Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold227
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: 617646
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 5
Found at i:203208 original size:33 final size:33
Alignment explanation
Indices: 203171--203297 Score: 122
Period size: 30 Copynumber: 3.9 Consensus size: 33
203161 CCACTTTCAA
203171 AAAAAACACAAAAAAACAAAAAAATAGAAAAAC
1 AAAAAACACAAAAAAACAAAAAAATAGAAAAAC
* * * *
203204 AAAAAAAACAAAAAAAACAAAATAACAAAAAAAC
1 AAAAAACAC-AAAAAAACAAAAAAATAGAAAAAC
203238 -AAAAA-AC-AAAAAACAAAAAAATA-ACAAAA-
1 AAAAAACACAAAAAAACAAAAAAATAGA-AAAAC
* * *
203267 AAAAAACA-AAACAAAGAAAAAAGAGAGAAAA
1 AAAAAACACAAAAAAACAAAAAA-ATAGAAAA
203298 GAAAAGAACC
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.01
30 23 0.29
31 12 0.15
32 7 0.09
33 14 0.18
34 21 0.27
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.02
Consensus pattern (33 bp):
AAAAAACACAAAAAAACAAAAAAATAGAAAAAC
Found at i:203218 original size:34 final size:33
Alignment explanation
Indices: 203168--203288 Score: 135
Period size: 34 Copynumber: 3.8 Consensus size: 33
203158 ATCCCACTTT
203168 CAAAAAAAACACAAAAAAACAAAAAAATAGAAAAA
1 CAAAAAAAACA-AAAAAAACAAAAAAATA-AAAAA
* *
203203 CAAAAAAAACAAAAAAAACAAAATAACAAAAAA
1 CAAAAAAAACAAAAAAAACAAAAAAATAAAAAA
* *
203236 -ACAAAAAAC--AAAAAACAAAAAAAT-AACAA
1 CAAAAAAAACAAAAAAAACAAAAAAATAAAAAA
* *
203265 -AAAAAAAACAAAACAAAGAAAAAA
1 CAAAAAAAACAAAAAAAACAAAAAA
203289 GAGAGAAAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
29 12 0.16
30 13 0.17
31 11 0.15
32 8 0.11
33 5 0.07
34 15 0.20
35 11 0.15
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (33 bp):
CAAAAAAAACAAAAAAAACAAAAAAATAAAAAA
Found at i:204488 original size:56 final size:55
Alignment explanation
Indices: 204357--204652 Score: 299
Period size: 55 Copynumber: 5.3 Consensus size: 55
204347 TTCACCCTTT
* * * * * * **
204357 AGTCCTCAAAAAGCAGGGCACCTTTTAAAGCCCACACAAGTTGGTGACACCTTTC
1 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * *
204412 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACAAAAATTGGTGGCATTTTTTT
1 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTTC
*
204468 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * **
204523 ATTCCTCAAAGAGCAGGACGCCTATT-AAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAAGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTTC
* * * **
204578 AATCCTTAAAGAGC-AGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAAGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCATTTTTC
*
204638 AATCCTCAAAGAGCA
1 AGTCCTCAAAGAGCA
204653 GGACCTCTCT
Statistics
Matches: 208, Mismatches: 23, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
54 8 0.04
55 106 0.51
56 52 0.25
60 42 0.20
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
Found at i:204553 original size:111 final size:110
Alignment explanation
Indices: 204354--204656 Score: 333
Period size: 111 Copynumber: 2.7 Consensus size: 110
204344 CCTTTCACCC
* * * * * * *
204354 TTTAGTCCTCAAAAAGCAGGGCACCTTTTAAAGCCCACACAAGTTGGTGACACCTTT-CAGTCCT
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAATCCT
* *
204418 CAAAGAGCAAGACGCCTTTCAAAGCCCACAAAAATTGGTGGCATTTT
65 CAAAGAGCAGGACGCCTTTCAAAGCCCACAAAAATTGGTGGCA-CTT
* *
204465 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCATTCCTC
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAATCCTC
* *
204530 AAAGAGCAGGACGCCTATT-AAAGCCCACACAAGTTGGTGGCACTT
66 AAAGAGCAGGACGCCT-TTCAAAGCCCACAAAAATTGGTGGCACTT
*** * * *
204575 CCCAATCCTTAAAGAGC-AGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 TTTAGTCCTCAAAGAGCAAGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACTTTCCA
204639 ATCCTCAAAGAGCAGGAC
60 ATCCTCAAAGAGCAGGAC
204657 CTCTCTCCTT
Statistics
Matches: 164, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
109 7 0.04
110 20 0.12
111 90 0.55
112 2 0.01
115 45 0.27
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (110 bp):
TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAATCCTC
AAAGAGCAGGACGCCTTTCAAAGCCCACAAAAATTGGTGGCACTT
Found at i:204986 original size:61 final size:61
Alignment explanation
Indices: 204701--205000 Score: 296
Period size: 61 Copynumber: 5.0 Consensus size: 61
204691 GGATGCCTTT
* *
204701 AAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGACG-C----C-TTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTC
* * * * *
204756 AAAGCCCACACAAATTGGTTGCA-TTTTCCAGTCCTCAAAAAGCAGGATGCTTTTTTCTTTT-
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGC-CTTTTCTTTTC
* * * * * * *
204817 AAAGACCACTCGAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATG-CTTTCTCTTTGT-
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCTTT-TC
* * *
204878 AAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGACGCCTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTC
** * *
204939 AAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTC
205001 TCCTTTGTCC
Statistics
Matches: 204, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
54 4 0.02
55 39 0.19
59 3 0.01
60 6 0.03
61 137 0.67
62 15 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTC
Found at i:205012 original size:38 final size:39
Alignment explanation
Indices: 204969--205261 Score: 126
Period size: 42 Copynumber: 7.2 Consensus size: 39
204959 GCACTTTTTA
204969 GTCCTCAAAGAGCAGGACAC-CTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACTCTTTTCCTTTTCTCCTTT
* * *
205007 GTCCTCAAAGAGCATGACACACTTCATTCCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACACTCTT--TT-CCTT-TTCT-CC-TTT
* *
205052 GTCCTTAAAGAGCAGGACGCACTTTGTTTTCCTCTTTCT--TTT
1 GTCCTCAAAGAGCAGGA--CAC--TCTTTTCCT-TTTCTCCTTT
* * *
205094 GTCCTCAAAGAGCAGGACGCATTTCGTTTTACTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGA--CA-CTC-TTTTCCTTTTCTCCTTT
* * * *
205137 GTCCTCAAAAAGTAAGACGTACTC---T--TTTTC-ACTTT
1 GTCCTCAAAGAGCAGGAC--ACTCTTTTCCTTTTCTCCTTT
*
205172 GTCCTCAAA-AGGCAGGACACTTTCCTTTT-CTTTTTTCCTTT
1 GTCCTCAAAGA-GCAGGACAC--T-CTTTTCCTTTTCTCCTTT
* * * *
205213 GTCCTCAAGGAGCAAGAC-CTATTTCATTCTCTTT-TCCTTT
1 GTCCTCAAAGAGCAGGACACTCTTT--TCCT-TTTCTCCTTT
205253 GTCCTCAAA
1 GTCCTCAAA
205262 AAGTGGGACA
Statistics
Matches: 197, Mismatches: 26, Indels: 62
0.69 0.09 0.22
Matches are distributed among these distances:
33 2 0.01
34 1 0.01
35 19 0.10
36 5 0.03
37 3 0.02
38 21 0.11
39 5 0.03
40 21 0.11
41 29 0.15
42 36 0.18
43 21 0.11
44 2 0.01
45 18 0.09
46 6 0.03
47 6 0.03
49 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (39 bp):
GTCCTCAAAGAGCAGGACACTCTTTTCCTTTTCTCCTTT
Found at i:205088 original size:45 final size:44
Alignment explanation
Indices: 204995--205145 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 44
204985 ACACCTTTTC
* * ** *
204995 CTTTTCTCCTTTGTCCTCAAAGAGCATGACACAC-TTCATTCCCTT
1 CTTTTC-CCTTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCC-T
*
205040 CTTTTCCCTTTTGTCCTTAAAGAGCAGGACGCACTTTGTTTTCCT
1 CTTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCCT
* *
205085 C-TTT-CTTTTGTCCTCAAAGAGCAGGACGCA-TTTCGTTTTACT
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTT-GTTTTCCT
*
205127 -TTTTTCCTTTGTCCTCAAA
1 CTTTTCCCTTTGTCCTCAAA
205146 AAGTAAGACG
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
41 3 0.03
42 33 0.36
43 14 0.15
44 5 0.05
45 30 0.33
46 6 0.07
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.42
Consensus pattern (44 bp):
CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCCT
Found at i:205858 original size:19 final size:20
Alignment explanation
Indices: 205812--205866 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
205802 AAAATTATCC
*
205812 AAATGTATCGATACATTTGT
1 AAATGTATCGATACATTTCT
205832 AGAATGTATCGATACA-TTCT
1 A-AATGTATCGATACATTTCT
205852 AAATGTATCGATACA
1 AAATGTATCGATACA
205867 GGGTCCCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 14 0.42
20 5 0.15
21 14 0.42
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTTCT
Found at i:205930 original size:19 final size:18
Alignment explanation
Indices: 205906--205969 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
205896 CAACAATTTA
205906 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
205925 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
205938 TATCGATACATAAGTATTG
1 TATCGATACATAAGT-TTG
205957 TATCGATACATAA
1 TATCGATACATAA
205970 TTAGCTACTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:205941 original size:13 final size:13
Alignment explanation
Indices: 205923--205947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
205913 ACATAAGTTT
205923 TGTATCGATACAA
1 TGTATCGATACAA
205936 TGTATCGATACA
1 TGTATCGATACA
205948 TAAGTATTGT
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:205947 original size:32 final size:32
Alignment explanation
Indices: 205906--205966 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
205896 CAACAATTTA
*
205906 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTATTGTATCGATACAATG
205938 TATCGATACATAAGTATTGTATCGATACA
1 TATCGATACATAAGTATTGTATCGATACA
205967 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATG
Found at i:208455 original size:51 final size:51
Alignment explanation
Indices: 208400--208775 Score: 288
Period size: 51 Copynumber: 7.4 Consensus size: 51
208390 AATTCTCCAC
*
208400 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
* * * *
208451 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-AATACCAATTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTA--ATTTTC-T-AT
* *** * * * * *
208505 AATCGGGGATACTCCAACCCCG--GGGATATTCCAACCCCGTTATTTTC---
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC-TAATTTTCTAT
* * * * * *
208552 GA--GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT-AT
* * * * * *
208601 AATCGGGGATACTTCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTAT
*
208653 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
* * * *
208704 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-AATACCAATTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTA--ATTTTC-T-AT
208758 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
208776 CCCGTTAATC
Statistics
Matches: 253, Mismatches: 50, Indels: 41
0.74 0.15 0.12
Matches are distributed among these distances:
45 18 0.07
46 6 0.02
47 8 0.03
49 1 0.00
50 9 0.04
51 104 0.41
52 60 0.24
53 5 0.02
54 42 0.17
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
Found at i:208530 original size:17 final size:17
Alignment explanation
Indices: 208508--208543 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
208498 TCTTCACAAT
208508 CGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
*
208525 CGGGGATATTCCAACCC
1 CGGGGATACTCCAACCC
208542 CG
1 CG
208544 TTATTTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.14
Consensus pattern (17 bp):
CGGGGATACTCCAACCC
Found at i:208685 original size:103 final size:105
Alignment explanation
Indices: 208554--208779 Score: 289
Period size: 103 Copynumber: 2.2 Consensus size: 105
208544 TTATTTTCGA
* * * *
208554 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTT-TCATAATCGGGGATACTTCAA
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTCT-ATAATCGGGGATACTCCAA
* * * *
208618 CCCCGGTTTTA-TTGC-TAAAACACTAATTT-TTCCACAATC
65 CCCCGATTTTATTTCCAAAAAACACCAATTTCTT-CACAATC
* * *
208657 GGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
* *
208722 TCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATC
66 CCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATC
208762 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
208780 TTAATCATCG
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
103 64 0.62
104 4 0.04
105 34 0.33
106 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (105 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
CCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATC
Found at i:208793 original size:27 final size:28
Alignment explanation
Indices: 208759--208834 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
208749 TTTCTTCACA
208759 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
208786 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
208814 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
208835 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:208968 original size:78 final size:79
Alignment explanation
Indices: 208788--208991 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 79
208778 CGTTAATCAT
* *
208788 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
208853 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
208867 TGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
208930 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * *
208945 CGGGGATACTCCAGCCCCGTTATTTT-GAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCG-AGGGGATACTCCAACCCCG
208992 TTATTATCTC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
77 4 0.04
78 58 0.56
79 42 0.40
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:215715 original size:17 final size:17
Alignment explanation
Indices: 215693--215726 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
215683 CAAAGGTAAG
*
215693 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
215710 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
215727 GAATTGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:221397 original size:33 final size:33
Alignment explanation
Indices: 221360--221426 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
221350 TTCAACGATC
221360 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
221393 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
221426 T
1 T
221427 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:221398 original size:13 final size:13
Alignment explanation
Indices: 221380--221404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
221370 CATAAAATGT
221380 TGTATCGATACAA
1 TGTATCGATACAA
221393 TGTATCGATACA
1 TGTATCGATACA
221405 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:221488 original size:13 final size:13
Alignment explanation
Indices: 221470--221494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
221460 ATTACTCACA
221470 TGTATCGATACAT
1 TGTATCGATACAT
221483 TGTATCGATACA
1 TGTATCGATACA
221495 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:221631 original size:52 final size:52
Alignment explanation
Indices: 221503--221622 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
221493 CACTGATCTT
*
221503 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
221555 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
221607 TGTATCGATACATGCA
1 TGTATCGATACATGCA
221623 AATAAATTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:224884 original size:21 final size:21
Alignment explanation
Indices: 224859--224901 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
224849 CATGTCAGGA
224859 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
224880 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
224901 G
1 G
224902 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:228565 original size:11 final size:11
Alignment explanation
Indices: 228551--228588 Score: 62
Period size: 10 Copynumber: 3.6 Consensus size: 11
228541 AGTGATGAAA
228551 AAAAAAACAAC
1 AAAAAAACAAC
228562 AAAAAAACAA-
1 AAAAAAACAAC
228572 AAAAAAAC-AC
1 AAAAAAACAAC
228582 AAAAAAA
1 AAAAAAA
228589 AAATGCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 1 0.04
10 15 0.58
11 10 0.38
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:228565 original size:12 final size:11
Alignment explanation
Indices: 228548--228591 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
228538 AAAAGTGATG
228548 AAAAAAAAAAC
1 AAAAAAAAAAC
*
228559 AACAAAAAAAC
1 AAAAAAAAAAC
228570 AAAAAAAAACAC
1 AAAAAAAAA-AC
228582 AAAAAAAAAA
1 AAAAAAAAAA
228592 TGCAAAGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:228578 original size:23 final size:23
Alignment explanation
Indices: 228548--228591 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
228538 AAAAGTGATG
*
228548 AAAAAAAAAACAACAAAAAAACA
1 AAAAAAAAAACAAAAAAAAAACA
*
228571 AAAAAAAACACAAAAAAAAAA
1 AAAAAAAAAACAAAAAAAAAA
228592 TGCAAAGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAAAAAACA
Found at i:228589 original size:21 final size:21
Alignment explanation
Indices: 228549--228588 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
228539 AAAGTGATGA
228549 AAAAAAAAACAACAAAAAAAC
1 AAAAAAAAACAACAAAAAAAC
228570 AAAAAAAAAC-ACAAAAAAA
1 AAAAAAAAACAACAAAAAAA
228589 AAATGCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAAAACAACAAAAAAAC
Found at i:228838 original size:1 final size:1
Alignment explanation
Indices: 228834--228869 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
228824 TTCCAAACAC
* *
228834 AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
228870 CAGAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:228874 original size:15 final size:13
Alignment explanation
Indices: 228834--228876 Score: 61
Period size: 12 Copynumber: 3.2 Consensus size: 13
228824 TTCCAAACAC
228834 AAAAAAAAAAA-A
1 AAAAAAAAAAAGA
228846 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
228859 AAAAAACAAAACAGA
1 AAAAAA-AAAA-AGA
228874 AAA
1 AAA
228877 TCTCTGTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.39
13 7 0.25
14 4 0.14
15 6 0.21
ACGTcount: A:0.91, C:0.05, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:228937 original size:10 final size:10
Alignment explanation
Indices: 228922--228950 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
228912 CTTCACACAA
228922 AAAAAAAAAC
1 AAAAAAAAAC
228932 AAAAAAAAAC
1 AAAAAAAAAC
228942 AAAAAAAAA
1 AAAAAAAAA
228951 AGGGGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:230012 original size:61 final size:61
Alignment explanation
Indices: 229947--230326 Score: 438
Period size: 62 Copynumber: 5.9 Consensus size: 61
229937 GCATTTTTTC
* *
229947 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCATTTTAAGTCCACAACTCCGTGGCACCCT
* *
230008 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCAT-TTTAAGTCCACAACTCCGTGGCACCCT
* * * *
230070 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCAT-TTTAAGTCCACAACTCCGTGGCACCCT
* *
230132 TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCATTTT-AAGTCCACAACTCCGTGGCACC-----
230196 CT
60 CT
* * *
230198 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTT
1 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCATTTTAAGTCCACAACTCCGTGGCA------
230263 TTTCCCT
58 ---CCCT
* * *
230270 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTTCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCATTTTAAGTCCACAACTCCGTGGCA
230327 TCTTTCACCC
Statistics
Matches: 281, Mismatches: 19, Indels: 29
0.85 0.06 0.09
Matches are distributed among these distances:
60 3 0.01
61 77 0.27
62 90 0.32
66 1 0.00
67 3 0.01
68 41 0.15
69 10 0.04
70 27 0.10
71 25 0.09
72 2 0.01
77 2 0.01
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCATTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:230054 original size:34 final size:33
Alignment explanation
Indices: 229924--230331 Score: 313
Period size: 34 Copynumber: 12.6 Consensus size: 33
229914 GTCTCAAAGT
* * *
229924 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
229955 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
229988 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
230016 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
230050 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
230078 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
230112 CCACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* *
230139 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
230173 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
230207 CCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
230241 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGC
1 CCACAACTCCGTGGCA--CTTTTTTCTC-TTT-AAGC
* * * *
230278 CCACAACTCCGTGGCACCTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
*
230311 CCACAACTTCGTGGCATCTTT
1 CCACAACTCCGTGGCA-CTTT
230332 CACCCTTTCT
Statistics
Matches: 308, Mismatches: 32, Indels: 71
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.00
27 29 0.09
28 40 0.13
29 1 0.00
31 14 0.05
32 5 0.02
33 46 0.15
34 121 0.39
35 25 0.08
36 4 0.01
37 22 0.07
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:230143 original size:27 final size:27
Alignment explanation
Indices: 230105--230156 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
230095 TTTTTTCATC
*
230105 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
230132 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
230157 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:230416 original size:32 final size:32
Alignment explanation
Indices: 230333--230469 Score: 177
Period size: 33 Copynumber: 4.2 Consensus size: 32
230323 GGCATCTTTC
* * *
230333 ACCCTTTCTAAAGCCCACACAAGTCAGTGGCA
1 ACCCTTCCCAAAGCCCACACAAGTCGGTGGCA
* *
230365 AACCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTC-CCAAAGCCCACACAAGTCGGTGGCA
230398 ACCCTTCCCAAAGCCCACACAAGGT-GGTGGCA
1 ACCCTTCCCAAAGCCCACACAA-GTCGGTGGCA
* *
230430 ACCATTTTCCAAAGCCCACACAAGTCGGTGGCA
1 ACC-CTTCCCAAAGCCCACACAAGTCGGTGGCA
230463 ACCCTTC
1 ACCCTTC
230470 TAAGCCCAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
32 33 0.36
33 59 0.64
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (32 bp):
ACCCTTCCCAAAGCCCACACAAGTCGGTGGCA
Found at i:230416 original size:65 final size:65
Alignment explanation
Indices: 230333--230469 Score: 197
Period size: 65 Copynumber: 2.1 Consensus size: 65
230323 GGCATCTTTC
* * *
230333 ACCCTTTCTAAAGCCCACACAA-GTCAGTGGCAAACC-TTCTCTAAAGCCCACACAAGTCGGTGG
1 ACCCTTCCCAAAGCCCACACAAGGT-AGTGGC-AACCATTCTCCAAAGCCCACACAAGTCGGTGG
230396 CA
64 CA
* *
230398 ACCCTTCCCAAAGCCCACACAAGGTGGTGGCAACCATTTTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCCCAAAGCCCACACAAGGTAGTGGCAACCATTCTCCAAAGCCCACACAAGTCGGTGGCA
230463 ACCCTTC
1 ACCCTTC
230470 TAAGCCCAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
64 4 0.06
65 59 0.91
66 2 0.03
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (65 bp):
ACCCTTCCCAAAGCCCACACAAGGTAGTGGCAACCATTCTCCAAAGCCCACACAAGTCGGTGGCA
Found at i:230528 original size:49 final size:49
Alignment explanation
Indices: 230470--231398 Score: 1268
Period size: 49 Copynumber: 19.7 Consensus size: 49
230460 GCAACCCTTC
* * * *
230470 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
230519 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGACACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
230568 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
230617 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
230660 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGACACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
230709 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
230752 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
230801 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
230844 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGACACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
230893 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
230936 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
230985 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
231028 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
231077 TAAGTCCAATGTAGCTGGCCTTGAATCATCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
231120 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
231169 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
231218 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
231266 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
231315 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
231363 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
231399 ACATCCTTTT
Statistics
Matches: 780, Mismatches: 63, Indels: 75
0.85 0.07 0.08
Matches are distributed among these distances:
43 236 0.30
45 2 0.00
47 3 0.00
48 89 0.11
49 450 0.58
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:230681 original size:22 final size:22
Alignment explanation
Indices: 230614--230681 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
230604 GCACCTTTAT
230614 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
230636 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
230657 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
230679 CTT
1 CTT
230682 GACTCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:230690 original size:92 final size:92
Alignment explanation
Indices: 230465--231407 Score: 1413
Period size: 92 Copynumber: 10.1 Consensus size: 92
230455 CGGTGGCAAC
* *
230465 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
230530 TAGCTGGCCTTGACTCAGCACATTGACA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
230558 CCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTC
1 CC-T-----TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
230623 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
230656 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGACACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
230721 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
230748 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
230813 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
230840 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGACACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
230905 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
230932 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
230997 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
231024 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
231089 AGCTGGCCTTGAATCATCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
231116 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
231181 AGCTGGCCTTGACTCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
231208 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
*
231272 CAATGTAGCTGGCCTTGACTCAGCACATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
231305 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
*
231369 CAATGTAGCTGGCCTTGAATCAGCACATTGACA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
231402 TCCTTT
1 -CCTTT
231408 TTCATCATCT
Statistics
Matches: 801, Mismatches: 37, Indels: 25
0.93 0.04 0.03
Matches are distributed among these distances:
92 528 0.66
93 2 0.00
94 3 0.00
96 1 0.00
97 141 0.18
98 125 0.16
99 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:230865 original size:22 final size:22
Alignment explanation
Indices: 230798--230865 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
230788 GCACCTTTAT
230798 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
230820 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
230841 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
230863 CTT
1 CTT
230866 GACTCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:232150 original size:13 final size:13
Alignment explanation
Indices: 232132--232156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232122 ATTACTCACA
232132 TGTATCGATACAT
1 TGTATCGATACAT
232145 TGTATCGATACA
1 TGTATCGATACA
232157 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:232221 original size:20 final size:20
Alignment explanation
Indices: 232196--232249 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
232186 ATTTGCCCAG
232196 ATGTATCGATACATTATAAA
1 ATGTATCGATACATTATAAA
232216 ATGTATCGATACATTATAAA
1 ATGTATCGATACATTATAAA
232236 ATGTATCGATACAT
1 ATGTATCGATACAT
232250 GCAGGCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTATAAA
Found at i:232262 original size:72 final size:72
Alignment explanation
Indices: 232165--232301 Score: 256
Period size: 72 Copynumber: 1.9 Consensus size: 72
232155 CACTGATCTT
*
232165 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAATGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
232230 TATAAAA
66 TATAAAA
*
232237 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
232302 GCAAATAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (72 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
TATAAAA
Found at i:235673 original size:13 final size:13
Alignment explanation
Indices: 235655--235679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235645 ACTTTCTCTT
235655 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
235668 CAAAAAAAAAAA
1 CAAAAAAAAAAA
235680 AACAAAACAA
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:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:235675 original size:14 final size:14
Alignment explanation
Indices: 235656--235697 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
235646 CTTTCTCTTC
235656 AAAAAAAAAAAGCA
1 AAAAAAAAAAAGCA
*
235670 AAAAAAAAAAAACA
1 AAAAAAAAAAAGCA
235684 AAACAAAGAAAAAG
1 AAA-AAA-AAAAAG
235698 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGCA
Found at i:235676 original size:15 final size:15
Alignment explanation
Indices: 235656--235697 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
235646 CTTTCTCTTC
235656 AAAAAAAAAAAGCAA
1 AAAAAAAAAAAGCAA
235671 AAAAAAAAAAA-CAA
1 AAAAAAAAAAAGCAA
*
235685 AACAAAGAAAAAG
1 AA-AAAAAAAAAG
235698 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGCAA
Found at i:236945 original size:55 final size:55
Alignment explanation
Indices: 236708--237644 Score: 1411
Period size: 55 Copynumber: 16.9 Consensus size: 55
236698 ATGCCTTTTT
*
236708 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
236763 CTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGC
1 C--TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
** * *
236824 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACATT-CAGTCCTCAAAGAGTAAGACAC
1 C-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
236883 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
236938 CTCTCAAAGCCCACACAAGTTAGTGGCATTTTTCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
236993 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
237048 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
*
237103 CTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
237158 CTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
237213 CTCTT-AAAGCCCACATAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
*
237268 CTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
237323 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
237378 CTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
237433 CTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
237488 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * *
237543 CTCTGAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* *
237598 CTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAG
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAG
237645 TAGAATACAC
Statistics
Matches: 812, Mismatches: 54, Indels: 32
0.90 0.06 0.04
Matches are distributed among these distances:
54 35 0.04
55 657 0.81
56 13 0.02
57 3 0.00
58 4 0.00
59 19 0.02
60 33 0.04
61 48 0.06
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
Found at i:238407 original size:21 final size:21
Alignment explanation
Indices: 238381--238457 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
238371 AAATTATCCA
238381 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
**
238402 AATGTATCGATACATTTGCGG
1 AATGTATCGATACATTTGTAG
* *
238423 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
238444 AATGTATCGATACA
1 AATGTATCGATACA
238458 GGGTCCCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 2 0.04
21 47 0.96
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:238517 original size:19 final size:19
Alignment explanation
Indices: 238493--238560 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 19
238483 AATTCAACAA
238493 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
238512 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
238527 --TGTATCGATACACAAGT
1 TTTGTATCGATACATAAGT
* *
238544 ATTGTATTGATACATAA
1 TTTGTATCGATACATAA
238561 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:238532 original size:13 final size:13
Alignment explanation
Indices: 238514--238538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
238504 ACATAAGTTT
238514 TGTATCGATACAA
1 TGTATCGATACAA
238527 TGTATCGATACA
1 TGTATCGATACA
238539 CAAGTATTGT
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:238532 original size:32 final size:32
Alignment explanation
Indices: 238495--238557 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
238485 TTCAACAATT
* *
238495 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACACAAGTATTGTATCGATACAA
*
238527 TGTATCGATACACAAGTATTGTATTGATACA
1 TGTATCGATACACAAGTATTGTATCGATACA
238558 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACACAAGTATTGTATCGATACAA
Found at i:241000 original size:51 final size:51
Alignment explanation
Indices: 240940--241313 Score: 254
Period size: 51 Copynumber: 7.4 Consensus size: 51
240930 AATTCTCCAC
* *
240940 AATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
* * * *
240991 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-AATACCAATTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTA--ATTTTC-T-AT
* *** * * * * * **
241045 AATCGGGGATACTCCAACCCCG--GGGATATTCCAACCCCGTTA-TTTC-CG
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC-TAATTTTCTAT
* * * * *
241093 AA---GGG--ACTCCAACCCCGACTTTATTTTCAAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT-AT
* * * *
241139 AATCGGGGATACTCCAAC-CCTGGTTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACTCC-GATTTTATTTTC-AAAACACTAA-TTTTCTAT
*
241191 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
* * * *
241242 AATCGAGGATACTCCAACTCCGATTTTATTTCCAAAA-AATACCAATTTCTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTA--ATTTTC-T-AT
241296 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
241314 CCCGTTAATC
Statistics
Matches: 247, Mismatches: 50, Indels: 49
0.71 0.14 0.14
Matches are distributed among these distances:
43 12 0.05
44 2 0.01
45 13 0.05
46 2 0.01
48 2 0.01
49 3 0.01
50 11 0.04
51 98 0.40
52 55 0.22
53 7 0.03
54 42 0.17
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
Found at i:241070 original size:17 final size:17
Alignment explanation
Indices: 241048--241083 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
241038 TCTTCACAAT
241048 CGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
*
241065 CGGGGATATTCCAACCC
1 CGGGGATACTCCAACCC
241082 CG
1 CG
241084 TTATTTCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.14
Consensus pattern (17 bp):
CGGGGATACTCCAACCC
Found at i:241331 original size:27 final size:28
Alignment explanation
Indices: 241297--241372 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
241287 TTTCTTCATA
241297 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
241324 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
241352 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
241373 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:241446 original size:28 final size:29
Alignment explanation
Indices: 241406--241460 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
241396 TCTCATAATT
241406 GGGGATACTCCAATCCCG-TTATTTTTGA
1 GGGGATACTCCAATCCCGATTATTTTTGA
*
241434 GGGGATACTCCAATCCCGATTTTTTTT
1 GGGGATACTCCAATCCCGATTATTTTT
241461 CTAATCATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (29 bp):
GGGGATACTCCAATCCCGATTATTTTTGA
Found at i:241508 original size:78 final size:79
Alignment explanation
Indices: 241326--241529 Score: 214
Period size: 78 Copynumber: 2.6 Consensus size: 79
241316 CGTTAATCAT
* *
241326 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
** * * *
241391 TGATTTCTCATAAT
66 CAATTTATCACAAC
* * * * * ** *
241405 TGGGGATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
241468 TCAATTTATCACAAC
65 TCAATTTATCACAAC
* * * *
241483 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
241530 TTATTATCTC
Statistics
Matches: 100, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
77 3 0.03
78 56 0.56
79 41 0.41
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CAATTTATCACAAC
Found at i:244021 original size:51 final size:51
Alignment explanation
Indices: 243919--244027 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
243909 TTATTTCCAA
*
243919 GAGGATACTCCAACTCCGATTTTATTTCTAAAATAATAATTTTCCACAATC
1 GAGGATACTCCAACTCCGATTTTATTTCCAAAATAATAATTTTCCACAATC
* * * ** * *
243970 GGGGATACTCCAACTCTGATTTTATTTCCAAAATATTGCTTTTTCATAATC
1 GAGGATACTCCAACTCCGATTTTATTTCCAAAATAATAATTTTCCACAATC
244021 GAGGATA
1 GAGGATA
244028 TTTCAACCCC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (51 bp):
GAGGATACTCCAACTCCGATTTTATTTCCAAAATAATAATTTTCCACAATC
Found at i:244233 original size:79 final size:80
Alignment explanation
Indices: 244064--244233 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 80
244054 TATCGATTTT
*
244064 ATACTTCAA-CCTCGTTATTTTCGAGGGGATACTCCAACCATGATTTTATTTTCAAAATACCAAT
1 ATACTTCAACCCTCGTTATTTTCGAGGGGATACTCCAACCATGATTTTATTTTCAAAACACCAAT
**
244128 TTTTTATAATCAGGG
66 TTTCCATAATCAGGG
* * * ** **
244143 ATAC-TCTAACCCT-GTTATTTTCGAGGGGATATTCCAACCCTGGTTTTA-TTTCTGGAACACTG
1 ATACTTC-AACCCTCGTTATTTTCGAGGGGATACTCCAACCATGATTTTATTTTC-AAAACACCA
**
244205 ATTTTCCATAATTGGGG
64 ATTTTCCATAATCAGGG
244222 ATACTTCAACCC
1 ATACTTCAACCC
244234 CATTGTTATC
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 6 0.08
79 64 0.85
80 5 0.07
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (80 bp):
ATACTTCAACCCTCGTTATTTTCGAGGGGATACTCCAACCATGATTTTATTTTCAAAACACCAAT
TTTCCATAATCAGGG
Found at i:247936 original size:13 final size:13
Alignment explanation
Indices: 247916--247949 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
247906 CATCCTTCGT
247916 ACAAAAAAAACAA
1 ACAAAAAAAACAA
* *
247929 ATAAAAAAAATAA
1 ACAAAAAAAACAA
247942 ACAAAAAA
1 ACAAAAAA
247950 GAAAGGTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (13 bp):
ACAAAAAAAACAA
Found at i:249240 original size:26 final size:27
Alignment explanation
Indices: 249176--249242 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
249166 CAAGAAATGG
* *
249176 TTGTTAAAAAATTATCATCAAGAACTT
1 TTGTTAAGAAATTTTCATCAAGAACTT
**
249203 TTGTCGAG-AATTTTCATC-AGAAAC-T
1 TTGTTAAGAAATTTTCATCAAG-AACTT
249228 TTGTTAAGAAATTTT
1 TTGTTAAGAAATTTT
249243 TGTTAATACG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 9 0.28
26 18 0.56
27 5 0.16
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (27 bp):
TTGTTAAGAAATTTTCATCAAGAACTT
Found at i:249305 original size:28 final size:28
Alignment explanation
Indices: 249264--250139 Score: 1048
Period size: 28 Copynumber: 31.3 Consensus size: 28
249254 CCTCCTTTTC
*
249264 AAGCCCACAAGTCAGTGGCATCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
** *
249292 AAGCCCACGTGTCAGTGGCACTTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249320 AAGCCCACAAGTCAGTGGCACCTTCTTA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249348 AAGCCCACAAGTCAGTGGCACCTTTTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * * *
249376 AAGCTCACAAGTCTGTGGCACTTTCTTA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
249404 AAGCCCACAAGTCTA-TGGCACCTTCTCA
1 AAGCCCACAAGTC-AGTGGCACCTTCTCA
* * *
249432 AAGCCCACATGGCTGTGGCACCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* *
249460 AAGCGCACAAGTCAGTGGCACCTTTTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* *
249488 AAGCCCACAAGTTAGTGGCATCCTT-TGA
1 AAGCCCACAAGTCAGTGGCA-CCTTCTCA
** * **
249516 AAGCCCACGTGTTAGTGGCAATTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * * *
249544 AATCCCACAAGTTAGTGGAACTTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * *
249572 AAGTCCACATGTCAGTGGCACCTTCTTA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * *
249600 AAGTCCACATGTCGGTGGCACCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249628 AAGCCCACAAGTTAGTGGCACCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
249656 AAGCCCACAAGTCAGTGGCACCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249684 AAGCCCACAAGTCAGTGGCACCTTTTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* *
249712 AAACCCACAAGTCAGTGGCA-CTTTTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249739 AAGCCCACAAGTCATTGGCATCCTT-TCA
1 AAGCCCACAAGTCAGTGGCA-CCTTCTCA
** *
249767 AAGCCCACGTGTCAGTGGCACTTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249795 AAGCCCACAAGTCAGTGGCACTTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* *
249823 AAGCCCATAAGTTAGTGGCACCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * *
249851 AAGCCTACATGTAAGTGGCACCTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* *
249879 AAGCGCACAAGTCAGTGGCACATTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249907 AAGCCCACAAGTCAGTGGCACCTTTTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* *
249935 AAGCCCACAAGTCAGTGGCACCTTTTTA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
249963 AAGCCCACAAGTCAGTGGCACCTTCTTA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * * *
249991 AAGCCCACAAGTTAGTGGCACATTTTCG
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
* * *
250019 AAGCCCATAAGTTAGTGGCACCTTTTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
*
250047 AAGCCCATAAGTCAGTGGCATCCTT-TCA
1 AAGCCCACAAGTCAGTGGCA-CCTTCTCA
** * * *
250075 AAGCCCACGTGTCAGCGTCACTTTCTCA
1 AAGCCCACAAGTCAGTGGCACCTTCTCA
250103 AAGCCC-CTAAGAT-AGTGGCACCATT-TCA
1 AAGCCCAC-AAG-TCAGTGGCACC-TTCTCA
250131 AAGCCCACA
1 AAGCCCACA
250140 CAAGTTGATG
Statistics
Matches: 734, Mismatches: 101, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
27 34 0.05
28 685 0.93
29 15 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCACCTTCTCA
Found at i:251348 original size:20 final size:20
Alignment explanation
Indices: 251318--251372 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
251308 TTTTCACAAT
*
251318 TTGTAACGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* * *
251338 TTGTATTGATACATGGTTTA
1 TTGTATCGATACATTGTTCA
251358 TTGTATCGATACATT
1 TTGTATCGATACATT
251373 CTGGGTTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:251936 original size:22 final size:22
Alignment explanation
Indices: 251911--251953 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
251901 AAAAAATACT
*
251911 ATTCCATTGGTTTCAAAACCCC
1 ATTCCAGTGGTTTCAAAACCCC
*
251933 ATTCCCGTGGTTTCAAAACCC
1 ATTCCAGTGGTTTCAAAACCC
251954 ACCACCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.30
Consensus pattern (22 bp):
ATTCCAGTGGTTTCAAAACCCC
Found at i:253754 original size:50 final size:50
Alignment explanation
Indices: 253700--253831 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
253690 TAAATTTCTA
* * * *
253700 GATTTTTCATCTCAGGGATACTCCAACCCTGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATC
* *
253750 GATTTTTCATCTCGGGGATACTCTAACCCCGGTTTTATTTCCAAAATATC
1 GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATC
* * *
253800 AATTTTTCATAATCGGGGATACTCCAATCCCG
1 GATTTTTCAT-CTCGGGGATACTCCAACCCCG
253832 TTATTTCCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 53 0.75
51 18 0.25
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (50 bp):
GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATC
Found at i:254058 original size:158 final size:158
Alignment explanation
Indices: 253763--254146 Score: 425
Period size: 158 Copynumber: 2.4 Consensus size: 158
253753 TTTTCATCTC
* ** * * *
253763 GGGGATACTCTAACCCCGGTTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAGCATCGATTTTCCATAATCGGGGATACTCCAAC
* * * * **
253828 CCCGTTATTTCCGAAGGGATGCTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATC
66 CCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCATAATC
* **
253893 GAGGATACTCCATCCCCGTTATTTTGGCA
131 GAGGATACTCCAACCCCGTTATTTCCG-A
* * * * * *
253922 -GGGATACCCCAACCTCGGCTTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAGCATCGATTTTCCATAATCGGGGATACTCCAAC
* * * *
253986 CCCATTATTTTCGAAGGGATACTCTAACCCTGATTTTATTT-TCAAAACACCAATTT-TCTATAA
66 CCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCT-AAAACACCAATTTCTC-ATAA
*
254049 TC-AGAGATACTCCAACCCTGTTATTTCCGA
129 TCGAG-GATACTCCAACCCCGTTATTTCCGA
* * * * *
254079 GGGGATACTCCAACCCCGATTTTATTTCCAAAGCATCGATTTACCATAATTGGAGATACTCCAGC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAGCATCGATTTTCCATAATCGGGGATACTCCAAC
254144 CCC
66 CCC
254147 GTTGTTATCC
Statistics
Matches: 184, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
157 6 0.03
158 178 0.97
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAGCATCGATTTTCCATAATCGGGGATACTCCAAC
CCCATTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCATAATC
GAGGATACTCCAACCCCGTTATTTCCGA
Found at i:254128 original size:79 final size:79
Alignment explanation
Indices: 253764--254149 Score: 380
Period size: 79 Copynumber: 4.9 Consensus size: 79
253754 TTTCATCTCG
* * * * *
253764 GGGATACTCTAACCCCGGTTTTATTTCCAAAATATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCATAATCGGAGATACTCCAACC
253829 CCGTTATTTCCGAA
66 CCGTTATTTCCGAA
* * * * * *
253843 GGGATGCTCCAACCCCGGCTTTATTTCTAAAATATTAA-TTTCTCATAATC-GAGGATACTCCAT
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTC-CATAATCGGA-GATACTCCAA
** *
253906 CCCCGTTATTTTGGCA
64 CCCCGTTATTTCCGAA
* * * * * * * * *
253922 GGGATACCCCAACCTCGGCTTTATTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCTAACC
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCATAATCGGAGATACTCCAACC
* *
253987 CCATTATTTTCGAA
66 CCGTTATTTCCGAA
* * * * * * *
254001 GGGATACTCTAACCCTGATTTTATTTTCAAAACACCAATTTTCTATAATCAGAGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCATAATCGGAGATACTCCAACC
* *
254066 CTGTTATTTCCGAG
66 CCGTTATTTCCGAA
* * * * * *
254080 GGGATACTCCAACCCCGATTTTATTTCCAAAGCATCGATTTACCATAATTGGAGATACTCCAGCC
1 GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCATAATCGGAGATACTCCAACC
254145 CCGTT
66 CCGTT
254150 GTTATCCCCA
Statistics
Matches: 245, Mismatches: 58, Indels: 8
0.79 0.19 0.03
Matches are distributed among these distances:
78 4 0.02
79 236 0.96
80 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTCCATAATCGGAGATACTCCAACC
CCGTTATTTCCGAA
Found at i:262634 original size:20 final size:20
Alignment explanation
Indices: 262611--262683 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
262601 ACAATTCAAA
262611 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
262631 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
262652 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
262672 GTATCGATACAT
1 GTATCGATACAT
262684 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:262655 original size:21 final size:21
Alignment explanation
Indices: 262629--262704 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
262619 ACATGTTGCA
262629 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
262650 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
262670 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
262691 ATGTATCGATACAT
1 ATGTATCGATACAT
262705 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:262662 original size:41 final size:41
Alignment explanation
Indices: 262611--262704 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
262601 ACAATTCAAA
*
262611 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
262652 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
262693 GTATCGATACAT
1 GTATCGATACAT
262705 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:262761 original size:13 final size:13
Alignment explanation
Indices: 262743--262768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
262733 TACAGCAAGT
262743 ATGTATCGATACA
1 ATGTATCGATACA
262756 ATGTATCGATACA
1 ATGTATCGATACA
262769 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:266850 original size:15 final size:15
Alignment explanation
Indices: 266830--266860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
266820 TAAAAATGTC
*
266830 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
266845 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
266860 C
1 C
266861 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:268953 original size:20 final size:21
Alignment explanation
Indices: 268875--268952 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
268865 ATGTCCAAAA
*
268875 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
268895 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
268919 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
268940 TGTATCGATACAT
1 TGTATCGATACAT
268953 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:268957 original size:13 final size:13
Alignment explanation
Indices: 268939--268977 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
268929 ACATTTTTTG
268939 TTGTATCGATACA
1 TTGTATCGATACA
268952 TTGTATCGATACA
1 TTGTATCGATACA
*
268965 CTGTATCGATACA
1 TTGTATCGATACA
268978 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:270845 original size:36 final size:36
Alignment explanation
Indices: 270798--270870 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
270788 GGGGAGATTT
270798 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
1 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
*
270834 ATTAATAAACGGGGGTGATAAAGGAGAGAATGCGTG
1 ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
270870 A
1 A
270871 ATTACCTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.36, T:0.18
Consensus pattern (36 bp):
ATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTG
Found at i:271479 original size:20 final size:20
Alignment explanation
Indices: 271456--271528 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
271446 ACAATTCAAA
271456 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
271476 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
271497 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
271517 GTATCGATACAT
1 GTATCGATACAT
271529 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:271500 original size:21 final size:21
Alignment explanation
Indices: 271474--271549 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
271464 ACATGTTGCA
271474 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
271495 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
271515 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
271536 ATGTATCGATACAT
1 ATGTATCGATACAT
271550 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:271507 original size:41 final size:41
Alignment explanation
Indices: 271456--271549 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
271446 ACAATTCAAA
*
271456 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
271497 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
271538 GTATCGATACAT
1 GTATCGATACAT
271550 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:271606 original size:13 final size:13
Alignment explanation
Indices: 271588--271613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
271578 TACAGCAAGT
271588 ATGTATCGATACA
1 ATGTATCGATACA
271601 ATGTATCGATACA
1 ATGTATCGATACA
271614 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:282121 original size:62 final size:62
Alignment explanation
Indices: 282019--282736 Score: 986
Period size: 62 Copynumber: 11.7 Consensus size: 62
282009 TTTCTCCTTT
* * * *
282019 CACTTTTC-AATCCTCAAGGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282080 CACTTTTCTAGTGCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
282142 CACTTTTC-AGTCCTC-AAGAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
282203 CACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCATATAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282265 CATTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAATGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
282327 CAC-CTTCTAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGA
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
282388 CACTTTTCTAGTCCTCAAAAAGCAAGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282450 CAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGC
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
282511 CACTTTT-TCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282573 CACTTTT-TCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGG
1 CACTTTTCT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282635 CACTTTTC-AGTCCTCAAGGAGCAGAACGTCTTTTCC-TTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
282695 TACTTTTATTGTCCTCAAAGAGCAGGACACATTTTCCTTTTA
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
282737 GGGCTTTGAA
Statistics
Matches: 583, Mismatches: 64, Indels: 19
0.88 0.10 0.03
Matches are distributed among these distances:
60 32 0.05
61 215 0.37
62 333 0.57
63 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (62 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:282244 original size:123 final size:123
Alignment explanation
Indices: 282019--282736 Score: 980
Period size: 123 Copynumber: 5.8 Consensus size: 123
282009 TTTCTCCTTT
* * * *
282019 CACTTTTCAATCCTCAAGGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACT
1 CACTTTTCAGTCCTCAAGAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * *
282084 TTTCTAGTGCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
66 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
282142 CACTTTTCAGTCCTCAAGAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 CACTTTTCAGTCCTCAAGAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * * *
282207 TTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCATATAAGTTGGTGG
66 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282265 CATTTTTCTAGTCCTCAA-AGAGCAGGATGCCTTTTCCTTTTAATGCCCACACAAGTTGGTGGCA
1 CACTTTTC-AGTCCTCAAGA-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
282329 C-CTTCTAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGA
64 CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
282388 CACTTTTCTAGTCCTCAAAAAGCAAGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCAC
1 CACTTTTC-AGTCCTCAAGAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
282453 -CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGC
65 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
282511 CACTTTTTCAGTCCTCAA-AGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CAC-TTTTCAGTCCTCAAGA-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
282575 CTTTT-TCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGG
64 CTTTTCT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
282635 CACTTTTCAGTCCTCAAGGAGCAGAACGTCTTTTCC-TTTAAAGCCCACACAAGTTGGTGGTACT
1 CACTTTTCAGTCCTCAAGAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * * *
282699 TTTATTGTCCTCAAAGAGCAGGACACATTTTCCTTTTA
66 TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
282737 GGGCTTTGAA
Statistics
Matches: 532, Mismatches: 54, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
122 59 0.11
123 363 0.68
124 110 0.21
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (123 bp):
CACTTTTCAGTCCTCAAGAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
TTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:282341 original size:185 final size:186
Alignment explanation
Indices: 282019--282736 Score: 986
Period size: 185 Copynumber: 3.9 Consensus size: 186
282009 TTTCTCCTTT
* * *
282019 CACTTTT-CAATCCTCAAGGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CACTTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
282083 TTTTCTAGTGCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
66 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
282147 TTCAGTCCTC-AAGAAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
131 TTCAGTCCTCAAAG-AGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
282203 CACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCATATAAGTTGGTGGCAT
1 CACTTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* *
282268 TTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAATGCCCACACAAGTTGGTGGCACCTT
66 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * * *
282333 CT-AGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGA
131 TTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * * *
282388 CACTTTTCTAGTCCTCAAAAAGCAAGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCAC
1 CACTTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
282453 -CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGCCACTTT
66 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
282517 TTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
131 TTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
282573 CACTTTTTCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCAC
1 CACTTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
282638 TTTTC-AGTCCTCAAGGAGCAGAACGTCTTTTCC-TTTAAAGCCCACACAAGTTGGTGGTA-CTT
66 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
282700 TT-ATTGTCCTCAAAGAGCAGGACACATTTTCCTTTTA
131 TTCA--GTCCTCAAAGAGTAGGACGCCTTTTCCTTTTA
282737 GGGCTTTGAA
Statistics
Matches: 471, Mismatches: 56, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
182 1 0.00
183 4 0.01
184 117 0.25
185 339 0.72
186 10 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (186 bp):
CACTTTTCCAATCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
TTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:282821 original size:55 final size:54
Alignment explanation
Indices: 282737--282879 Score: 196
Period size: 55 Copynumber: 2.6 Consensus size: 54
282727 TTTCCTTTTA
* * *
282737 GGGCTTTGAAAGGCATTCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGT
1 GGGCTTT-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
* *
282792 GGGCTTTAAGAGGCGTCCTGCTCTTTGAGGACTGGGAAATGCCACCAATTTGTGT
1 GGGCTTTAA-AGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
* *
282847 GGGCTTTAAAAGACGTCCTGTTCTTTGAGGACT
1 GGGCTTT-AAAGGCGTCCTGCTCTTTGAGGACT
282880 AAAGGGCGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.03
55 75 0.95
56 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (54 bp):
GGGCTTTAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT
Found at i:283079 original size:61 final size:60
Alignment explanation
Indices: 282901--283224 Score: 367
Period size: 61 Copynumber: 5.4 Consensus size: 60
282891 GGAGGGAGTG
* *
282901 TCCTGCTCTTTGGGGACTGGGAAA-CGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCA
* *
282962 TCCTACTCTTTGAGGACT-GAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAGGCA
** * *
283022 TCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCA
* * * * *
283083 TCTTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTT---TG-AAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
* ** * *
283138 TCTTGCTCTTTGAGGAC-CAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCA
*
283199 TCCTGCTCTTTGAGGACTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTG
283225 AAAGGAGAAA
Statistics
Matches: 225, Mismatches: 26, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.01
55 41 0.18
56 4 0.02
59 5 0.02
60 54 0.24
61 109 0.48
62 9 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
Found at i:283183 original size:116 final size:118
Alignment explanation
Indices: 282926--283221 Score: 384
Period size: 116 Copynumber: 2.5 Consensus size: 118
282916 ACTGGGAAAC
*
282926 GCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTACTCTTTGAGGACTGAAAGTGCCA
1 GCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCATCCTACTCTTTGAGGACTGAAAATGCCA
*** *
282990 CCAACTTATGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTGGAGGGT
65 CCAACTTATGTGGGCTTT--AAG-AAAAGGCATCCTGCTCTTTGAGGACCAAAAGGT
* * *
283047 GCCACCAACTCGTGTAGGCTTTGAAAAGAAAAGGCATCTTACTCTTTGAGGACTGGAAAATGCCA
1 GCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCCTACTCTTTGAGGACT-GAAAATGCCA
* * * *
283112 CCAACTTGTGTGGG-TTT-TG-AAAGGCGTCTTGCTCTTTGAGGACCAAAAGGT
65 CCAACTTATGTGGGCTTTAAGAAAAGGCATCCTGCTCTTTGAGGACCAAAAGGT
* * *
283163 GCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAA
1 GCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAA
283222 GTGAAAGGAG
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
115 5 0.03
116 74 0.48
118 1 0.01
121 49 0.32
122 26 0.17
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (118 bp):
GCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAATGCCAC
CAACTTATGTGGGCTTTAAGAAAAGGCATCCTGCTCTTTGAGGACCAAAAGGT
Found at i:284211 original size:1 final size:1
Alignment explanation
Indices: 284207--284268 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
284197 CTTTTCTCTC
* * * * * * *
284207 TTTTTTCTTTGTTTTGTTTTTTTTTATTTTTTTTGTTTTTTTTTGTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
284269 AGAAGAGAAG
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.02, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:284221 original size:10 final size:10
Alignment explanation
Indices: 284218--284268 Score: 70
Period size: 10 Copynumber: 5.2 Consensus size: 10
284208 TTTTTCTTTG
284218 TTTTGTTTTT
1 TTTTGTTTTT
*
284228 TTTT-ATTTT
1 TTTTGTTTTT
284237 TTTTGTTTTT
1 TTTTGTTTTT
284247 TTTTGTTTTT
1 TTTTGTTTTT
284257 GTTTT-TTTTT
1 -TTTTGTTTTT
284267 TT
1 TT
284269 AGAAGAGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 10 0.27
10 23 0.62
11 4 0.11
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:284229 original size:19 final size:18
Alignment explanation
Indices: 284207--284269 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
284197 CTTTTCTCTC
*
284207 TTTTTTCTTTGTTTTGTTT
1 TTTTTTATTT-TTTTGTTT
284226 TTTTTTATTTTTTTTGTTT
1 TTTTTTA-TTTTTTTGTTT
*
284245 TTTTTTGTTTTTGTT-TTT
1 TTTTTTATTTTT-TTGTTT
284263 TTTTTTA
1 TTTTTTA
284270 GAAGAGAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 14 0.36
19 22 0.56
20 3 0.08
ACGTcount: A:0.03, C:0.02, G:0.08, T:0.87
Consensus pattern (18 bp):
TTTTTTATTTTTTTGTTT
Found at i:284240 original size:29 final size:28
Alignment explanation
Indices: 284214--284268 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
284204 CTCTTTTTTC
*
284214 TTTGTTTTGTTTTTTTTTATTTTTTTTGT
1 TTTGTTTTGTTTTTGTTT-TTTTTTTTGT
*
284243 TTTTTTTTGTTTTTGTTTTTTTTTTT
1 TTTGTTTTGTTTTTGTTTTTTTTTTT
284269 AGAAGAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (28 bp):
TTTGTTTTGTTTTTGTTTTTTTTTTTGT
Found at i:284257 original size:16 final size:16
Alignment explanation
Indices: 284207--284266 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
284197 CTTTTCTCTC
*
284207 TTTTTTCTTTGTTTTGTT
1 TTTTTT-TTTGTTTT-TG
*
284225 TTTTTTTATTTTTTTTG
1 TTTTTTT-TTGTTTTTG
284242 TTTTTTTTTGTTTTTG
1 TTTTTTTTTGTTTTTG
284258 TTTTTTTTT
1 TTTTTTTTT
284267 TTAGAAGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 17 0.45
17 9 0.24
18 12 0.32
ACGTcount: A:0.02, C:0.02, G:0.08, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:293397 original size:15 final size:15
Alignment explanation
Indices: 293377--293416 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
293367 CAAAGGGGAC
*
293377 GAATTGTCGGCAATG
1 GAATTGTCAGCAATG
293392 GAATTGTCAGCAATG
1 GAATTGTCAGCAATG
293407 GAATTGTCAG
1 GAATTGTCAG
293417 AGGACCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (15 bp):
GAATTGTCAGCAATG
Found at i:294999 original size:20 final size:20
Alignment explanation
Indices: 294974--295045 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
294964 TACGCAGATG
294974 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * *
294994 TATCGATACATGTATGAATA
1 TATCGATACATTTTTCAATA
* * * *
295014 TATCGATATATTCTGCAATG
1 TATCGATACATTTTTCAATA
*
295034 TATTGATACATT
1 TATCGATACATT
295046 ATGTCTTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:297060 original size:76 final size:76
Alignment explanation
Indices: 296970--297122 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
296960 TTTTTAACGG
296970 TACCTCATGTGGCCTCTGAAACCTTCAAATCAGTCTGAAATAAATTCAGAAAACGGGATAGTGCG
1 TACCTCATGTGGCCTCTGAAACCTTCAAATCAGTCTGAAATAAATTCAGAAAACGGGATAGTGCG
297035 ATATTGTCCCC
66 ATATTGTCCCC
297046 TACCTCATGTGGCCTCTGAAACCTTCAAATCAGTCTGAAATAAATTCAGAAAACGGGATAGTGCG
1 TACCTCATGTGGCCTCTGAAACCTTCAAATCAGTCTGAAATAAATTCAGAAAACGGGATAGTGCG
297111 ATATTGTCCCC
66 ATATTGTCCCC
297122 T
1 T
297123 GTTTTGGTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (76 bp):
TACCTCATGTGGCCTCTGAAACCTTCAAATCAGTCTGAAATAAATTCAGAAAACGGGATAGTGCG
ATATTGTCCCC
Found at i:306867 original size:15 final size:16
Alignment explanation
Indices: 306847--306876 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
306837 TTTGTCAAAC
306847 CCGCCAGTG-TTGGTA
1 CCGCCAGTGCTTGGTA
306862 CCGCCAGTGCTTGGT
1 CCGCCAGTGCTTGGT
306877 CGTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.30, G:0.33, T:0.27
Consensus pattern (16 bp):
CCGCCAGTGCTTGGTA
Found at i:309122 original size:10 final size:10
Alignment explanation
Indices: 309107--309155 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
309097 CCTTTACACC
309107 CAAAAAAAAA
1 CAAAAAAAAA
309117 CAAAAAAAAA
1 CAAAAAAAAA
*
309127 CAAAAAACAA
1 CAAAAAAAAA
* *
309137 GAAAAAAAAG
1 CAAAAAAAAA
309147 CAAAAAAAA
1 CAAAAAAAA
309156 GAAAAGGGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:309133 original size:17 final size:18
Alignment explanation
Indices: 309111--309160 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
309101 TACACCCAAA
309111 AAAAAACAA-AAAAAAAC
1 AAAAAACAAGAAAAAAAC
309128 AAAAAACAAGAAAAAAAAGC
1 AAAAAACAAG-AAAAAAA-C
309148 AAAAAA-AAGAAAA
1 AAAAAACAAGAAAA
309161 GGGTCTAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.30
18 4 0.13
19 10 0.33
20 7 0.23
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAACAAGAAAAAAAC
Found at i:310497 original size:28 final size:28
Alignment explanation
Indices: 310388--311266 Score: 1091
Period size: 28 Copynumber: 30.9 Consensus size: 28
310378 GCATTGAGTT
* * *
310388 AGTGGCACCTTTTTCAAAGCCCACGACTC
1 AGTGGCACC-CTTTCAAAGCCCACAAGTC
* *
310417 AGTGGCACCATTTTCAAAGCCCACAAGTT
1 AGTGGCACC-CTTTCAAAGCCCACAAGTC
* *
310446 AGTGGCACTCTTTTCAAAGCCCACAAGTT
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
310475 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
310503 AGTAGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310531 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310559 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
310587 AGTGGCACCTTTTC-AAGCCCATAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310614 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310642 AGTGGCACCCTTTCAAAGCCTACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
310670 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310698 AGTGGCACCCTTTCGAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
310726 AGTGGCACCCTTACGAAGCCCACAATTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310754 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310782 AGTGGCATCCTTTCAAAGCCCACACAAGTC
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTC
*
310812 AGTGGCACTCCTTTTAAAGCCCACGCAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCA--CAAGTC
* * * *
310843 AGTGGCACCTTTTTAAAGCCCACGAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
310871 AGTGGCACTCTTTCAAAGCCCACAAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
310899 AGTGGCACCCTTTC-AAGCCCACGAA-TC
1 AGTGGCACCCTTTCAAAGCCCAC-AAGTC
* *
310926 AGTGGCACCC-TTCCAAGCCCACGAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
**
310953 AGTGGCACATTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
310981 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
311009 AGTGGCATCCTTTCAAAGCCCATGCAAGTC
1 AGTGGCACCCTTTCAAAGCCCA--CAAGTC
* *
311039 AGTGGCACCCTTTTAAAGCCCACGCAAATC
1 AGTGGCACCCTTTCAAAGCCCA--CAAGTC
* *
311069 AGTGGCACCTTTTCAAAGCCCACGAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
311097 AGTGGCACCTTTTTCAAAACCCACGAGTC
1 AGTGGCACC-CTTTCAAAGCCCACAAGTC
*
311126 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
311154 AGTGGCATCCTTTCAAAGCCTACGATTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
**
311182 AGTGGCATTCTTTCAAAGCCCACGCAAGTC
1 AGTGGCACCCTTTCAAAGCCCA--CAAGTC
*
311212 AGTGGCACCCTTTTAAAGCCCACGCAAGTC
1 AGTGGCACCCTTTCAAAGCCCA--CAAGTC
** *
311242 AGTAACACTCTTTTCAAAGCCCACA
1 AGTGGCAC-CCTTTCAAAGCCCACA
311267 CGTGTCAGTG
Statistics
Matches: 753, Mismatches: 80, Indels: 34
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.01
27 61 0.08
28 441 0.59
29 92 0.12
30 120 0.16
31 35 0.05
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTC
Found at i:311311 original size:32 final size:33
Alignment explanation
Indices: 311192--311320 Score: 99
Period size: 32 Copynumber: 4.1 Consensus size: 33
311182 AGTGGCATTC
* * *
311192 TTTCAAAGCCCACGCAAGTCAGTGGCAC-C-CT
1 TTTCAAAGCCCACACAAGTAAGTGGCACACTTT
* * * *
311223 TTT-AAAGCCCACGCAAGTCAGT--AACACTCT
1 TTTCAAAGCCCACACAAGTAAGTGGCACACTTT
** *
311253 TTTCAAAGCCCACACGTGTCAGTGGCA-ACTTT
1 TTTCAAAGCCCACACAAGTAAGTGGCACACTTT
* * *
311285 TTTCAAAGCCTACACAAGTAATTGGCACATTTT
1 TTTCAAAGCCCACACAAGTAAGTGGCACACTTT
311318 TTT
1 TTT
311321 AAAAAAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.03
29 1 0.01
30 24 0.30
31 19 0.24
32 26 0.32
33 8 0.10
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (33 bp):
TTTCAAAGCCCACACAAGTAAGTGGCACACTTT
Found at i:311902 original size:20 final size:20
Alignment explanation
Indices: 311877--311924 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
311867 TACCCAAATG
* *
311877 TATCGATACATTTTTCAATA
1 TATCGATACATGTATCAATA
*
311897 TATCGATACATGTATGAATA
1 TATCGATACATGTATCAATA
311917 TATCGATA
1 TATCGATA
311925 TATTCTGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
TATCGATACATGTATCAATA
Found at i:317159 original size:51 final size:51
Alignment explanation
Indices: 317081--317195 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
317071 AAGTAGCGAG
* *
317081 GTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAG-AAATAAAATCGGA
* *
317132 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATTGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
317183 GTTGGAGTATCCC
1 GTTGGAGTATCCC
317196 TTCGAAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:317215 original size:28 final size:27
Alignment explanation
Indices: 317181--317254 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
317171 AATAAAATTG
317181 GGGTTGGAGTATCCCTTCGA-AAATAAC-
1 GGGTTGGAGTATCCC--CGAGAAATAACA
317208 GGGATTGGAGTATCCCCGATGAAATAACA
1 GGG-TTGGAGTATCCCCGA-GAAATAACA
*
317237 GGGTTGGAGTACCCCCGA
1 GGGTTGGAGTATCCCCGA
317255 TTATGAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 33 0.79
29 3 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGAAATAACA
Found at i:317294 original size:109 final size:107
Alignment explanation
Indices: 317132--317332 Score: 251
Period size: 109 Copynumber: 1.9 Consensus size: 107
317122 TAAAATCGGA
* * * ** ** *
317132 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATTGGGGTTGGAGTATCCCT
1 GTTGGAGTACCCCCGATTATGAAAAAATAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
317197 TC-GAAAATAACGGGATTGGAGTATCCCCGATGAAATAACAGG
66 TCAG-AAATAACGGGATTGGAGTATCCCCGATGAAATAACAGG
* *
317239 GTTGGAGTACCCCCGATTATGAAAAAAATAATATTTTTAGATATAAAGCCGGGGTTGGAGTATCC
1 GTTGGAGTACCCCCGATTATG-AAAAAATAATA-TTTTAGAAATAAAACCGGGGTTGGAGTATCC
* * *
317304 CCTCAGAAATAATGGGGTTGGAGTGTCCC
64 CCTCAGAAATAACGGGATTGGAGTATCCC
317333 AAATGAAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 19 0.24
108 8 0.10
109 50 0.64
110 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTATGAAAAAATAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACGGGATTGGAGTATCCCCGATGAAATAACAGG
Found at i:317379 original size:76 final size:76
Alignment explanation
Indices: 317273--317457 Score: 271
Period size: 76 Copynumber: 2.4 Consensus size: 76
317263 AAAATAATAT
* * * * *
317273 TTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTGTCCCAAATG
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCAAATG
317338 AAAAATTGATA
66 AAAAATTGATA
* * **
317349 TTTTAGAAATAAAACCAGAGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATG
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCAAATG
* *
317414 AAAACTTGATG
66 AAAAATTGATA
317425 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
317458 GAGATAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (76 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCAAATG
AAAAATTGATA
Found at i:319876 original size:19 final size:19
Alignment explanation
Indices: 319852--319924 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
319842 AGCGATACAT
319852 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* *
319871 TGTATCGATGCAACACTTA
1 TGTATCGATACAAAACTTA
** *
319890 TGTATCGATACAGTTACTGTT
1 TGTATCGATACA-AAACT-TA
319911 TGTATCGATACAAA
1 TGTATCGATACAAA
319925 TTGTTTGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 28 0.64
20 3 0.07
21 13 0.30
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:319987 original size:21 final size:21
Alignment explanation
Indices: 319961--320016 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
319951 GTTGGGACCT
319961 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
319982 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
320003 TGTATCGATACATT
1 TGTATCGATACATT
320017 TGGATAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAGAAA
Found at i:320406 original size:1 final size:1
Alignment explanation
Indices: 320397--320467 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
320387 CCTTTTTTTC
* * * * ** * * *
320397 AAAAGAAAAAAAAACAAAACAAAAAAAACAACCAAAAAAAAAAGAAAAAAGAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
320462 AGAAAA
1 AAAAAA
320468 GAACTTGCTT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:320422 original size:13 final size:12
Alignment explanation
Indices: 320404--320467 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
320394 TTCAAAAGAA
320404 AAAAAAACAAAAC
1 AAAAAAA-AAAAC
*
320417 AAAAAAAACAAC
1 AAAAAAAAAAAC
* *
320429 CAAAAAAAAAAG
1 AAAAAAAAAAAC
*
320441 AAAAAAGAAAA-
1 AAAAAAAAAAAC
* *
320452 AAAAAAGAAAAG
1 AAAAAAAAAAAC
320464 AAAA
1 AAAA
320468 GAACTTGCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 11 0.25
12 26 0.59
13 7 0.16
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:320451 original size:18 final size:17
Alignment explanation
Indices: 320397--320467 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 17
320387 CCTTTTTTTC
320397 AAAAGAAAAAAAAACAAA
1 AAAAGAAAAAAAAA-AAA
*
320415 ACAAAAAAAACAACCAAAAAA
1 A-AAAGAAAA-AA--AAAAAA
320436 AAAAGAAAAAAGAAAAAA
1 AAAAGAAAAAA-AAAAAA
320454 AAAAGAAAAGAAAA
1 AAAAGAAAA-AAAA
320468 GAACTTGCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 18 0.40
19 11 0.24
20 9 0.20
21 4 0.09
22 3 0.07
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAAA
Found at i:321745 original size:181 final size:183
Alignment explanation
Indices: 321439--321768 Score: 454
Period size: 181 Copynumber: 1.8 Consensus size: 183
321429 AACCTTTTAT
* * *
321439 CCTTTTAGTCTTCAAAGAGTAAGATGCCTTCTCCTTTCAAAGCCTATACAAGTTGGTGGCACTTT
1 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTCTCCTTGCAAAGCCTAGACAAGTTGGTGGCACTTT
* * * **
321504 TCAGTCCTTAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCA
66 TCAGTACTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT-A
321568 GTCCTCAAAAAGCAAGACACCTTTTCCTTTTAAAGCCCATATGAGTTGGTGGCA
130 GTCCTCAAAAAGCAAGACACCTTTTCCTTTTAAAGCCCATATGAGTTGGTGGCA
*
321622 CCTTTTAGTCCTCAAAGAG-CAGCATG-CTT-TCCTTGCAAAGCCTAGACAAGTTGGTGGCAC-T
1 CCTTTTAGTCCTCAAAGAGTAAG-ATGCCTTCTCCTTGCAAAGCCTAGACAAGTTGGTGGCACTT
* * ** *
321683 TTCTAGTACTCAAAGAGTAGGACATTTTTTTCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
65 TTC-AGTACTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
321748 AGTCCTCAAAGAGCAGGACAC
129 AGTCCTCAAAAAGCAAGACAC
321769 TTTCTTATTT
Statistics
Matches: 128, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
180 4 0.03
181 97 0.76
182 6 0.05
183 21 0.16
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (183 bp):
CCTTTTAGTCCTCAAAGAGTAAGATGCCTTCTCCTTGCAAAGCCTAGACAAGTTGGTGGCACTTT
TCAGTACTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAG
TCCTCAAAAAGCAAGACACCTTTTCCTTTTAAAGCCCATATGAGTTGGTGGCA
Found at i:321766 original size:61 final size:61
Alignment explanation
Indices: 321439--321768 Score: 310
Period size: 61 Copynumber: 5.4 Consensus size: 61
321429 AACCTTTTAT
* * * ** * * * *
321439 CCTTTTAGTCTTCAAAGAGTAAGATGCCTTCTCCTTTCAAAGCCTATACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * * **
321500 -CTTTTCAGTCCTTAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCT-AGTCCTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* ** * **
321561 CCTT-TCAGTCCTCAAAAAGCAAGACACCTTTTCCTTTTAAAGCCCATATGAGTTGGTGGCA
1 CCTTCT-AGTCCTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * * *
321622 CCTTTTAGTCCTCAAAGAGC-AG-CATGC-TTTCCTTGCAAAGCCTAGACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAAGACA-CCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
* * * * ** *
321681 CTTTCTAGTACTCAAAGAGTAGGACATTTTTTTCTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
*
321742 CCTTCTAGTCCTCAAAGAGCAGGACAC
1 CCTTCTAGTCCTCAAAGAGCAAGACAC
321769 TTTCTTATTT
Statistics
Matches: 226, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
59 44 0.19
60 9 0.04
61 169 0.75
62 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCA
Found at i:321772 original size:120 final size:120
Alignment explanation
Indices: 321465--321772 Score: 332
Period size: 120 Copynumber: 2.5 Consensus size: 120
321455 GAGTAAGATG
* * * * * *
321465 CCTTCTCCTTTCAAAGCCTATACAAGTTGGTGGCA-CTTTTCAGTCCTTAAAGAGCAAGACGCCT
1 CCTTTTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGAC-AC-
** *
321529 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAAGACA
63 TTTCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTACTCAAAAAGCAAGACA
** ** * **
321587 CCTTTTCCTTTTAAAGCCCATATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGCATGCTTT
1 CCTTTTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTT
* * * * *
321652 CCTTGCAAAGCCTAGACAAGTTGGTGGCA-CTTTCTAGTACTCAAAGAGTAGGACA
66 CCTTGCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTACTCAAAAAGCAAGACA
** * * *
321707 TTTTTTTCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTTT
1 CCTTTTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTT
321772 C
66 C
321773 TTATTTCCTT
Statistics
Matches: 154, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
119 5 0.03
120 98 0.64
121 1 0.01
122 45 0.29
123 5 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (120 bp):
CCTTTTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTT
CCTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTACTCAAAAAGCAAGACA
Found at i:322467 original size:15 final size:14
Alignment explanation
Indices: 322439--322509 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 14
322429 CCTTGTTTTC
*
322439 AAAAGAAAATAAAAT
1 AAAA-AAAAAAAAAT
*
322454 AAAACAAAAAAAAACC
1 AAAA-AAAAAAAAA-T
322470 AAAAAAAGAAAAAAT
1 AAAAAAA-AAAAAAT
** *
322485 AAAAATAAAAAGGAG
1 AAAAA-AAAAAAAAT
322500 AAAAAAAAAA
1 AAAAAAAAAA
322510 CCTACTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
14 5 0.11
15 29 0.63
16 12 0.26
ACGTcount: A:0.83, C:0.04, G:0.07, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:322495 original size:20 final size:20
Alignment explanation
Indices: 322459--322509 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
322449 AAAATAAAAC
** *
322459 AAAAAAAAACCAAAAAAAGA
1 AAAAAAAAAATAAAAAGAGA
322479 AAAAATAAAAATAAAAAGGAGA
1 AAAAA-AAAAATAAAAA-GAGA
322501 AAAAAAAAA
1 AAAAAAAAA
322510 CCTACTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.84, C:0.04, G:0.08, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAATAAAAAGAGA
Found at i:323575 original size:61 final size:61
Alignment explanation
Indices: 323479--324108 Score: 410
Period size: 61 Copynumber: 10.3 Consensus size: 61
323469 AACCTTTTAT
* * * *
323479 CCTTTCAGTCCTCAAAGAGCGGGATGCCTTCTCCTTTCAAAGCCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
323540 CCTTTCAGTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGT----
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
*** ** * * * * ** *
323597 CCTCAAAG-AGT--AAGA-C--G-C-CTTTTCCTTTTAAAGCCCACACA-A-GTTGGTAGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCC-CACACAAGTTGGTGGCA
*
323649 CCCTTT-AGTCCTCAAAGAGCAGGATG-C-TTTCC-TTCTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTC-AAAGCCCACACAAGTTGGTGGCA
* ** *
323708 CC-TTCTAGTCCTCAAAGAGTAGGACG-CTTTCTCCTAGCAAAGCCCACATAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * **
323769 CC-TTCTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTACAAAGCCCATACAAATTAATGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
323830 CCATCCAGTTCTCAAAGAGTAGGACACTTTCTTTTTTCCTTTTAAAGCCCATACAAGTTGGTGGC
1 CCTTTCAGTCCTCAAAGAGCAGGACGC---C--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
323895 A
61 A
* * * *
323896 CCTTCCAGTCCTCAAAGAGCAAGACGCTTTCCTTTTTCCTTTTAAAGCCCATACAAGTTGGTGGC
1 CCTTTCAGTCCTCAAAGAGCAGGACG----CC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGC
323961 A
61 A
* * * *
323962 -CTTTCTAGTCCTCAAAAAGCAGGAC-ACTTTCTCCTTGCAAAGCCCACATAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
324023 CC-TTCTAATCC-CAAAGAGCAGGACACTTTTCTTTTTCCTTTTAAAGCCCACAGAAATTGGTGG
1 CCTTTC-AGTCCTCAAAGAGCAGGACGC----C-TTTTCCTTTCAAAGCCCACACAAGTTGGTGG
324086 CA
60 CA
*
324088 CCTTTTAGTCCTCAAAGAGCA
1 CCTTTCAGTCCTCAAAGAGCA
324109 TGACACACTT
Statistics
Matches: 449, Mismatches: 76, Indels: 83
0.74 0.12 0.14
Matches are distributed among these distances:
48 6 0.01
49 13 0.03
50 5 0.01
51 1 0.00
52 2 0.00
53 4 0.01
54 4 0.01
55 4 0.01
56 2 0.00
57 13 0.03
58 11 0.02
59 28 0.06
60 17 0.04
61 177 0.39
62 8 0.02
64 1 0.00
65 37 0.08
66 114 0.25
67 1 0.00
70 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:323618 original size:48 final size:48
Alignment explanation
Indices: 323547--323644 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
323537 GCACCTTTCA
323547 GTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
1 GTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
323595 GTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
1 GTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
323643 GT
1 GT
323645 AGCACCCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
GTCCTCAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
Found at i:323885 original size:66 final size:66
Alignment explanation
Indices: 323676--324114 Score: 408
Period size: 66 Copynumber: 6.9 Consensus size: 66
323666 AGCAGGATGC
* * * * *
323676 TTTCCTTCTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCTTTC--
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCTT
323739 -
66 T
*** * * * *
323739 --TCCTAGCAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG--AC-GTC--
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCTT
323797 T
66 T
** * ** * * *
323798 TTTCCTTACAAAGCCCATACAAATTAATGGCACCATCCAGTTCTCAAAGAGTAGGACACTTTCTT
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCTT
323863 T
66 T
* * *
323864 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGACGCTTTCCT
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCTT
323929 T
66 T
* * *
323930 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACTTTCTAGTCCTCAAAAAGCAGGACACTTTC--
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCTT
323993 -
66 T
** * * * *
323993 --TCCTTGCAAAGCCCACATAAGTTGGTGGCACCTTCTAATCC-CAAAGAGCAGGACACTTT-TC
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCT-
324054 TT
65 TT
* * * ** *
324056 TTTCCTTTTAAAGCCCACAGAAATTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACAC
1 TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACAC
324115 ACTTCATTTC
Statistics
Matches: 312, Mismatches: 49, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
58 2 0.01
59 1 0.00
60 17 0.05
61 125 0.40
63 2 0.01
64 2 0.01
65 35 0.11
66 128 0.41
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (66 bp):
TTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACTTTCTT
T
Found at i:324153 original size:45 final size:42
Alignment explanation
Indices: 324088--324197 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 42
324078 ATTGGTGGCA
324088 CCTTTTAGTCCTCAAAGAGCATGACACACTTCATTTCTTTCTTTTC
1 CCTTTT-GTCCTCAAAGAGCATGACACACTTCATTTC--T-TTTTC
* * ** * *
324134 CCTTTTGTCTTCAAAGAGCAGGATGCATTTTATTTCTTTTTC
1 CCTTTTGTCCTCAAAGAGCATGACACACTTCATTTCTTTTTC
324176 CC-TTTGTCCTCAAAGAGCATGA
1 CCTTTTGTCCTCAAAGAGCATGA
324198 TGCACTTTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 18 0.32
42 7 0.12
43 1 0.02
45 24 0.43
46 6 0.11
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (42 bp):
CCTTTTGTCCTCAAAGAGCATGACACACTTCATTTCTTTTTC
Found at i:324182 original size:41 final size:41
Alignment explanation
Indices: 324125--324210 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
324115 ACTTCATTTC
* *
324125 TTTCTTTTCCCTTTTGTCTTCAAAGAGCAGGATGCATTTTA
1 TTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGCACTTTA
* *
324166 TTTCTTTTTCCC-TTTGTCCTCAAAGAGCATGATGCACTTTG
1 TTTC-TTTTCCCTTTTGTCCTCAAAGAGCAGGATGCACTTTA
324207 TTTC
1 TTTC
324211 CTGATACTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 33 0.82
42 7 0.17
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (41 bp):
TTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGCACTTTA
Found at i:324463 original size:21 final size:21
Alignment explanation
Indices: 324439--324494 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
324429 TTTTTGCCAA
324439 AATGTATCGATACATGCCCTT
1 AATGTATCGATACATGCCCTT
324460 AATGTATCGATACATGCCCTT
1 AATGTATCGATACATGCCCTT
324481 AATGTATCGATACA
1 AATGTATCGATACA
324495 AAGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATGCCCTT
Found at i:327079 original size:79 final size:79
Alignment explanation
Indices: 326980--327125 Score: 206
Period size: 79 Copynumber: 1.8 Consensus size: 79
326970 TTCCACTACC
*
326980 GGGGATACTCCAACTCCGGTTTTATTT-TCAAAACATCAACTTTCCACTATCGGGGATACTCTAA
1 GGGGATACTCCAACTCCGGTTTTATTTCT-AAAACATCAACTTTCCACAATCGGGGATACTCTAA
327044 CCTTGTTATTTTCGA
65 CCTTGTTATTTTCGA
* * * * *
327059 GGGGATACTCCAAC-CTCGGTTTTATTTCTAAACCATCGATTTTTCACAATCGGGGATACTTTAA
1 GGGGATACTCCAACTC-CGGTTTTATTTCTAAAACATCAACTTTCCACAATCGGGGATACTCTAA
327123 CCT
65 CCT
327126 CGATTTTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
78 1 0.02
79 57 0.97
80 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACTCCGGTTTTATTTCTAAAACATCAACTTTCCACAATCGGGGATACTCTAAC
CTTGTTATTTTCGA
Found at i:327125 original size:51 final size:51
Alignment explanation
Indices: 327059--327178 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
327049 TTATTTTCGA
* * * *
327059 GGGGATACTCCAACCTCGGTTTTATTTCTAAACCATCGATTTTTCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTTCACAATC
** * *
327110 GGGGATACTTTAACCTCGATTTTATTTCCAAAACACCGATTTTTCATAGTC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTTCACAATC
*
327161 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
327179 TTATTTTCGA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTTCACAATC
Found at i:327182 original size:130 final size:130
Alignment explanation
Indices: 326948--327253 Score: 359
Period size: 130 Copynumber: 2.4 Consensus size: 130
326938 TCATCCATGT
* * *
326948 TTTTATTTCTAAAACA-CTGATTTTCCACTACCGGGGATACTCCAACTCCGGTTTTATTTTCAAA
1 TTTTATTTCTAAAACATC-GATTTTCCACAACCGGGGATACTCCAACTCCGATTTTATTTCCAAA
* * * * *
327012 ACATCAACTTTCCACTATCGGGGATACTCTAACCTTGTTATTTTCGAGGGGATACTCCAA-CCTC
65 ACACCAACTTTCCACTATCGAGGATACTCCAACCTCGTTATTTTCGAGAGGATACTCCAACCCT-
327076 GG
129 GG
* * * **
327078 TTTTATTTCTAAACCATCGATTTTTCACAATCGGGGATACTTTAAC-CTCGATTTTATTTCCAAA
1 TTTTATTTCTAAAACATCGATTTTCCACAACCGGGGATACTCCAACTC-CGATTTTATTTCCAAA
* * *
327142 ACACCGATTTTTCA-TAGTCGAGGATACTCCAACCTCGTTATTTTCGAGAGGATACTCCAACCCT
65 ACACCAACTTTCCACTA-TCGAGGATACTCCAACCTCGTTATTTTCGAGAGGATACTCCAACCCT
327206 GG
129 GG
* * ** *
327208 TTTTATTTCCAAAACATCGATTTTCCACCATTGAGGATACTCCAAC
1 TTTTATTTCTAAAACATCGATTTTCCACAACCGGGGATACTCCAAC
327254 CCTATTATTT
Statistics
Matches: 148, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
129 3 0.02
130 141 0.95
131 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (130 bp):
TTTTATTTCTAAAACATCGATTTTCCACAACCGGGGATACTCCAACTCCGATTTTATTTCCAAAA
CACCAACTTTCCACTATCGAGGATACTCCAACCTCGTTATTTTCGAGAGGATACTCCAACCCTGG
Found at i:327403 original size:158 final size:158
Alignment explanation
Indices: 327110--327413 Score: 412
Period size: 158 Copynumber: 1.9 Consensus size: 158
327100 TTTCACAATC
** * *
327110 GGGGATACTTTAACCTCGATTTTATTTCCAAAACACCGATTTTTCATAGTCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAAC
* * * * * * *
327175 CTCGTTATTTTCGAGAGGATACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTCCACCATT
66 CCCGTTATTTTCGAAAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
*
327240 GAGGATACTCCAACCCTATTATTTTCAA
131 AAGGATACTCCAACCCTATTATTTTCAA
* * * * *
327268 GGGGATACTCCAACCCCGTTTTTATTTCCAAACCATCGATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAAC
*
327333 CCCGTTA-TTTCTGAAAGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCAT
66 CCCGTTATTTTC-GAAAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCAT
* *
327397 CAAGGATATTTCAACCC
130 CAAGGATACTCCAACCC
327414 CGATTTTATT
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
157 4 0.03
158 121 0.97
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAAC
CCCGTTATTTTCGAAAGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
AAGGATACTCCAACCCTATTATTTTCAA
Done.