Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012232.1 Kokia drynarioides strain JFW-HI SEQ_127233, 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: 26803
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:781 original size:29 final size:30
Alignment explanation
Indices: 676--983 Score: 194
Period size: 29 Copynumber: 10.5 Consensus size: 30
666 TTTATTTGCA
*
676 CATTTTTA-CCCTAGAACTTTTCCAAAATTT
1 CATTTTAACCCCTA-AACTTTTCCAAAATTT
* * * *
706 CATTTTGATCCCTAAACTTTTCTAAAATTA
1 CATTTTAACCCCTAAACTTTTCCAAAATTT
*
736 CATTTTAACCCCTAAACTTTTCCATAATTT
1 CATTTTAACCCCTAAACTTTTCCAAAATTT
* *
766 TA-TTTAACCCTTAAACTTTTCCAAAATTT
1 CATTTTAACCCCTAAACTTTTCCAAAATTT
* * **
795 TA-TTTGACCCCTAAAC---TCCTAAAATCA
1 CATTTTAACCCCTAAACTTTTCC-AAAATTT
* * * *
822 CATTTTGA-CTCTAAAC-TATCCTAAAATCAT
1 CATTTTAACCCCTAAACTTTTCC-AAAAT-TT
* * *
852 -ATTTTGA-CCTTAAACTTTAT-CAAAATTA
1 CATTTTAACCCCTAAACTTT-TCCAAAATTT
* **
880 CATCTTAACCCCTAAACATTTTCCAAAATCA
1 CATTTTAACCCCTAAAC-TTTTCCAAAATTT
* **
911 CATTTTAA-CCCTAAACTTTTCTAAAATCA
1 CATTTTAACCCCTAAACTTTTCCAAAATTT
* * *
940 CATTTTAA-CCTTAATCTTTCCCAAAATTAT
1 CATTTTAACCCCTAAACTTTTCCAAAATT-T
*
970 -ATTTTTACCCCTAA
1 CATTTTAACCCCTAA
984 TTATTTCTAA
Statistics
Matches: 226, Mismatches: 38, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.01
27 13 0.06
28 5 0.02
29 112 0.50
30 70 0.31
31 23 0.10
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.40
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTTCCAAAATTT
Found at i:790 original size:89 final size:88
Alignment explanation
Indices: 690--1003 Score: 311
Period size: 89 Copynumber: 3.6 Consensus size: 88
680 TTTACCCTAG
* *
690 AACTTTTCCAAAATTTCATTTTGATCCCTAAACTTTTCTAAAATTACATTTTAACCCCTAAACTT
1 AACTTTTCCAAAATTTCATTTTGACCCCTAAACTTTTCTAAAATCACATTTTAA-CCCTAAACTT
* **
755 TTCCATAATTTTA-TTTAACCCTTA
65 TTCCAAAATCATATTTTAA-CCTTA
* * * * *
779 AACTTTTCCAAAATTTTA-TTTGACCCCTAAAC--TCCTAAAATCACATTTTGACTCTAAAC-TA
1 AACTTTTCCAAAATTTCATTTTGACCCCTAAACTTTTCTAAAATCACATTTTAACCCTAAACTTT
*
840 TCCTAAAATCATATTTTGACCTTA
66 TCC-AAAATCATATTTTAACCTTA
* * * *
864 AACTTTAT-CAAAATTACATCTTAACCCCTAAACATTTTCCAAAATCACATTTTAACCCTAAACT
1 AACTTT-TCCAAAATTTCATTTTGACCCCTAAAC-TTTTCTAAAATCACATTTTAACCCTAAACT
* *
928 TTTCTAAAATCACATTTTAACCTTA
64 TTTCCAAAATCATATTTTAACCTTA
* * * * *
953 ATCTTTCCCAAAATTAT-ATTTTTACCCCT-AATTATTTCTAAAATTACATTT
1 AACTTTTCCAAAATT-TCATTTTGACCCCTAAACT-TTTCTAAAATCACATTT
1004 GGACCTCGTA
Statistics
Matches: 183, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
84 4 0.02
85 32 0.17
86 33 0.18
87 1 0.01
88 30 0.16
89 80 0.44
90 3 0.02
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.40
Consensus pattern (88 bp):
AACTTTTCCAAAATTTCATTTTGACCCCTAAACTTTTCTAAAATCACATTTTAACCCTAAACTTT
TCCAAAATCATATTTTAACCTTA
Found at i:6656 original size:6 final size:6
Alignment explanation
Indices: 6645--6677 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
6635 AAATAAAAAG
6645 AAAGAA AAAGAA AAAGAA AAAGAAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AA
6678 GGAGAGTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:7787 original size:49 final size:49
Alignment explanation
Indices: 7608--7934 Score: 243
Period size: 49 Copynumber: 6.7 Consensus size: 49
7598 AATGAATTCA
**
7608 ATACCATGAAGATCAGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCG
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCG
* * * * * ** *
7657 ATACCTTAAAAGACGTGATA-AG-AAGGATTAAGGCCAAAACGGTGAATCC-
1 ATACCAT-GAAGATGTGA-AGGGAAAGG-TTGAGGCCGTAACGGTGAACCCG
* **
7706 AGTACCATGAAG-TGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCCG
1 A-TACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCG
* * *
7755 GTACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGTAACGGTGAACTCG
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCG
* * * * **
7804 ATACCATGAAGATTTAAAGGGAAAGGTTGAGGCTGCAACGACGAACCCG
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCG
* * * * * * ** ** *
7853 ATACCTTAAATGACGAGATGGG-AAGGATTGAGGTCACAACGGCAAATCCG
1 ATACCATGAA-GATGTGAAGGGAAAGG-TTGAGGCCGTAACGGTGAACCCG
* *
7903 ATACCATGAA-ATGTGATGGGAAAGGTTAAGGC
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGC
7935 TGCAACAGCG
Statistics
Matches: 214, Mismatches: 53, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
48 44 0.21
49 108 0.50
50 61 0.29
51 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (49 bp):
ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCG
Found at i:7947 original size:98 final size:98
Alignment explanation
Indices: 7608--7940 Score: 325
Period size: 98 Copynumber: 3.4 Consensus size: 98
7598 AATGAATTCA
** * **
7608 ATACCATGAAGATCAGAAGGGAAAGGTTGAGGCCGTAACGGTGAACCCGATACCTTAAAAGACGT
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTT-AAAGACGT
** *
7673 GATAAGAAGGATTAAGGCCAAAACGGTGAATCC-
65 GATGGGAAGGATTGAGGCCAAAACGGTGAATCCG
* * * * * **
7706 AGTACCATGAAG-TGTGATGGGAAAGGTTGAGGCCGTAACGACGAACCCGGTACCATGAAGATTT
1 A-TACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAAAGACGT
* **
7770 GAAGGGAAAGG-TTGAGGCCGTAACGGTGAA-CTCG
65 GATGGG-AAGGATTGAGGCCAAAACGGTGAATC-CG
* * * *
7804 ATACCATGAAGATTTAAAGGGAAAGGTTGAGGCTGCAACGACGAACCCGATACCTTAAATGACGA
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAAA-GACGT
* * **
7869 GATGGGAAGGATTGAGGTCACAACGGCAAATCCG
65 GATGGGAAGGATTGAGGCCAAAACGGTGAATCCG
* * *
7903 ATACCATGAA-ATGTGATGGGAAAGGTTAAGGCTGCAAC
1 ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAAC
7941 AGCGAACATG
Statistics
Matches: 190, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
96 1 0.01
97 35 0.18
98 110 0.58
99 43 0.23
100 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (98 bp):
ATACCATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAAAGACGTG
ATGGGAAGGATTGAGGCCAAAACGGTGAATCCG
Found at i:8146 original size:11 final size:11
Alignment explanation
Indices: 8130--8154 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8120 GAAATTGGAT
8130 TAAAACTACAG
1 TAAAACTACAG
8141 TAAAACTACAG
1 TAAAACTACAG
8152 TAA
1 TAA
8155 CAAATCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (11 bp):
TAAAACTACAG
Found at i:8288 original size:39 final size:39
Alignment explanation
Indices: 8206--8308 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
8196 GTTACATCAT
* *
8206 CATCCAATCTCTTACCCCAATCATGGGGCAAATTGCAGT
1 CATCCAATCTCTTACCCCAATCATGGGGCAAATTACAGA
*** * * *
8245 CATCCAATCTCTTACCTTGATCTTGGGTCAGATTACAGA
1 CATCCAATCTCTTACCCCAATCATGGGGCAAATTACAGA
* * * *
8284 CATCCGATATTTTACCCCGATCATG
1 CATCCAATCTCTTACCCCAATCATG
8309 AGACAGATTG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (39 bp):
CATCCAATCTCTTACCCCAATCATGGGGCAAATTACAGA
Found at i:8430 original size:44 final size:45
Alignment explanation
Indices: 8325--8443 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 45
8315 ATTGAGTCAT
* * *
8325 TCCAAACTTTTACCCCTAA-TCAAGAGGGGTCGATTACAGCCATCA
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGGTAGATTACAGACA-CA
*
8370 TCCAATCTTTTACCCCTAAGTCAAGAGGGGNAGATTGA-AGACA-A
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGGTAGATT-ACAGACACA
** *
8414 TCTGATCTTTTACCCCTAAGTCAAGGGGGG
1 TCCAATCTTTTACCCCTAAGTCAAGAGGGG
8444 CGAATTGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
44 28 0.43
45 18 0.28
46 18 0.28
47 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.25
Consensus pattern (45 bp):
TCCAATCTTTTACCCCTAAGTCAAGAGGGGTAGATTACAGACACA
Found at i:8640 original size:46 final size:45
Alignment explanation
Indices: 8542--8648 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 45
8532 AATTGAAATC
*
8542 CGATCTCATACCCTTGAGTCAAGAGAGACAGATCGAAGCCATCAT
1 CGATCTCATACCCTTAAGTCAAGAGAGACAGATCGAAGCCATCAT
* * * * *
8587 CAAATCTCATACCCTTAAGTCAAGAGGGGCAGATTGAAGTCATCATT
1 C-GATCTCATACCCTTAAGTCAAGAGAGACAGATCGAAGCCATCA-T
8634 CGATCTCATATCCCT
1 CGATCTCATA-CCCT
8649 GGTTCATTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.02
46 45 0.87
47 6 0.12
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (45 bp):
CGATCTCATACCCTTAAGTCAAGAGAGACAGATCGAAGCCATCAT
Found at i:8874 original size:47 final size:47
Alignment explanation
Indices: 8804--8893 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
8794 ACCAAATCCG
* **
8804 TCTTCCTAATAAGATACAGAGAAGTAGATTAAATCAATGAAGCGTCA
1 TCTTCCTAATAAGATACAAAGAAGTAGACCAAATCAATGAAGCGTCA
* * *
8851 TCTTCCTGATGAGATACAAAGAAGTAGACCAAATCGATGAAGC
1 TCTTCCTAATAAGATACAAAGAAGTAGACCAAATCAATGAAGC
8894 AAAGCTCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (47 bp):
TCTTCCTAATAAGATACAAAGAAGTAGACCAAATCAATGAAGCGTCA
Found at i:9072 original size:85 final size:85
Alignment explanation
Indices: 8928--9094 Score: 244
Period size: 85 Copynumber: 2.0 Consensus size: 85
8918 GAACCCTCAA
* * * * *
8928 CTTCTTGATGAGATACTGAGAAGTGGTTTGAAGCAATAAAGTGGTCATCTTCCTAATGAGATACA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAAGCAACAAAGCGGTCATCTTCCTAATGAGATACA
8993 GAGAAGTAGACCAAATCTGT
66 GAGAAGTAGACCAAATCTGT
* * * * *
9013 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAACGAAGCGGTCATCTTCTTGATGAGCTACA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAAGCAACAAAGCGGTCATCTTCCTAATGAGATACA
9078 GAGAAGTAGACCAAATC
66 GAGAAGTAGACCAAATC
9095 GACGAAGCGA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (85 bp):
CTTCTTGATGAGATACAGAGAAGTGGATTAAAGCAACAAAGCGGTCATCTTCCTAATGAGATACA
GAGAAGTAGACCAAATCTGT
Found at i:9083 original size:48 final size:48
Alignment explanation
Indices: 9012--9103 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
9002 ACCAAATCTG
* **
9012 TCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAACGAAGCGGTCA
1 TCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCGGTCA
* *
9060 TCTTCTTGATGAGCTACAGAGAAGTAGACCAAATCGACGAAGCG
1 TCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCG
9104 AAGCTCAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (48 bp):
TCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAACGAAGCGGTCA
Found at i:9176 original size:209 final size:209
Alignment explanation
Indices: 8714--9370 Score: 917
Period size: 209 Copynumber: 3.1 Consensus size: 209
8704 ACAGATCAAA
* * * *
8714 CCCCATCTTCTTGATGAGATGCTGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCCTAATGA
1 CCCCATCTTCTTGATGAGATACTAAGAAGTTGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGA
* * *
8779 GATACAGAGAAGTAGACCAAATCCGTCTTCCTAATAAGATACAGAGAAGTAGATTAAATCAATGA
66 GATACAGAGAAGTAGACCAAATCTGTCTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGA
* * *
8844 AGC-GTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCGATGAAGCAAAGCTCAATATGA
131 AGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGA
8908 GTGAAACTTCGAAC
196 GTGAAACTTCGAAC
* * * ** *
8922 CCTCAACTTCTTGATGAGATACTGAGAAG-TGGTTTGAAGCAATAAAGTGGTCATCTTCCTAATG
1 CCCCATCTTCTTGATGAGATACTAAGAAGTTGG-TCAAAGCAATAAAGCGGTCATCTTCCTAATG
* * *
8986 AGATACAGAGAAGTAGACCAAATCTGTCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAACG
65 AGATACAGAGAAGTAGACCAAATCTGTCTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATG
* * *
9051 AAGCGGTCATCTTCTTGATGAGCTACAGAGAAGTAGACCAAATCGACGAAGCGAAGCTCAATGTG
130 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTG
* *
9116 AATGAAACTTTGAAC
195 AGTGAAACTTCGAAC
* * * *
9131 CCCCATCTTCCTGATGAGATACTAAGAAGTTGGTCAAAGCAATAAAGCGGTCGTCATCCTGATGA
1 CCCCATCTTCTTGATGAGATACTAAGAAGTTGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGA
* * * *
9196 GATATAAAGAAGT-GAACCAAATCTATCTTCCTAATGAGATACAGAGAAGTGGATTAAAACAAAT
66 GATACAGAGAAGTAG-ACCAAATCTGTCTTCCTAATGAGATACAGAGAAGTGGATTAAATC-AAT
* * *
9260 GAGGCGGTCATCTTCCTGATGAAATACAGAGAAGTATACCAAATCGATGAAGCGAAGCTCAATGT
129 GAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGT
*
9325 GAGTGAAACTTCAAAC
194 GAGTGAAACTTCGAAC
*
9341 CCTCATCTTCTTGATGAGATAC-AGAGAAGT
1 CCCCATCTTCTTGATGAGATACTA-AGAAGT
9371 AAACCAAATC
Statistics
Matches: 393, Mismatches: 50, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
207 2 0.01
208 117 0.30
209 171 0.44
210 103 0.26
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (209 bp):
CCCCATCTTCTTGATGAGATACTAAGAAGTTGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGA
GATACAGAGAAGTAGACCAAATCTGTCTTCCTAATGAGATACAGAGAAGTGGATTAAATCAATGA
AGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGA
GTGAAACTTCGAAC
Found at i:9301 original size:86 final size:85
Alignment explanation
Indices: 9135--9304 Score: 193
Period size: 86 Copynumber: 2.0 Consensus size: 85
9125 TTGAACCCCC
* * * *
9135 ATCTTCCTGATGAGATACTAAGAAGTTGGTCAAAGCAATAAAGCGGTCGTCATCCTGATGAGATA
1 ATCTTCCTAATGAGATACTAAGAAGTTGGTCAAAACAATAAAGCGGTCATCATCCTGATGAAATA
*
9200 TAAAGAAGTGAACCAAATCT
66 CAAAGAAGTGAACCAAATCT
* * * *
9220 ATCTTCCTAATGAGATAC-AGAGAAG-TGGATTAAAACAAATGAGGCGGTCATCTTCCTGATGAA
1 ATCTTCCTAATGAGATACTA-AGAAGTTGG-TCAAAAC-AATAAAGCGGTCATCATCCTGATGAA
*
9283 ATACAGAGAAGT-ATACCAAATC
63 ATACAAAGAAGTGA-ACCAAATC
9305 GATGAAGCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
84 4 0.06
85 28 0.39
86 39 0.55
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (85 bp):
ATCTTCCTAATGAGATACTAAGAAGTTGGTCAAAACAATAAAGCGGTCATCATCCTGATGAAATA
CAAAGAAGTGAACCAAATCT
Found at i:9379 original size:286 final size:285
Alignment explanation
Indices: 9057--9666 Score: 884
Period size: 286 Copynumber: 2.1 Consensus size: 285
9047 AACGAAGCGG
* *
9057 TCATCTTCTTGATGAGCTACAGAGAAGTAGACCAAATCGACGAAGCGAAGCTCAATGTGAATGAA
1 TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCGACGAAGCGAAGCTCAATATGAATGAA
* *
9122 ACTTTGAACCCCCATCTTCCTGATGAGATACTAAGAAGTTG-GTCAAAGCAATAAAGCGGTCGTC
66 ACTTCGAACCCCCATCTTCCTGATGAGATACTAAGAAG-TGAGTCAAAGCAATAAAGCGGTCATC
* *
9186 ATCCTGATGAGATATAAAGAAGT-GAACCAAA-TCTATCTTCCTAATGAGATACAGAGAAGTGGA
130 ATCCTAATGAGATACAAAGAAGTAG-ACCAAATTC-ATCTTCCTAATGAGATACAGAGAAGTGGA
*
9249 TTAAAACAAATGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGTATACCAAATCGATGAAGCG
193 TTAAAACAAATGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCGATGAAGCG
*
9314 AAGCTCAATGTGAGTGAAACTTCAAACCC
258 AAGCTCAATGTAAGTGAAACTTCAAA-CC
* * *
9343 TCATCTTCTTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCGAAGCTCAATATGAGTGAA
1 TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCGACGAAGCGAAGCTCAATATGAATGAA
* * * *
9408 ACTTCGAACCCCTATCTTCCTGATGAGATACTGAGAAGTGAGTTAAAGCAATAAAGCGGTCATCT
66 ACTTCGAACCCCCATCTTCCTGATGAGATACTAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCA
* * * * *
9473 TCCTAATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATGGGATACAGAGAAGTGGTTTA
131 TCCTAATGAGATACAAAGAAGTAGACCAAATTCATCTTCCTAATGAGATACAGAGAAGTGGATTA
* * *
9538 AAACAAATGAGGCGGTCATCTTTCTGATGAGATACAGAGAAGTAGACCAAATCGATGAAGTGAAG
196 AAACAAATGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCGATGAAGCGAAG
* **
9603 CTCAATGTAAGTGAAAGTTTGAACC
261 CTCAATGTAAGTGAAACTTCAAACC
** * *
9628 TCCATCTTCCCGATGAGATACTGAGAAGTGGACCAAATC
1 T-CATCTTCTTGATGAGATACAGAGAAGTAGACCAAATC
9667 TGTCTTCCTG
Statistics
Matches: 289, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
285 5 0.02
286 281 0.97
287 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (285 bp):
TCATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCGACGAAGCGAAGCTCAATATGAATGAA
ACTTCGAACCCCCATCTTCCTGATGAGATACTAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCA
TCCTAATGAGATACAAAGAAGTAGACCAAATTCATCTTCCTAATGAGATACAGAGAAGTGGATTA
AAACAAATGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCGATGAAGCGAAG
CTCAATGTAAGTGAAACTTCAAACC
Found at i:9393 original size:76 final size:76
Alignment explanation
Indices: 9267--9446 Score: 290
Period size: 76 Copynumber: 2.4 Consensus size: 76
9257 AATGAGGCGG
* * *
9267 TCATCTTCCTGATGAAATACAGAGAAGTATACCAAATCGATGAAGCGAAGCTCAATGTGAGTGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCGAAGCTCAATATGAGTGAA
9332 ACTTCAAACCC
66 ACTTCAAACCC
*
9343 TCATCTTCTTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCGAAGCTCAATATGAGTGAA
1 TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCGAAGCTCAATATGAGTGAA
*
9408 ACTTCGAACCC
66 ACTTCAAACCC
*
9419 -CTATCTTCCTGATGAGATACTGAGAAGT
1 TC-ATCTTCCTGATGAGATACAGAGAAGT
9447 GAGTTAAAGC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
75 1 0.01
76 95 0.99
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (76 bp):
TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCGATGAAGCGAAGCTCAATATGAGTGAA
ACTTCAAACCC
Found at i:9581 original size:86 final size:85
Alignment explanation
Indices: 9422--9589 Score: 248
Period size: 86 Copynumber: 2.0 Consensus size: 85
9412 CGAACCCCTA
* *
9422 TCTTCCTGATGAGATACTGAGAAGTGAGTTAAAGCAATAAAGCGGTCATCTTCCTAATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGAGTTAAAACAATAAAGCGGTCATCTTCCTAATGAGATAC
9487 AGAGAAGTAGACCAAATTCG
66 AGAGAAGTAGACCAAATTCG
* * * * *
9507 TCTTCCTGATGGGATACAGAGAAGTG-GTTTAAAACAAATGAGGCGGTCATCTTTCTGATGAGAT
1 TCTTCCTGATGAGATACAGAGAAGTGAG-TTAAAAC-AATAAAGCGGTCATCTTCCTAATGAGAT
9571 ACAGAGAAGTAGACCAAAT
64 ACAGAGAAGTAGACCAAAT
9590 CGATGAAGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 1 0.01
85 30 0.41
86 43 0.58
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAGTGAGTTAAAACAATAAAGCGGTCATCTTCCTAATGAGATAC
AGAGAAGTAGACCAAATTCG
Found at i:9664 original size:162 final size:162
Alignment explanation
Indices: 9468--9820 Score: 521
Period size: 162 Copynumber: 2.2 Consensus size: 162
9458 ATAAAGCGGT
* * * *
9468 CATCTTCCTAATGAGATACAGAGAAGTAGACCAAAT-TCGTCTTCCTGATGGGATACAGAGAAGT
1 CATCTTCCTGATGAGATACTGAGAAGTGGACCAAATCT-GTCTTCCTGATGAGATACAGAGAAGT
* * *
9532 GGTTTAAAACAAATGAGGCGGTCATCTTTCTG-ATGAGATACAGAGAAGTAGACCAAATCGATGA
65 GGATTAAAACAAATGAGGCGGTCATC-TTCCGAATGAGATAAAGAGAAGTAGACCAAATCGATGA
* * * *
9596 AGTGAAGCTCAATGTAAGTGAAAGTTTGAACCTC
129 AGCGAAGCTCAATGTAAGTAAAACTTTGAACCCC
* *
9630 CATCTTCCCGATGAGATACTGAGAAGTGGACCAAATCTGTCTTCCTGATGAGATATAGAGAAGTG
1 CATCTTCCTGATGAGATACTGAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTG
9695 GATTAAAACAAATGAGGCGGTCATCTTCCGAATGAGATAAAGAGAAGTAGACCAAATCGATGAAG
66 GATTAAAACAAATGAGGCGGTCATCTTCCGAATGAGATAAAGAGAAGTAGACCAAATCGATGAAG
* *
9760 CGAAGCTCAATGTGATTAAAACTTTGAACCCC
131 CGAAGCTCAATGTAAGTAAAACTTTGAACCCC
* *
9792 CATCTTCCTGATGACATACTAAGAAGTGG
1 CATCTTCCTGATGAGATACTGAGAAGTGG
9821 GTCGAAGCAA
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
161 4 0.02
162 166 0.97
163 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (162 bp):
CATCTTCCTGATGAGATACTGAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTG
GATTAAAACAAATGAGGCGGTCATCTTCCGAATGAGATAAAGAGAAGTAGACCAAATCGATGAAG
CGAAGCTCAATGTAAGTAAAACTTTGAACCCC
Found at i:11683 original size:30 final size:30
Alignment explanation
Indices: 11647--11810 Score: 197
Period size: 30 Copynumber: 5.5 Consensus size: 30
11637 AAACCACATA
* **
11647 TAACCCTCTAACTTTTTTAAAATTTCATTT
1 TAACCCTCAAACTTTTCCAAAATTTCATTT
*
11677 TAACCCTCAAACTTTTCTAAAATTTCATTT
1 TAACCCTCAAACTTTTCCAAAATTTCATTT
* **
11707 TGACCCTCGTACTTTTCCAAAATTAT-ATTT
1 TAACCCTCAAACTTTTCCAAAATT-TCATTT
*
11737 TAACCC-CTAGACTTTTCCAAAATTTCATTT
1 TAACCCTC-AAACTTTTCCAAAATTTCATTT
* *
11767 TAACTCTCAAACTTCTCCAAAATTTCATTT
1 TAACCCTCAAACTTTTCCAAAATTTCATTT
*
11797 TGACCCTCAAACTT
1 TAACCCTCAAACTT
11811 ACCCACAATC
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.02
30 112 0.97
31 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
TAACCCTCAAACTTTTCCAAAATTTCATTT
Found at i:11827 original size:90 final size:89
Alignment explanation
Indices: 11625--11953 Score: 267
Period size: 90 Copynumber: 3.7 Consensus size: 89
11615 TTTAGAACCA
* * * * ** *
11625 CAAACTTTCTCAAAACCACA-TATAACCCTCTAACTTTTTTAAAATTTCATTTTAACCCTCAAAC
1 CAAACTTACCCAAAATCACATTTTAACCC-CTAACTTTTCCAAAATTTCATTTTAACTCTCAAAC
* *
11689 TTTTCTAAAATTTCATTTTGACCCT
65 TTCTCCAAAATTTCATTTTGACCCT
** ** * *
11714 CGTACTTTTCCAAAATTATATTTTAACCCCTAGACTTTTCCAAAATTTCATTTTAACTCTCAAAC
1 CAAACTTACCCAAAATCACATTTTAACCCCTA-ACTTTTCCAAAATTTCATTTTAACTCTCAAAC
11779 TTCTCCAAAATTTCATTTTGACCCT
65 TTCTCCAAAATTTCATTTTGACCCT
* * * * ** *
11804 CAAACTTACCCACAATCACATTTTGA-CCTTAAACTTTCCCAAAATCACATTTTGACTCT-AAAC
1 CAAACTTACCCAAAATCACATTTTAACCCCT-AACTTTTCCAAAATTTCATTTTAACTCTCAAAC
* *
11867 TTCAT-CGAAATTACATTTTGACCC-
65 TTC-TCCAAAATTTCATTTTGACCCT
* * * * * * * *
11891 CTATACCTT-CCTAAAATCACATTTTGACCCCAAAC-TTCCCAAAATTACATTTTTACCCTCAAA
1 C-A-AACTTACCCAAAATCACATTTTAACCCCTAACTTTTCCAAAATTTCATTTTAACTCTCAAA
11954 TTTTTTTGAA
Statistics
Matches: 196, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
87 22 0.11
88 47 0.24
89 49 0.25
90 78 0.40
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (89 bp):
CAAACTTACCCAAAATCACATTTTAACCCCTAACTTTTCCAAAATTTCATTTTAACTCTCAAACT
TCTCCAAAATTTCATTTTGACCCT
Found at i:11844 original size:29 final size:28
Alignment explanation
Indices: 11775--11943 Score: 142
Period size: 29 Copynumber: 5.8 Consensus size: 28
11765 TTTAACTCTC
** *
11775 AAACTTCTCCAAAATTTCATTTTGACCCTC
1 AAACTTC-CCAAAATCACATTTTGA-CCTT
*
11805 AAACTTACCCACAATCACATTTTGACCTT
1 AAACTT-CCCAAAATCACATTTTGACCTT
11834 AAACTTTCCCAAAATCACATTTTGA-CTCT
1 AAAC-TTCCCAAAATCACATTTTGACCT-T
* * * *
11863 AAACTTCATCGAAATTACATTTTGACCCCT
1 AAACTTC-CCAAAATCACATTTTGA-CCTT
* * **
11893 ATACCTTCCTAAAATCACATTTTGACCCC
1 A-AACTTCCCAAAATCACATTTTGACCTT
*
11922 AAACTTCCCAAAATTACATTTT
1 AAACTTCCCAAAATCACATTTT
11944 TACCCTCAAA
Statistics
Matches: 114, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
28 23 0.20
29 47 0.41
30 37 0.32
31 7 0.06
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (28 bp):
AAACTTCCCAAAATCACATTTTGACCTT
Found at i:11855 original size:59 final size:58
Alignment explanation
Indices: 11775--11948 Score: 176
Period size: 59 Copynumber: 3.0 Consensus size: 58
11765 TTTAACTCTC
** * *
11775 AAACTTCTCCAAAATTTCATTTTGACCCTCAAACTTACCCACAATCACATTTTGA-CCTT
1 AAACTTC-CCAAAATCACATTTTGACCCTCAAACTTACCCA-AATTACATTTTGACCCCT
* * *
11834 AAACTTTCCCAAAATCACATTTTGACTCT-AAACTTCATCGAAATTACATTTTGACCCCT
1 AAAC-TTCCCAAAATCACATTTTGACCCTCAAACTT-ACCCAAATTACATTTTGACCCCT
* * *
11893 ATACCTTCCTAAAATCACATTTTGACCC-CAAACTT-CCCAAAATTACATTTTTACCC
1 A-AACTTCCCAAAATCACATTTTGACCCTCAAACTTACCC-AAATTACATTTTGACCC
11949 TCAAATTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
57 1 0.01
58 34 0.35
59 56 0.58
60 5 0.05
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (58 bp):
AAACTTCCCAAAATCACATTTTGACCCTCAAACTTACCCAAATTACATTTTGACCCCT
Found at i:11887 original size:88 final size:88
Alignment explanation
Indices: 11665--11976 Score: 258
Period size: 88 Copynumber: 3.5 Consensus size: 88
11655 TAACTTTTTT
* * * * * * *
11665 AAAATTTCATTTTAACCCTCAAACTTTTCTAAAATTTCATTTTGA-CCCTCGT-ACTTTTCCAAA
1 AAAATTACATTTTAACTCTCAAACTTCTC-GAAATTACATTTTGACCCCT-ATAAC-TTCCCAAA
* * * * *
11728 ATTATATTTTAACCCCTAGACTTTTCC
63 ATCACATTTTGACCCC-AAACTTTCCC
* * * *
11755 AAAATTTCATTTTAACTCTCAAACTTCTCCAAAATTTCATTTTGA-CCCTCA-AACTTACCCACA
1 AAAATTACATTTTAACTCTCAAACTTCT-CGAAATTACATTTTGACCCCT-ATAACTT-CCCAAA
**
11818 ATCACATTTTGACCTTAAACTTTCCC
63 ATCACATTTTGACCCCAAACTTTCCC
* * * *
11844 AAAATCACATTTTGACTCT-AAACTTCATCGAAATTACATTTTGACCCCTATACCTTCCTAAAAT
1 AAAATTACATTTTAACTCTCAAACTTC-TCGAAATTACATTTTGACCCCTATAACTTCCCAAAAT
11908 CACATTTTGACCCCAAAC-TTCCC
65 CACATTTTGACCCCAAACTTTCCC
* * * * *
11931 AAAATTACATTTTTACCCTCAAATTTTTTTGAAATTACATTTTGAC
1 AAAATTACATTTTAACTCTCAAA-CTTCTCGAAATTACATTTTGAC
11977 TCCGTATCCT
Statistics
Matches: 186, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
87 21 0.11
88 64 0.34
89 37 0.20
90 63 0.34
91 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (88 bp):
AAAATTACATTTTAACTCTCAAACTTCTCGAAATTACATTTTGACCCCTATAACTTCCCAAAATC
ACATTTTGACCCCAAACTTTCCC
Found at i:16403 original size:49 final size:49
Alignment explanation
Indices: 16341--16441 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
16331 CATGGCGAGA
16341 GAAGACTATATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAAT
1 GAAGACTATATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAAT
*
16390 GAAGACTATATAGTGTAAGGCCTAGTCGTATTGCTATCACATGGCAAAT
1 GAAGACTATATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAAT
16439 GAA
1 GAA
16442 AACCACATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (49 bp):
GAAGACTATATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAAT
Found at i:16465 original size:49 final size:49
Alignment explanation
Indices: 16350--16457 Score: 164
Period size: 49 Copynumber: 2.2 Consensus size: 49
16340 AGAAGACTAT
* * *
16350 ATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAATGAAGACTAT
1 ATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAATGAAAACCAC
*
16399 ATAGTGTAAGGCCTAGTCGTATTGCTATCACATGGCAAATGAAAACCAC
1 ATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAATGAAAACCAC
16448 ATCA-TGTAAG
1 AT-AGTGTAAG
16458 ACTTAGTCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 53 0.98
50 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (49 bp):
ATAGTGTAAGGCCTAGTCATATTGCTATCACATGGCAAATGAAAACCAC
Found at i:19473 original size:59 final size:60
Alignment explanation
Indices: 19404--19546 Score: 193
Period size: 59 Copynumber: 2.4 Consensus size: 60
19394 AGTTTAATAT
*
19404 AACTTGACACTTTTTTTTAATTTGGTATTTAAAATTTTTTT-AACCTAATTTGATACATG
1 AACTTGACACTTTTTTTTAATTTGGTATCTAAAATTTTTTTGAACCTAATTTGATACATG
* * * *
19463 AACTTGACACTTTTTCTTAATTTGGTATCTAAATTTTTTTTGGACCTAATTTGATACCTG
1 AACTTGACACTTTTTTTTAATTTGGTATCTAAAATTTTTTTGAACCTAATTTGATACATG
*
19523 AAGTT-AGCA-TTTTTTTCTAATTTG
1 AACTTGA-CACTTTTTTT-TAATTTG
19547 ATACCTAAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
59 45 0.61
60 29 0.39
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (60 bp):
AACTTGACACTTTTTTTTAATTTGGTATCTAAAATTTTTTTGAACCTAATTTGATACATG
Found at i:19561 original size:60 final size:59
Alignment explanation
Indices: 19404--19562 Score: 160
Period size: 59 Copynumber: 2.7 Consensus size: 59
19394 AGTTTAATAT
* * ** *
19404 AACTTGACACTTTTTTTTAATTTGGTATTTAAAATTTTTTTAACCTAATTTGATACATG
1 AACTTGACACTTTTTCTTAATTTGATACCTAAACTTTTTTTAACCTAATTTGATACATG
* * * * *
19463 AACTTGACACTTTTTCTTAATTTGGTATCTAAATTTTTTTTGGACCTAATTTGATACCTG
1 AACTTGACACTTTTTCTTAATTTGATACCTAAACTTTTTTT-AACCTAATTTGATACATG
* * *
19523 AAGTT-AGCA-TTTTTTTCTAATTTGATACCTAAGCTTTTTT
1 AACTTGA-CACTTTTTCT-TAATTTGATACCTAAACTTTTTT
19563 AGATTCAACT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 45 0.52
60 41 0.48
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (59 bp):
AACTTGACACTTTTTCTTAATTTGATACCTAAACTTTTTTTAACCTAATTTGATACATG
Found at i:23651 original size:21 final size:21
Alignment explanation
Indices: 23627--23678 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
23617 TACAAACTTT
23627 TACCGATACAAGTAACAATTC
1 TACCGATACAAGTAACAATTC
** * *
23648 TACCGATATGAGTGACAGTTC
1 TACCGATACAAGTAACAATTC
23669 TACCGATACA
1 TACCGATACA
23679 TGTCTTACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
TACCGATACAAGTAACAATTC
Found at i:23763 original size:21 final size:24
Alignment explanation
Indices: 23739--23795 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 24
23729 CCTGCAACTT
*
23739 CTACCGATACAAGCAT-C-C-TAA
1 CTACCGATACAAGCATACACAGAA
*
23760 CTACCGATAAAAGCATACACAGAA
1 CTACCGATACAAGCATACACAGAA
23784 CTACCGATACAA
1 CTACCGATACAA
23796 CCCAAGTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.50
22 1 0.03
23 1 0.03
24 13 0.43
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.16
Consensus pattern (24 bp):
CTACCGATACAAGCATACACAGAA
Found at i:24406 original size:40 final size:40
Alignment explanation
Indices: 24350--24439 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
24340 TTCATGTGTT
24350 TTCC-TTTTAACAATCTTATGCTCTACCAAGTCATAAGTA
1 TTCCTTTTTAACAATCTTATGCTCTACCAAGTCATAAGTA
* * * *
24389 TTCCTTTTTGACAATCTTATGCTCTATCGAGTCATAAGTC
1 TTCCTTTTTAACAATCTTATGCTCTACCAAGTCATAAGTA
24429 TTCCTTTTTAA
1 TTCCTTTTTAA
24440 TTCTCACACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 4 0.09
40 41 0.91
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (40 bp):
TTCCTTTTTAACAATCTTATGCTCTACCAAGTCATAAGTA
Found at i:25206 original size:30 final size:30
Alignment explanation
Indices: 25172--25230 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
25162 TTAAGGTTTC
25172 CTTGCTTTTCTTATTGAAGAAGATGAATGT
1 CTTGCTTTTCTTATTGAAGAAGATGAATGT
25202 CTTGCTTTTCTTATTGAAGAAGATGAATG
1 CTTGCTTTTCTTATTGAAGAAGATGAATG
25231 AAAATCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (30 bp):
CTTGCTTTTCTTATTGAAGAAGATGAATGT
Done.