA
54115 CACTGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:54190 original size:13 final size:13
Alignment explanation
Indices: 54172--54210 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
54162 TCACTATTCA
*
54172 TGTATCAATACAT
1 TGTATCGATACAT
*
54185 TGTATCGATACAG
1 TGTATCGATACAT
54198 TGTATCGATACAT
1 TGTATCGATACAT
54211 CATAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56695 original size:13 final size:13
Alignment explanation
Indices: 56677--56702 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56667 TGCACAAAGT
56677 ATGTATCGATACA
1 ATGTATCGATACA
56690 ATGTATCGATACA
1 ATGTATCGATACA
56703 CAAAAAGTTG
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:56720 original size:33 final size:32
Alignment explanation
Indices: 56659--56722 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
56649 TAGCCAAACT
*
56659 TGTATCGATGCACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
56691 TGTATCGATACACAAAAAGT-TGTATCGATACA
1 TGTATCGATACAC--AAAGTATGTATCGATACA
56723 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 12 0.41
34 5 0.17
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:60779 original size:15 final size:15
Alignment explanation
Indices: 60759--60789 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60749 TAAAAATGTC
*
60759 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
60774 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
60789 C
1 C
60790 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:62888 original size:13 final size:13
Alignment explanation
Indices: 62870--62908 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
62860 ACATTTTTCT
62870 TTGTATCGATACA
1 TTGTATCGATACA
*
62883 TTGTATCGATATA
1 TTGTATCGATACA
*
62896 GTGTATCGATACA
1 TTGTATCGATACA
62909 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:63060 original size:20 final size:20
Alignment explanation
Indices: 63017--63062 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
63007 AAATCTTTTG
63017 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
63038 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
63058 CAAAA
1 CAAAA
63063 CCAACATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:65491 original size:13 final size:13
Alignment explanation
Indices: 65473--65498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65463 TACACAAAGT
65473 ATGTATCGATACA
1 ATGTATCGATACA
65486 ATGTATCGATACA
1 ATGTATCGATACA
65499 CAAAAAGTTG
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:65516 original size:33 final size:32
Alignment explanation
Indices: 65455--65518 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
65445 TAGCCAAACT
65455 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
65487 TGTATCGATACACAAAAAGT-TGTATCGATACA
1 TGTATCGATACAC--AAAGTATGTATCGATACA
65519 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 13 0.43
33 12 0.40
34 5 0.17
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:68789 original size:20 final size:20
Alignment explanation
Indices: 68764--68837 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
68754 GTAAAAAGAC
68764 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
**
68784 AGAATGTATCGATACATTCCT
1 AGAATGTATCGATACATT-GA
*
68805 A-CATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
68824 AAAATGTATCGATA
1 AGAATGTATCGATA
68838 TATCTAGGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:73539 original size:50 final size:50
Alignment explanation
Indices: 73444--73573 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
73434 GGAAATAACA
* * ** * *
73444 GGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCG
1 GGGTTGGAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCG
*
73495 GGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGCCG
1 GGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCG
* * *
73545 GGGTTGAAGTATCCTCAAGATGAAAAATC
1 GGGTTGGAGTATCCCCGAGATGAAAAATC
73574 TAGAAATTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 52 0.75
51 17 0.25
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCG
Found at i:75945 original size:13 final size:13
Alignment explanation
Indices: 75898--75927 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
75888 GTAAACCCAG
75898 AATGTATCGATAC
1 AATGTATCGATAC
75911 AATGTATCGATAC
1 AATGTATCGATAC
75924 AATG
1 AATG
75928 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:76318 original size:45 final size:45
Alignment explanation
Indices: 76227--76774 Score: 667
Period size: 45 Copynumber: 12.3 Consensus size: 45
76217 GTGTCTACAA
** *
76227 AGAGAAAAGAGTTTGACC-AGGGCTAATGCCAATACAATCAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* **
76271 AGAGAAAAAAGTTTGACCAAGTCCTAACACCAATACAGTCAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* * *
76316 AGAGAAAAGAGTTTGACCAGGTCCTAATGTCAATACAGTCAAACA
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* * * * ** *
76361 AGAGAAAAGAGTTTTACTAGGTCCTTACACCAATACAGTTAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
** *
76406 AGAGAAAAGAGTTTGACC-AGGGCTAATGCCAATACAATCAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* *
76450 AGAGAAAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* *
76495 AGAGAAAAGAGTTTGACAAAGTCCTAATGCCAATACAGTCAAACA
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* * *
76540 AGAGAAAAGAGTTTGACAAAGTCCTAACGCCAATACAGTCAAACA
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* **
76585 AGAGAAAAGAGTTTGA-CTAGGGCTAATGCCAATACAGTCAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* * * * *
76629 AGAGAAAAGAGTTTGACGAGGTCCTAACGCCAATATAGTCAAACA
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* ** * *
76674 AGAGAAAAGAGTTTGA-CTAGGGCTAATGCCAATACAATCAAATG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
* ** *
76718 AGAGAAAAGAGTTTAACC-AGGGCTAATGTCAATACAGTCAAACG
1 AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
76762 AGAGAAAAG-GTTT
1 AGAGAAAAGAGTTT
76775 ATGTGATAAG
Statistics
Matches: 432, Mismatches: 68, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
43 4 0.01
44 155 0.36
45 273 0.63
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (45 bp):
AGAGAAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACG
Found at i:76483 original size:89 final size:89
Alignment explanation
Indices: 76227--76774 Score: 767
Period size: 89 Copynumber: 6.2 Consensus size: 89
76217 GTGTCTACAA
* *
76227 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAAG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAGG
*
76292 TCCTAACACCAATACAGTCAAACG
66 TCCTAACGCCAATACAGTCAAACG
* * * * * *
76316 AGAGAAAAGAGTTTGACCAGGTCCTAATGTCAATACAGTCAAACAAGAGAAAAGAGTTTTACTAG
1 AGAGAAAAGAGTTTGACCAGG-GCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAG
* * *
76381 GTCCTTACACCAATACAGTTAAACG
65 GTCCTAACGCCAATACAGTCAAACG
*
76406 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAGG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAGG
*
76471 TCCTAATGCCAATACAGTCAAACG
66 TCCTAACGCCAATACAGTCAAACG
* ** * * * *
76495 AGAGAAAAGAGTTTGACAAAGTCCTAATGCCAATACAGTCAAACAAGAGAAAAGAGTTTGACAAA
1 AGAGAAAAGAGTTTGAC-CAGGGCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAG
*
76560 GTCCTAACGCCAATACAGTCAAACA
65 GTCCTAACGCCAATACAGTCAAACG
* * *
76585 AGAGAAAAGAGTTTGACTAGGGCTAATGCCAATACAGTCAAACGAGAGAAAAGAGTTTGACGAGG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAGG
* *
76650 TCCTAACGCCAATATAGTCAAACA
66 TCCTAACGCCAATACAGTCAAACG
* * *
76674 AGAGAAAAGAGTTTGACTAGGGCTAATGCCAATACAATCAAATGAGAGAAAAGAGTTTAACCAGG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAGG
* * *
76739 -GCTAATGTCAATACAGTCAAACG
66 TCCTAACGCCAATACAGTCAAACG
76762 AGAGAAAAG-GTTT
1 AGAGAAAAGAGTTT
76775 ATGTGATAAG
Statistics
Matches: 410, Mismatches: 47, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
87 4 0.01
88 27 0.07
89 221 0.54
90 158 0.39
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (89 bp):
AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAGAGTTTGACCAGG
TCCTAACGCCAATACAGTCAAACG
Found at i:76531 original size:179 final size:178
Alignment explanation
Indices: 76227--76774 Score: 803
Period size: 179 Copynumber: 3.1 Consensus size: 178
76217 GTGTCTACAA
*
76227 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAAG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAGG
* * *
76292 TCCTAACACCAATACAGTCAAACGAGAGAAAAGAGTTTGACCAGGTCCTAATGTCAATACAGTCA
66 TCCTAACGCCAATACAGTCAAACGAGAGAAAAGAGTTTGA-CAAGTCCTAATGCCAATACAGTCA
* * * * *
76357 AACAAGAGAAAAGAGTTTTACTAGGTCCTTACACCAATACAGTTAAACG
130 AACAAGAGAAAAGAGTTTAACAAGGTCCTAACGCCAATACAGTCAAACG
76406 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAGG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAGG
*
76471 TCCTAATGCCAATACAGTCAAACGAGAGAAAAGAGTTTGACAAAGTCCTAATGCCAATACAGTCA
66 TCCTAACGCCAATACAGTCAAACGAGAGAAAAGAGTTTGAC-AAGTCCTAATGCCAATACAGTCA
* * *
76536 AACAAGAGAAAAGAGTTTGACAAAGTCCTAACGCCAATACAGTCAAACA
130 AACAAGAGAAAAGAGTTTAACAAGGTCCTAACGCCAATACAGTCAAACG
* * * *
76585 AGAGAAAAGAGTTTGACTAGGGCTAATGCCAATACAGTCAAACGAGAGAAAAGAGTTTGACGAGG
1 AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAGG
* * * ** *
76650 TCCTAACGCCAATATAGTCAAACAAGAGAAAAGAGTTTGACTAGGGCTAATGCCAATACAATCAA
66 TCCTAACGCCAATACAGTCAAACGAGAGAAAAGAGTTTGACAAGTCCTAATGCCAATACAGTCAA
** * * * *
76715 ATGAGAGAAAAGAGTTTAACCAGG-GCTAATGTCAATACAGTCAAACG
131 ACAAGAGAAAAGAGTTTAACAAGGTCCTAACGCCAATACAGTCAAACG
76762 AGAGAAAAG-GTTT
1 AGAGAAAAGAGTTT
76775 ATGTGATAAG
Statistics
Matches: 336, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
176 4 0.01
177 28 0.08
178 40 0.12
179 264 0.79
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (178 bp):
AGAGAAAAGAGTTTGACCAGGGCTAATGCCAATACAATCAAACGAGAGAAAAAAGTTTGACCAGG
TCCTAACGCCAATACAGTCAAACGAGAGAAAAGAGTTTGACAAGTCCTAATGCCAATACAGTCAA
ACAAGAGAAAAGAGTTTAACAAGGTCCTAACGCCAATACAGTCAAACG
Found at i:78436 original size:18 final size:18
Alignment explanation
Indices: 78397--78439 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
78387 TTCCTTTGAC
78397 TTTTTCTTGATTTTTCAT
1 TTTTTCTTGATTTTTCAT
* *
78415 TTTTTTTTGCTTTTTC-T
1 TTTTTCTTGATTTTTCAT
*
78432 GTTTTCTT
1 TTTTTCTT
78440 TCTTCATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTTTCTTGATTTTTCAT
Found at i:81000 original size:21 final size:20
Alignment explanation
Indices: 80961--81000 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80951 TTCGCTCAAG
* *
80961 TTTTCACTTTTTCCTTTTCC
1 TTTTCACTTCTTCCATTTCC
80981 TTTTCAGCTTCTTCCATTTC
1 TTTTCA-CTTCTTCCATTTC
81001 TCTAGCCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.07, C:0.30, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTCACTTCTTCCATTTCC
Found at i:81585 original size:14 final size:15
Alignment explanation
Indices: 81550--81588 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
81540 GACAACATGC
81550 ATAAAAATACCACAA
1 ATAAAAATACCACAA
81565 ATAAAAATACCACAA
1 ATAAAAATACCACAA
*
81580 AGAAAAATA
1 ATAAAAATA
81589 AACAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.69, C:0.15, G:0.03, T:0.13
Consensus pattern (15 bp):
ATAAAAATACCACAA
Found at i:81593 original size:14 final size:15
Alignment explanation
Indices: 81552--81595 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
81542 CAACATGCAT
* *
81552 AAAAATACCACAAAT
1 AAAAATACAACAAAG
*
81567 AAAAATACCACAAAG
1 AAAAATACAACAAAG
81582 AAAAATA-AACAAAG
1 AAAAATACAACAAAG
81596 TTAGTATGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.70, C:0.16, G:0.05, T:0.09
Consensus pattern (15 bp):
AAAAATACAACAAAG
Found at i:83908 original size:16 final size:17
Alignment explanation
Indices: 83873--83907 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
83863 ATGAAAAGAA
83873 TTTATTTATTATTTTAT
1 TTTATTTATTATTTTAT
83890 TTTA-TTATTA-TTTAT
1 TTTATTTATTATTTTAT
83905 TTT
1 TTT
83908 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTATTATTTTAT
Found at i:84615 original size:25 final size:25
Alignment explanation
Indices: 84580--84641 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
84570 TGATTATCTT
*
84580 TCCTTTCGCTCGTCCTTTGCTACTC
1 TCCTTTTGCTCGTCCTTTGCTACTC
* *
84605 TCCTTTTGCTCGTCCTTTGTTGCTC
1 TCCTTTTGCTCGTCCTTTGCTACTC
*
84630 T-CGTTTGCTCGT
1 TCCTTTTGCTCGT
84642 ATTGCTTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 10 0.30
25 23 0.70
ACGTcount: A:0.02, C:0.34, G:0.16, T:0.48
Consensus pattern (25 bp):
TCCTTTTGCTCGTCCTTTGCTACTC
Found at i:85902 original size:7 final size:7
Alignment explanation
Indices: 85892--85998 Score: 56
Period size: 7 Copynumber: 14.3 Consensus size: 7
85882 TGCTTTCACA
*
85892 TTTTCTT
1 TTTTATT
85899 TTTTATT
1 TTTTATT
85906 TTTTAATT
1 TTTT-ATT
*
85914 TCTTTAAT
1 T-TTTATT
85922 TTTTATTT
1 TTTTA-TT
85930 TTTTAATAT
1 TTTT-AT-T
*
85939 TTTGATT
1 TTTTATT
85946 TTTTA--
1 TTTTATT
*
85951 ATTTATT
1 TTTTATT
85958 TTTTATT
1 TTTTATT
* *
85965 ATTAATT
1 TTTTATT
*
85972 TTTGATTT
1 TTTTA-TT
85980 CTTCTTATT
1 -TT-TTATT
85989 ATTTTATT
1 -TTTTATT
85997 TT
1 TT
85999 ATATCAAATA
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
5 4 0.05
7 35 0.45
8 22 0.29
9 14 0.18
10 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (7 bp):
TTTTATT
Found at i:85919 original size:9 final size:8
Alignment explanation
Indices: 85897--85954 Score: 66
Period size: 8 Copynumber: 7.4 Consensus size: 8
85887 TCACATTTTC
85897 TTTTTT-A
1 TTTTTTAA
85904 TTTTTTAA
1 TTTTTTAA
85912 TTTCTTTAA
1 TTT-TTTAA
*
85921 -TTTTTAT
1 TTTTTTAA
85928 TTTTTTAA
1 TTTTTTAA
* *
85936 TATTTTGA
1 TTTTTTAA
85944 TTTTTTAA
1 TTTTTTAA
85952 TTT
1 TTT
85955 ATTTTTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
7 10 0.24
8 27 0.64
9 5 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:85924 original size:16 final size:14
Alignment explanation
Indices: 85892--85962 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 14
85882 TGCTTTCACA
* *
85892 TTTTCTTTTTTATT
1 TTTTATTTTTTAAT
85906 TTTTAATTTCTTTAAT
1 TTTT-ATTT-TTTAAT
85922 TTTTATTTTTTTAAT
1 TTTTA-TTTTTTAAT
85937 ATTTTGATTTTTTAA-
1 -TTTT-ATTTTTTAAT
85952 -TTTATTTTTTA
1 TTTTATTTTTTA
85963 TTATTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
12 8 0.16
13 3 0.06
14 4 0.08
15 10 0.20
16 24 0.48
17 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTTATTTTTTAAT
Found at i:85924 original size:24 final size:24
Alignment explanation
Indices: 85897--85998 Score: 77
Period size: 25 Copynumber: 4.2 Consensus size: 24
85887 TCACATTTTC
*
85897 TTTTTTA-TTTTTTAATTTCTTTAA
1 TTTTTTATTTTTTTAATAT-TTTAA
*
85921 -TTTTTATTTTTTTAATATTTTGA
1 TTTTTTATTTTTTTAATATTTTAA
*
85944 TTTTTTAATTTATTTT-TTATTATTAA
1 TTTTTT-ATTT-TTTTAATATT-TTAA
* *
85970 TTTTTGATTTCTTCTTATTATTTT-A
1 TTTTTTATTT-TT-TTAATATTTTAA
85995 TTTT
1 TTTT
85999 ATATCAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
23 10 0.15
24 15 0.23
25 19 0.29
26 16 0.25
27 5 0.08
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTTTATTTTTTTAATATTTTAA
Found at i:85946 original size:23 final size:23
Alignment explanation
Indices: 85898--85948 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
85888 CACATTTTCT
*
85898 TTTTTATTTTTTAATTTCTTTAA
1 TTTTTATTTTTTAATATCTTTAA
*
85921 TTTTTATTTTTTTAATAT-TTTGA
1 TTTTTA-TTTTTTAATATCTTTAA
85944 TTTTT
1 TTTTT
85949 TAATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTATTTTTTAATATCTTTAA
Found at i:85951 original size:31 final size:32
Alignment explanation
Indices: 85897--85982 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 32
85887 TCACATTTTC
* *
85897 TTTTTTATTTTTTAATTTCTTTAATTT-TTAT
1 TTTTTTAATTTTTGATTTCTTTAATTTATTAT
*
85928 TTTTTTAATATTTTGATTT-TTTAATTTATTTT
1 TTTTTTAAT-TTTTGATTTCTTTAATTTATTAT
85960 TTATTATTAATTTTTGATTTCTT
1 TT-TT-TTAATTTTTGATTTCTT
85983 CTTATTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
31 16 0.34
32 13 0.28
33 11 0.23
34 7 0.15
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (32 bp):
TTTTTTAATTTTTGATTTCTTTAATTTATTAT
Found at i:86147 original size:19 final size:19
Alignment explanation
Indices: 86123--86164 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
86113 ACCTGACCAT
86123 TTCAATTGTGAATGCGAAG
1 TTCAATTGTGAATGCGAAG
86142 TTCAATTGTGAATGCGAAG
1 TTCAATTGTGAATGCGAAG
86161 TTCA
1 TTCA
86165 TTTGGTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (19 bp):
TTCAATTGTGAATGCGAAG
Found at i:87358 original size:19 final size:17
Alignment explanation
Indices: 87319--87359 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
87309 AGACAATGCC
*
87319 TTAATTTTTTAAAAATT
1 TTAATTTTTTAAAAATA
87336 TTAATTTTATTAAAAAGTA
1 TTAATTTT-TTAAAAA-TA
87355 TTAAT
1 TTAAT
87360 AAAGTATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTAATTTTTTAAAAATA
Found at i:87716 original size:155 final size:152
Alignment explanation
Indices: 87490--87867 Score: 363
Period size: 154 Copynumber: 2.5 Consensus size: 152
87480 ACCCTTAGAC
* ** * *
87490 TATACCTTCGACATGAAAGTATCT--TGCTTCTTAAAGGACTCAAAAATAATCATAAACGGATAA
1 TATACCTTCGACATTAAAGTATCTCATAATTC-TAAAGGACTCAAAAATAATCATAAAAGG-TGA
* ** * * * **
87553 ACTTATCCTAAATACACAGTTTTGGCATAAAAACATCCTAGTAGCTACATTGAACTCCGTTTTA-
64 ACCTATCCTAAATACACA-CCTTAGCATAAAAACATCCTAGTACCTACATCGAACTAAGTTTTAG
* *
87617 AGAATATTA-CCAAAATGCTTTTTGGG
128 A-AAAATTAGCC-AAATGCTTTTAGGG
* *
87643 TATACCTTCGACATTAAAGTATCTCGATAATTCTAAAAGACTCAAAAACAATCATCAAAAGGTGA
1 TATACCTTCGACATTAAAGTATCTC-ATAATTCTAAAGGACTCAAAAATAATCAT-AAAAGGTGA
** * * * *
87708 ACCTATCCTAAATGGACACCTTAGCATAAAAGCATCCTGGTCCCTACATCGGACTAAGTTTTAGA
64 ACCTATCCTAAATACACACCTTAGCATAAAAACATCCTAGTACCTACATCGAACTAAGTTTTAGA
87773 AAAATTAGCCAAATGCTTTTAGGG
129 AAAATTAGCCAAATGCTTTTAGGG
* ** * *
87797 TATACCTTCGACA-TAGAAGAATC-CTAGTAACCCTAAAGGACTCAAAAATGATCATAAAAAGTT
1 TATACCTTCGACATTA-AAGTATCTC-A-TAATTCTAAAGGACTCAAAAATAATCAT-AAAAGGT
87860 GAACCTAT
62 GAACCTAT
87868 AAATGTACAT
Statistics
Matches: 185, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
153 27 0.15
154 109 0.59
155 40 0.22
156 9 0.05
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (152 bp):
TATACCTTCGACATTAAAGTATCTCATAATTCTAAAGGACTCAAAAATAATCATAAAAGGTGAAC
CTATCCTAAATACACACCTTAGCATAAAAACATCCTAGTACCTACATCGAACTAAGTTTTAGAAA
AATTAGCCAAATGCTTTTAGGG
Found at i:87769 original size:154 final size:152
Alignment explanation
Indices: 87611--87996 Score: 379
Period size: 152 Copynumber: 2.5 Consensus size: 152
87601 ATTGAACTCC
* * *
87611 GTTTTAAGAATATTACCAAAATGCTTTTTGGGTATACCTTCGACATTAAAGTATCTCGATAATTC
1 GTTTTAAGAAAATTACCAAAATGCTTTTAGGGTATACCTTCGACATTAAAGTATCTCGATAATCC
*
87676 TAAAAGACTCAAAAACAATCATCAAAAGGTGAACCTATCCTAAATGGACA-CCTTAGCATAAAAG
66 TAAAAGACTCAAAAACAATCATAAAAAGGTGAACCTA---TAAATGGACATCCTTAGCATAAAAG
* * * *
87740 CATCCTGGTCCCTACATCGGACTAA
128 CACCCCGATCACTACATCGGACTAA
* *
87765 GTTTT-AGAAAAATTAGCC-AAATGCTTTTAGGGTATACCTTCGACA-TAGAAGAATC-CTAGTA
1 GTTTTAAG-AAAATTA-CCAAAATGCTTTTAGGGTATACCTTCGACATTA-AAGTATCTCGA-TA
* * ** * * * *
87826 ACCCTAAAGGACTCAAAAATGATCATAAAAAGTTGAACCTATAAATGTACATCTTTAGTATAAAA
62 ATCCTAAAAGACTCAAAAACAATCATAAAAAGGTGAACCTATAAATGGACATCCTTAGCATAAAA
* * *
87891 TCACCCCGATGACTACATCGGACTCA
127 GCACCCCGATCACTACATCGGACTAA
* * * * * ** * * *
87917 GTTTTAGGAAAATAACCAAAATACTGTTAGGGTAGACCTTTAACATGAAAGTATCTTGGT-ATCC
1 GTTTTAAGAAAATTACCAAAATGCTTTTAGGGTATACCTTCGACATTAAAGTATCTCGATAAT-C
87981 CTAAAAGACTCAAAAA
65 CTAAAAGACTCAAAAA
87997 TAATAGAAAA
Statistics
Matches: 187, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
151 12 0.06
152 86 0.46
153 8 0.04
154 79 0.42
155 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (152 bp):
GTTTTAAGAAAATTACCAAAATGCTTTTAGGGTATACCTTCGACATTAAAGTATCTCGATAATCC
TAAAAGACTCAAAAACAATCATAAAAAGGTGAACCTATAAATGGACATCCTTAGCATAAAAGCAC
CCCGATCACTACATCGGACTAA
Found at i:88348 original size:21 final size:24
Alignment explanation
Indices: 88324--88372 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
88314 CCTAAAATTA
88324 AACATC-AAAT-ATAT-CAAAACC
1 AACATCAAAATCATATCCAAAACC
*
88345 AACATCAAAATCATATCCAAAATC
1 AACATCAAAATCATATCCAAAACC
88369 AACA
1 AACA
88373 AGGAAGGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 4 0.17
23 4 0.17
24 10 0.42
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.18
Consensus pattern (24 bp):
AACATCAAAATCATATCCAAAACC
Found at i:90584 original size:13 final size:13
Alignment explanation
Indices: 90566--90590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90556 ATATAAGTGT
90566 TGTATCGATACAA
1 TGTATCGATACAA
90579 TGTATCGATACA
1 TGTATCGATACA
90591 TAAGTTTTGT
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:90588 original size:32 final size:32
Alignment explanation
Indices: 90547--90611 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
90537 CATAAAGTGT
*
90547 TGTATCGATATATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
90579 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
90611 T
1 T
90612 ATAAGCTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:90603 original size:19 final size:19
Alignment explanation
Indices: 90526--90609 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
90516 TTTCAACGAT
90526 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
90546 TTGTATCGATATATAAGTG
1 TTGTATCGATACATAAGTG
90565 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
90579 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
90597 TTGTATCGATACA
1 TTGTATCGATACA
90610 ATATAAGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 28 0.50
20 13 0.23
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:92621 original size:26 final size:26
Alignment explanation
Indices: 92563--92624 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
92553 ATTTCATATC
*
92563 TTTCTTTTTCTTTTCTCATTTTTTGT
1 TTTCTTTTTCTTCTCTCATTTTTTGT
92589 TTCTCTTTTTCTTCT-TCATTTTAATT-T
1 TT-TCTTTTTCTTCTCTCATTTT--TTGT
92616 TTTCTTTTT
1 TTTCTTTTT
92625 TATTTTCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 16 0.50
27 14 0.44
28 2 0.06
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTCTTTTTCTTCTCTCATTTTTTGT
Found at i:93152 original size:13 final size:13
Alignment explanation
Indices: 93134--93161 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93124 CATTATTCAA
93134 TGTATCGATACAT
1 TGTATCGATACAT
93147 TGTATCGATACAT
1 TGTATCGATACAT
93160 TG
1 TG
93162 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:93157 original size:33 final size:33
Alignment explanation
Indices: 93114--93179 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
93104 ACCAAGGAAA
*
93114 TGTATTGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
93147 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
93180 CTGGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:98697 original size:19 final size:20
Alignment explanation
Indices: 98658--98695 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
98648 CATCCGTGTA
98658 ATGTATCGCATACAATTTTG
1 ATGTATCGCATACAATTTTG
98678 ATGTATCG-ATACATATTT
1 ATGTATCGCATACA-ATTT
98696 GAAATATAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGCATACAATTTTG
Found at i:101400 original size:15 final size:13
Alignment explanation
Indices: 101366--101405 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 13
101356 TAATCACCAC
101366 TGTATCGATACAA
1 TGTATCGATACAA
101379 TGTATCGATACTAA
1 TGTATCGATAC-AA
101393 TAGTATCGATACA
1 T-GTATCGATACA
101406 TTGAATTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.44
14 4 0.16
15 10 0.40
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:105399 original size:21 final size:21
Alignment explanation
Indices: 105352--105396 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
105342 AAGTTTTCAT
105352 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
105372 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
105394 TTT
1 TTT
105397 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:107633 original size:13 final size:13
Alignment explanation
Indices: 107615--107640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107605 CAATTTTTTG
107615 TGTATCGATACAT
1 TGTATCGATACAT
107628 TGTATCGATACAT
1 TGTATCGATACAT
107641 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107655 original size:32 final size:33
Alignment explanation
Indices: 107595--107658 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
107585 TTACAAGCCA
** *
107595 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
107628 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
107659 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:108523 original size:7 final size:7
Alignment explanation
Indices: 108511--108557 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
108501 TGCACTCTTT
108511 TTTTTTG
1 TTTTTTG
108518 TTTTTTG
1 TTTTTTG
108525 TTTGTTT-
1 TTT-TTTG
*
108532 TTTTTCG
1 TTTTTTG
108539 -TTTTTG
1 TTTTTTG
108545 TTTTTTG
1 TTTTTTG
108552 TTTTTT
1 TTTTTT
108558 TTGTGTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 7 0.20
7 25 0.71
8 3 0.09
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:108566 original size:13 final size:12
Alignment explanation
Indices: 108508--108569 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 12
108498 TTTTGCACTC
108508 TTTTTTT-TTGT
1 TTTTTTTGTTGT
*
108519 TTTTTGT-TTGT
1 TTTTTTTGTTGT
108530 TTTTTTTCGTT-T
1 TTTTTTT-GTTGT
*
108542 TTGTTTT-TTGT
1 TTTTTTTGTTGT
108553 TTTTTTTGTGTGT
1 TTTTTTTGT-TGT
108566 TTTT
1 TTTT
108570 ACTTTTGACT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
10 2 0.05
11 23 0.55
12 8 0.19
13 9 0.21
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.84
Consensus pattern (12 bp):
TTTTTTTGTTGT
Found at i:108566 original size:20 final size:19
Alignment explanation
Indices: 108509--108569 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
108499 TTTGCACTCT
*
108509 TTTTTTTTGTTTTTTGTTTG
1 TTTTTTTTGTTGTTT-TTTG
108529 TTTTTTTTCGTTTTTGTTTTTTG
1 TTTTTTTT-G---TTGTTTTTTG
108552 TTTTTTTTGTGTGTTTTT
1 TTTTTTTTGT-TGTTTTT
108570 ACTTTTGACT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.03
20 15 0.43
21 1 0.03
22 1 0.03
23 12 0.34
24 5 0.14
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.84
Consensus pattern (19 bp):
TTTTTTTTGTTGTTTTTTG
Found at i:108569 original size:27 final size:28
Alignment explanation
Indices: 108511--108569 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
108501 TGCACTCTTT
*
108511 TTTTTTGTTTTTTGTTTGTTTTTTTTCG
1 TTTTTTGTTTTTTGTTTGTTTTTTGTCG
108539 -TTTTTGTTTTTTGTTT-TTTTTGTGT-G
1 TTTTTTGTTTTTTGTTTGTTTTT-TGTCG
108565 TTTTT
1 TTTTT
108570 ACTTTTGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (28 bp):
TTTTTTGTTTTTTGTTTGTTTTTTGTCG
Found at i:108583 original size:34 final size:33
Alignment explanation
Indices: 108511--108576 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
108501 TGCACTCTTT
* *
108511 TTTTTTGTTTTTTGTTTGTTTTTTTTCGTTTTTG
1 TTTTTTGTTTTTTGTTTGTGTTTTTACG-TTTTG
108545 TTTTTTGTTTTTT-TTGTGTGTTTTTAC-TTTTG
1 TTTTTTGTTTTTTGTT-TGTGTTTTTACGTTTTG
108577 ACTTTTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 5 0.17
33 2 0.07
34 22 0.76
ACGTcount: A:0.02, C:0.03, G:0.15, T:0.80
Consensus pattern (33 bp):
TTTTTTGTTTTTTGTTTGTGTTTTTACGTTTTG
Done.