Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000538.1 Kokia drynarioides strain JFW-HI SEQ_111437, whole genome shotgun sequence
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: 82910
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:428 original size:21 final size:21
Alignment explanation
Indices: 403--452 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
393 GTGATCGTTG
403 TCAACGCATTGGATCCATACC
1 TCAACGCATTGGATCCATACC
424 TCAACGCATTGGATCCATACC
1 TCAACGCATTGGATCCATACC
445 TCAACGCA
1 TCAACGCA
453 ACGAGATGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (21 bp):
TCAACGCATTGGATCCATACC
Found at i:4241 original size:13 final size:13
Alignment explanation
Indices: 4223--4247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4213 ACAAAAAATG
4223 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
4236 AGAAAAAGAAAA
1 AGAAAAAGAAAA
4248 TGAATAAATT
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:15058 original size:21 final size:21
Alignment explanation
Indices: 15034--15105 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
15024 AACTTCTATC
15034 GATACAAGTGACAGTTCTACT
1 GATACAAGTGACAGTTCTACT
* *
15055 GATACAAG-AAGCAGTTCTACA
1 GATACAAGTGA-CAGTTCTACT
* * *
15076 AATATAGGTGACTA-TTCTACT
1 GATACAAGTGAC-AGTTCTACT
*
15097 GAAACAAGT
1 GATACAAGT
15106 CTTACTTCTA
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
20 1 0.03
21 34 0.92
22 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (21 bp):
GATACAAGTGACAGTTCTACT
Found at i:15870 original size:25 final size:25
Alignment explanation
Indices: 15814--15910 Score: 72
Period size: 25 Copynumber: 3.8 Consensus size: 25
15804 TTTGACTCAA
* * * *
15814 ACGAGCCCAGACAGAATATCGCTCAT
1 ACGAG-CCAGACAAAATTTCACTCTT
*
15840 ATGAGCCAGACAAAATTTCACTCTT
1 ACGAGCCAGACAAAATTTCACTCTT
* *
15865 ACGAG-CAGGACAGAATTACACTCTT
1 ACGAGCCA-GACAAAATTTCACTCTT
15890 ACGA-CCTAGAATCAAAATTTC
1 ACGAGCC-AG-A-CAAAATTTC
15911 CTTGTCTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
24 2 0.04
25 41 0.73
26 6 0.11
27 7 0.12
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (25 bp):
ACGAGCCAGACAAAATTTCACTCTT
Found at i:27415 original size:25 final size:25
Alignment explanation
Indices: 27360--27482 Score: 113
Period size: 25 Copynumber: 4.9 Consensus size: 25
27350 TGACTAAAAT
* *
27360 GAGCCTAGACAGAA-TATCACTCATAC
1 GAGCC-AGACAGAATTA-CGCTCTTAC
27386 GAGCCAGACAGAATTACGCTCTTAC
1 GAGCCAGACAGAATTACGCTCTTAC
* * ** *
27411 TAGCCAGACAAAATTTTGCTCTTAT
1 GAGCCAGACAGAATTACGCTCTTAC
* * *
27436 GAGCTAGACAGAATTTCGGTCTTAC
1 GAGCCAGACAGAATTACGCTCTTAC
* *
27461 GAGTCAAACAGAATTACGCTCT
1 GAGCCAGACAGAATTACGCTCT
27483 AATGAGCGAG
Statistics
Matches: 78, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
25 71 0.91
26 7 0.09
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (25 bp):
GAGCCAGACAGAATTACGCTCTTAC
Found at i:35702 original size:26 final size:26
Alignment explanation
Indices: 35650--35703 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
35640 CACCTAGGAA
* * *
35650 TGTTGTTGCATGAACATGTCCAGAAT
1 TGTTGCTGCATGAACATGACCAAAAT
**
35676 TGTTGCTGCATGAATGTGACCAAAAT
1 TGTTGCTGCATGAACATGACCAAAAT
35702 TG
1 TG
35704 CACCTAGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (26 bp):
TGTTGCTGCATGAACATGACCAAAAT
Found at i:44929 original size:47 final size:47
Alignment explanation
Indices: 44860--44955 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
44850 TTGTGACTTA
44860 TTTCCATCCTCACTTCCAGATTCCAAATAAGATAGGTGTTCTACTAC
1 TTTCCATCCTCACTTCCAGATTCCAAATAAGATAGGTGTTCTACTAC
44907 TTTCCATCCTCACTTCCAGATTCCAAATAAGATAGGTGTTCTACTAC
1 TTTCCATCCTCACTTCCAGATTCCAAATAAGATAGGTGTTCTACTAC
44954 TT
1 TT
44956 GGTTTTTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.35
Consensus pattern (47 bp):
TTTCCATCCTCACTTCCAGATTCCAAATAAGATAGGTGTTCTACTAC
Found at i:56678 original size:26 final size:26
Alignment explanation
Indices: 56619--56678 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
56609 ATTCACACAG
* *
56619 CGATATTTTTGAACAAGTTCCTACAA
1 CGATAATTCTGAACAAGTTCCTACAA
* * *
56645 CAACAATTCTGAACAAGTTCTTACAA
1 CGATAATTCTGAACAAGTTCCTACAA
56671 CGATAATT
1 CGATAATT
56679 TTGGGCGTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
CGATAATTCTGAACAAGTTCCTACAA
Found at i:60503 original size:18 final size:19
Alignment explanation
Indices: 60482--60518 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
60472 ACTTTTAATC
*
60482 ATTTTGAGACTT-TAATTT
1 ATTTTAAGACTTGTAATTT
60500 ATTTTAAGACTTGTAATTT
1 ATTTTAAGACTTGTAATTT
60519 TGGAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (19 bp):
ATTTTAAGACTTGTAATTT
Found at i:64705 original size:48 final size:48
Alignment explanation
Indices: 64649--64745 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
64639 TTCTCTATAG
64649 AAGGTTTAGGCACTTTAAAAGTATGACCAGATAAATTCAAGGATTCAA
1 AAGGTTTAGGCACTTTAAAAGTATGACCAGATAAATTCAAGGATTCAA
*
64697 AAGGTTTAGGCACTTTAAAAGTATGATCAGATAAATTCAAGGATTCAA
1 AAGGTTTAGGCACTTTAAAAGTATGACCAGATAAATTCAAGGATTCAA
64745 A
1 A
64746 CCTTCTTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (48 bp):
AAGGTTTAGGCACTTTAAAAGTATGACCAGATAAATTCAAGGATTCAA
Found at i:65500 original size:68 final size:68
Alignment explanation
Indices: 65391--65527 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
65381 TGAGCGCAAC
65391 TGTCTCAAACTCACCCAATCTTCGCTTCTTCAACAAAATATCTTTCATGAACTTAACATAATTGG
1 TGTCTCAAACTCACCCAATCTTCGCTTCTTCAACAAAATATCTTTCATGAACTTAACATAATTGG
65456 GCA
66 GCA
*
65459 TGTCTCAAACTCACCCAATCTTCGCTTCTTCGACAAAATATCTTTCATGAACTTAACATAATTGG
1 TGTCTCAAACTCACCCAATCTTCGCTTCTTCAACAAAATATCTTTCATGAACTTAACATAATTGG
65524 GCA
66 GCA
65527 T
1 T
65528 TTTCTCTAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (68 bp):
TGTCTCAAACTCACCCAATCTTCGCTTCTTCAACAAAATATCTTTCATGAACTTAACATAATTGG
GCA
Found at i:67048 original size:18 final size:18
Alignment explanation
Indices: 67025--67059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67015 TTTTTAATCG
*
67025 TTTTAAGACTTTGATTTA
1 TTTTAAGACTTTAATTTA
67043 TTTTAAGACTTTAATTT
1 TTTTAAGACTTTAATTT
67060 TTGGATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTTAAGACTTTAATTTA
Found at i:68642 original size:23 final size:23
Alignment explanation
Indices: 68590--68643 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
68580 ATGAATATAA
*
68590 ATAATTAAATGAAAACAATCAAAT
1 ATAATT-AATGAAAACAATAAAAT
*
68614 ATAATTAAT-AACACAATAAAGAT
1 ATAATTAATGAAAACAATAAA-AT
68637 ATAATTA
1 ATAATTA
68644 TAGTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 9 0.33
23 12 0.44
24 6 0.22
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (23 bp):
ATAATTAATGAAAACAATAAAAT
Found at i:68862 original size:18 final size:18
Alignment explanation
Indices: 68826--68864 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68816 AAATTAAGGC
*
68826 AAAAATACAAATAGTATA
1 AAAAATACAAATAGAATA
68844 AAAAATAACAAATA-AATA
1 AAAAAT-ACAAATAGAATA
68862 AAA
1 AAA
68865 TACATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAAATACAAATAGAATA
Found at i:68893 original size:22 final size:21
Alignment explanation
Indices: 68858--68903 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
68848 ATAACAAATA
*
68858 AATAAAATACAT-AAAACAATG
1 AATAAAATAAATAAAAACAA-G
68879 AATAAAATTAAATAAAAACAAG
1 AATAAAA-TAAATAAAAACAAG
68901 AAT
1 AAT
68904 GTAAATAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 8 0.36
23 7 0.32
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (21 bp):
AATAAAATAAATAAAAACAAG
Found at i:68922 original size:18 final size:18
Alignment explanation
Indices: 68882--68931 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
68872 AACAATGAAT
68882 AAAAT-TAAATAA-AAAC
1 AAAATGTAAATAACAAAC
*
68898 AAGAATGTAAATAACAAAG
1 AA-AATGTAAATAACAAAC
68917 AAAATG--AATAACAAA
1 AAAATGTAAATAACAAA
68932 TAAATAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 11 0.37
19 5 0.17
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (18 bp):
AAAATGTAAATAACAAAC
Found at i:68938 original size:4 final size:4
Alignment explanation
Indices: 68929--68969 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
68919 AATGAATAAC
* *
68929 AAAT AAAT -AAT AAAT AAAT AAAT AAA- CAAT AAAT ATAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
68970 GTGCAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
3 5 0.16
4 26 0.84
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:68947 original size:15 final size:15
Alignment explanation
Indices: 68929--68969 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
68919 AATGAATAAC
68929 AAATAAATAATA-AAT
1 AAATAAATAA-ACAAT
68944 AAATAAATAAACAAT
1 AAATAAATAAACAAT
*
68959 AAATATATAAA
1 AAATAAATAAA
68970 GTGCAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAAACAAT
Found at i:68953 original size:19 final size:19
Alignment explanation
Indices: 68929--68969 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
68919 AATGAATAAC
*
68929 AAATAAATAATAAATAAAT
1 AAATAAACAATAAATAAAT
*
68948 AAATAAACAATAAATATAT
1 AAATAAACAATAAATAAAT
68967 AAA
1 AAA
68970 GTGCAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAACAATAAATAAAT
Found at i:68963 original size:11 final size:10
Alignment explanation
Indices: 68846--68950 Score: 50
Period size: 11 Copynumber: 9.7 Consensus size: 10
68836 ATAGTATAAA
68846 AAATAACAAAT
1 AAATAA-AAAT
68857 AAAT-AAAAT
1 AAATAAAAAT
*
68866 ACATAAAACAAT
1 AAAT-AAA-AAT
* *
68878 GAATAAAATT
1 AAATAAAAAT
*
68888 AAATAAAAACA
1 AAATAAAAA-T
**
68899 AGAATGTAAAT
1 A-AATAAAAAT
*
68910 AACAAAGAAAAT
1 AA-ATA-AAAAT
*
68922 GAATAACAAAT
1 AAATAA-AAAT
68933 AAATAATAAAT
1 AAATAA-AAAT
68944 AAATAAA
1 AAATAAA
68951 TAAACAATAA
Statistics
Matches: 69, Mismatches: 17, Indels: 17
0.67 0.17 0.17
Matches are distributed among these distances:
9 7 0.10
10 13 0.19
11 33 0.48
12 16 0.23
ACGTcount: A:0.70, C:0.06, G:0.05, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:70030 original size:45 final size:45
Alignment explanation
Indices: 69918--70493 Score: 565
Period size: 45 Copynumber: 12.8 Consensus size: 45
69908 GGTGTTGTAA
* * *
69918 CTTCAATCTG-CCCTTTGGATTTAGGGATAAAAGATTGGATTTGG-TG
1 CTTCAATCTGCCCCTCTAGA-TTAGGGGTAAAAGATTGGA--TGGTTG
* **
69964 ACTTCAATCTACCCCTCTAGATTAGGTATAAAAGATTGGATGGTTG
1 -CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * *
70010 CTTCAATCTGCCCCTTTAGATTAAGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * *
70055 CTTCAATCTGTCCCTCTGGATTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* ** *
70100 CTTCAATCTACCCCTCTAGATTAGGGGTAAAAGAACGGATGGTTT
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* *
70145 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGACTGGATGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * * * **
70190 CTTCAATCTACCCCTTTAGATTAGTGGCAAAAGACTAAATGGTTG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * * *
70235 CTTCAATCTTCCCCTCTTGGTTAGGGGTGAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* * *
70280 CTTCAATCTTCCCCTCTGGAATT-GGGGTAAAAGATTAGATGGTTG
1 CTTCAATCTGCCCCTCTAG-ATTAGGGGTAAAAGATTGGATGGTTG
* * *
70325 CATCAATCTGCCCCTC-CGAATTAGGGGTAAAAGATTGG-TTGTTGG
1 CTTCAATCTGCCCCTCTAG-ATTAGGGGTAAAAGATTGGATGGTT-G
*** * * * * *
70370 CTTCAATCAAACCCTTTGGATTACGGGTAAAAGACTAGATGG-TG
1 CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
* *
70414 ACTTCAATCTGCCTCTCTAGGTTAGGGGTAAAAGATTGGAT--TATG
1 -CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGT-TG
* * *
70459 TCTTAAATTTGCCCCTCTAGATTAGAGGTAAAAGA
1 -CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGA
70494 CTAGATGATA
Statistics
Matches: 439, Mismatches: 80, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
44 10 0.02
45 388 0.88
46 7 0.02
47 27 0.06
48 7 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTTG
Found at i:70782 original size:98 final size:97
Alignment explanation
Indices: 70651--70919 Score: 222
Period size: 98 Copynumber: 2.7 Consensus size: 97
70641 GTCGTTATGG
* ** * **
70651 CTTCAATCTTTCCCTCTTTGATTTTAGGATGTAAGATTTGTCATTGAAGCTTCAATATTTCCCTC
1 CTTCAATCTATCCCTCTTCAATTTAAGG-TGTAAGATTCATCATTGAAGCTTCAATATTTCCCTC
* *
70716 TTCGATTTTAAGGTGTTAGG-TCTACCATCGTG-G-
65 TTCGATTTTAAGGTATTAGGTTC-A-C-TAGTGCGA
* * ** * * *
70749 TTTCAATCTATCCCTCTTCAACTTTAAGGTGTAAGATTCATCGTTGTGGCTTCAATCTTTCCTTT
1 CTTCAATCTATCCCTCTTCAA-TTTAAGGTGTAAGATTCATCATTGAAGCTTCAATATTTCCCTC
**
70814 TTCGATTTTGGGGTATTAGGTTCACTAGTGCGA
65 TTCGATTTTAAGGTATTAGGTTCACTAGTGCGA
* * * * * * *
70847 CTTCAACCTATCCTTCTTCAATTTTAAGGTGTAAGATCCATCGTT-ACGATTTCAATCTTTCCCT
1 CTTCAATCTATCCCTCTTCAA-TTTAAGGTGTAAGATTCATCATTGAAG-CTTCAATATTTCCCT
*
70911 CTTTGATTT
64 CTTCGATTT
70920 AGGGTGTTAA
Statistics
Matches: 138, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
96 4 0.03
97 3 0.02
98 123 0.89
99 8 0.06
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (97 bp):
CTTCAATCTATCCCTCTTCAATTTAAGGTGTAAGATTCATCATTGAAGCTTCAATATTTCCCTCT
TCGATTTTAAGGTATTAGGTTCACTAGTGCGA
Found at i:70803 original size:49 final size:49
Alignment explanation
Indices: 70600--70891 Score: 171
Period size: 49 Copynumber: 5.9 Consensus size: 49
70590 GCCGTTACGA
* * * *
70600 CTTCAACCTATCCCTTTTCAATTTTGTAAGGTGTAAGA-TCTGTCGTTATGG
1 CTTCAATCTATCCCTCTTCAA-TTT-TAAGGTGTAAGATTC-ATCGTTGTGG
* ** ** * **
70651 CTTCAATCTTTCCCTCTTTGATTTT-AGGATGTAAGATTTGTCATTGAAG
1 CTTCAATCTATCCCTCTTCAATTTTAAGG-TGTAAGATTCATCGTTGTGG
* * * * * * * *
70700 CTTCAATATTTCCCTCTTCGATTTTAAGGTGTTAG-GTCTACCATCGTGG
1 CTTCAATCTATCCCTCTTCAATTTTAAGGTGTAAGATTC-ATCGTTGTGG
* *
70749 TTTCAATCTATCCCTCTTCAACTTTAAGGTGTAAGATTCATCGTTGTGG
1 CTTCAATCTATCCCTCTTCAATTTTAAGGTGTAAGATTCATCGTTGTGG
* * * * ** * * * *
70798 CTTCAATCTTTCCTTTTTCGATTTTGGGGTATTAGGTTCA-C-TAGTGCG
1 CTTCAATCTATCCCTCTTCAATTTTAAGGTGTAAGATTCATCGTTGTG-G
* * *
70846 ACTTCAACCTATCCTTCTTCAATTTTAAGGTGTAAGATCCATCGTT
1 -CTTCAATCTATCCCTCTTCAATTTTAAGGTGTAAGATTCATCGTT
70892 ACGATTTCAA
Statistics
Matches: 179, Mismatches: 53, Indels: 18
0.72 0.21 0.07
Matches are distributed among these distances:
47 4 0.02
48 6 0.03
49 142 0.79
50 10 0.06
51 17 0.09
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (49 bp):
CTTCAATCTATCCCTCTTCAATTTTAAGGTGTAAGATTCATCGTTGTGG
Found at i:70988 original size:48 final size:48
Alignment explanation
Indices: 70854--71009 Score: 161
Period size: 48 Copynumber: 3.2 Consensus size: 48
70844 CGACTTCAAC
* * * *
70854 CTATCCTTCTTCAATTTTAAGGTGTAAGATCCATCGTTACGATTTCAAT
1 CTATCCCTCTTCAATTTTAGGGTGTTAGATCTATCGTTACGATTT-AAT
* ** * *
70903 CTTTCCCTCTTTGA-TTTAGGGTGTTAAATCTACCGTTACGATTTAAT
1 CTATCCCTCTTCAATTTTAGGGTGTTAGATCTATCGTTACGATTTAAT
* * * * *
70950 CTATCCCTCTTCAATTTTAGGGTGTTAGGTTTGTCGTTACTGCTTTAAC
1 CTATCCCTCTTCAATTTTAGGGTGTTAGATCTATCGTTAC-GATTTAAT
70999 CTATCCCTCTT
1 CTATCCCTCTT
71010 AAACTTTATG
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 14 0.16
48 45 0.52
49 27 0.31
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (48 bp):
CTATCCCTCTTCAATTTTAGGGTGTTAGATCTATCGTTACGATTTAAT
Found at i:80966 original size:14 final size:15
Alignment explanation
Indices: 80942--80970 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
80932 AACATATATA
80942 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
80957 CAAT-AAATGCAAAG
1 CAATAAAATGCAAAG
80971 GAACACAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Done.