Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006662.1 Hibiscus syriacus cultivar Beakdansim tig00016485_pilon, 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: 114262
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:5159 original size:22 final size:21
Alignment explanation
Indices: 5134--5174 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5124 TAAATATTAC
*
5134 AAAGGTAGTACCGATACTCCTT
1 AAAGG-AGTACCAATACTCCTT
*
5156 AAAGGAGTATCAATACTCC
1 AAAGGAGTACCAATACTCC
5175 CTGTACTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (21 bp):
AAAGGAGTACCAATACTCCTT
Found at i:13370 original size:19 final size:19
Alignment explanation
Indices: 13346--13387 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
13336 AGATGGATAA
13346 AGAACCCCAAAGTACCTGG
1 AGAACCCCAAAGTACCTGG
13365 AGAACCCCAAAGTACCTGG
1 AGAACCCCAAAGTACCTGG
13384 AGAA
1 AGAA
13388 GCTAAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (19 bp):
AGAACCCCAAAGTACCTGG
Found at i:27138 original size:60 final size:61
Alignment explanation
Indices: 27058--27178 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 61
27048 CAAAAAGAGA
*
27058 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAAC-AACAAATGCTCAGCAAAGCTTCTT
1 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
27118 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
1 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
27179 CATGCTATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 36 0.61
61 23 0.39
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (61 bp):
ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
Found at i:33218 original size:60 final size:59
Alignment explanation
Indices: 33081--33218 Score: 134
Period size: 60 Copynumber: 2.3 Consensus size: 59
33071 TAAATAACGC
* * * ** *
33081 AAATGGTTCCTCGATTATAGGGTACTGCTTTATTAAGTCTTTCGATTATTAAAAGTTATA
1 AAATGGTTCC-CGACTATAGAGTACTGCTTTATTAAGTCTCTCGACCATTAAAAGTTACA
* * * * *
33141 AAATGG-TCGTTCAACTATAGAGTATTGCTTTGTTGAGTCTCTCGACCATTAAAAGTTACA
1 AAATGGTTC--CCGACTATAGAGTACTGCTTTATTAAGTCTCTCGACCATTAAAAGTTACA
33201 AAATGGTATCCCGACTAT
1 AAATGGT-TCCCGACTAT
33219 TCATTATGTT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
59 2 0.03
60 57 0.93
62 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (59 bp):
AAATGGTTCCCGACTATAGAGTACTGCTTTATTAAGTCTCTCGACCATTAAAAGTTACA
Found at i:33500 original size:60 final size:60
Alignment explanation
Indices: 33426--33553 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
33416 ATAGTTGGGT
* * * *
33426 GACCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAACAACACTCTATAGTCGAAG
1 GACCATTTTCTAACTTTTAATAATTGAGAGACTCAACAAAACAACACCCTATAGTCGAAG
* * * * * *
33486 GATCATTTTCTAACTTTTAATAATTGAGAGACTTAATAAAATAATACCCTATAGTCGAGG
1 GACCATTTTCTAACTTTTAATAATTGAGAGACTCAACAAAACAACACCCTATAGTCGAAG
33546 GACCATTT
1 GACCATTT
33554 GTATTCTTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (60 bp):
GACCATTTTCTAACTTTTAATAATTGAGAGACTCAACAAAACAACACCCTATAGTCGAAG
Found at i:34409 original size:60 final size:58
Alignment explanation
Indices: 34340--34468 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 58
34330 TAACCGTTTG
* * *
34340 GGACTAATTTAGAAAGAGGGTCATAGTTTATGGATGAAATTATAATATTT-AAAGGTTTAA
1 GGACTAATTTAGAAAGAGAGTCATA-ATT-T-GATGAAATTATAATATTTCAAAAGTTTAA
* *
34400 GGACTAATTTAGAATGAGAGTCATAATTTGATGAAATTGTAATATTTCAAAAGTTTAA
1 GGACTAATTTAGAAAGAGAGTCATAATTTGATGAAATTATAATATTTCAAAAGTTTAA
*
34458 GTACTAATTTA
1 GGACTAATTTA
34469 TAAAAATTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
57 17 0.27
58 20 0.32
59 2 0.03
60 23 0.37
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (58 bp):
GGACTAATTTAGAAAGAGAGTCATAATTTGATGAAATTATAATATTTCAAAAGTTTAA
Found at i:39950 original size:3 final size:3
Alignment explanation
Indices: 39944--39993 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
39934 TATTATAAAT
39944 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39992 AT
1 AT
39994 GTTAGATATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46291 original size:2 final size:2
Alignment explanation
Indices: 46284--46315 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
46274 TAGCACAAAC
*
46284 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46316 GTACATTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:46811 original size:20 final size:20
Alignment explanation
Indices: 46786--46824 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46776 ATTCTCTTCA
46786 TTTTTTACTATAATATATTG
1 TTTTTTACTATAATATATTG
* *
46806 TTTTTTATTATAATCTATT
1 TTTTTTACTATAATATATT
46825 CCTTTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTTACTATAATATATTG
Found at i:46830 original size:20 final size:20
Alignment explanation
Indices: 46787--46832 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
46777 TTCTCTTCAT
**
46787 TTTTTACTATAATATATTGT
1 TTTTTACTATAATATATTCC
* *
46807 TTTTTATTATAATCTATTCC
1 TTTTTACTATAATATATTCC
46827 TTTTTA
1 TTTTTA
46833 AGAGTGTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTACTATAATATATTCC
Found at i:50754 original size:20 final size:20
Alignment explanation
Indices: 50709--50754 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
50699 AACCAACAAA
* *
50709 ATCGCAATGCGATCTCTAAT
1 ATCGCAACGCGATCTCCAAT
*
50729 -TCGCAACGCGATCTCCAGT
1 ATCGCAACGCGATCTCCAAT
50748 ATCGCAA
1 ATCGCAA
50755 TGAAGAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATCTCCAAT
Found at i:55222 original size:16 final size:16
Alignment explanation
Indices: 55201--55232 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55191 TTGAGACCCC
55201 CCGACTATTAAAAGTT
1 CCGACTATTAAAAGTT
55217 CCGACTATTAAAAGTT
1 CCGACTATTAAAAGTT
55233 ACAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
CCGACTATTAAAAGTT
Found at i:60266 original size:29 final size:29
Alignment explanation
Indices: 60216--60304 Score: 151
Period size: 29 Copynumber: 3.1 Consensus size: 29
60206 GACTTCTTAA
* *
60216 TAATAGGGTATACTCAATATCTCCTGGAG
1 TAATAGGGTATACCCAACATCTCCTGGAG
60245 TAATAGGGTATACCCAACATCTCCTGGAG
1 TAATAGGGTATACCCAACATCTCCTGGAG
*
60274 TAATAGGGTATACCCATCATCTCCTGGAG
1 TAATAGGGTATACCCAACATCTCCTGGAG
60303 TA
1 TA
60305 GTCATCAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (29 bp):
TAATAGGGTATACCCAACATCTCCTGGAG
Found at i:64498 original size:14 final size:14
Alignment explanation
Indices: 64479--64506 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64469 TCATTTATAT
64479 TCATTTATGTTCGA
1 TCATTTATGTTCGA
64493 TCATTTATGTTCGA
1 TCATTTATGTTCGA
64507 ACATATGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TCATTTATGTTCGA
Found at i:64798 original size:34 final size:34
Alignment explanation
Indices: 64760--64840 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
64750 CATAGGTCTC
64760 GTTCGTTCATTTACGTTC-GTGAACATTCGGTTAT
1 GTTCGTTCATTTACGTTCGGT-AACATTCGGTTAT
* * ** *
64794 GTTCGTTTATGTT-CGTTCGGTTATGTTCGTTTAT
1 GTTCGTTCAT-TTACGTTCGGTAACATTCGGTTAT
64828 GTTCGTTCATTTA
1 GTTCGTTCATTTA
64841 TGTTTAACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
33 2 0.05
34 32 0.84
35 4 0.11
ACGTcount: A:0.14, C:0.15, G:0.21, T:0.51
Consensus pattern (34 bp):
GTTCGTTCATTTACGTTCGGTAACATTCGGTTAT
Found at i:64800 original size:24 final size:24
Alignment explanation
Indices: 64773--64824 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
64763 CGTTCATTTA
*
64773 CGTTCGTGAACATTCGGTTATGTT
1 CGTTCATGAACATTCGGTTATGTT
* ** *
64797 CGTTTATGTTCGTTCGGTTATGTT
1 CGTTCATGAACATTCGGTTATGTT
64821 CGTT
1 CGTT
64825 TATGTTCGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (24 bp):
CGTTCATGAACATTCGGTTATGTT
Found at i:64825 original size:24 final size:24
Alignment explanation
Indices: 64785--64844 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
64775 TTCGTGAACA
64785 TTCGGTTATGTTCGTTTATGTTCG
1 TTCGGTTATGTTCGTTTATGTTCG
64809 TTCGGTTATGTTCGTTTATGTTCG
1 TTCGGTTATGTTCGTTTATGTTCG
**
64833 TTCATTTATGTT
1 TTCGGTTATGTT
64845 TAACCCAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.57
Consensus pattern (24 bp):
TTCGGTTATGTTCGTTTATGTTCG
Found at i:64833 original size:10 final size:10
Alignment explanation
Indices: 64785--64834 Score: 55
Period size: 10 Copynumber: 4.6 Consensus size: 10
64775 TTCGTGAACA
*
64785 TTCGGTTATG
1 TTCGTTTATG
64795 TTCGTTTATG
1 TTCGTTTATG
64805 TTCGTTCGGTTATG
1 TTCG-T---TTATG
64819 TTCGTTTATG
1 TTCGTTTATG
64829 TTCGTT
1 TTCGTT
64835 CATTTATGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 24 0.69
11 1 0.03
13 1 0.03
14 9 0.26
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.56
Consensus pattern (10 bp):
TTCGTTTATG
Found at i:64835 original size:14 final size:14
Alignment explanation
Indices: 64794--64844 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
64784 ATTCGGTTAT
64794 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
64808 GTTCGGTTA---T-
1 GTTCGTTTATGTTC
64818 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
64832 GTTCATTTATGTT
1 GTTCGTTTATGTT
64845 TAACCCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
10 8 0.27
11 1 0.03
13 1 0.03
14 20 0.67
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:65936 original size:16 final size:16
Alignment explanation
Indices: 65915--65945 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
65905 GTCTCCAACG
65915 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
65931 TTTATGTTCGTGTTC
1 TTTATGTTCGTGTTC
65946 GTGTTCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:65947 original size:22 final size:22
Alignment explanation
Indices: 65919--65963 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
65909 CCAACGTTTA
65919 TGTTCGTGTTCATTTATGTTCG
1 TGTTCGTGTTCATTTATGTTCG
*
65941 TGTTCGTGTTCGTTTATGTTCG
1 TGTTCGTGTTCATTTATGTTCG
65963 T
1 T
65964 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (22 bp):
TGTTCGTGTTCATTTATGTTCG
Found at i:65962 original size:10 final size:10
Alignment explanation
Indices: 65925--65967 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
65915 TTTATGTTCG
*
65925 TGTTCATTTA
1 TGTTCGTTTA
*
65935 TGTTCGTGTTCG
1 TGTTCGT-TT-A
65947 TGTTCGTTTA
1 TGTTCGTTTA
65957 TGTTCGTTTA
1 TGTTCGTTTA
65967 T
1 T
65968 TTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 17 0.61
11 4 0.14
12 7 0.25
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:65963 original size:16 final size:16
Alignment explanation
Indices: 65913--65947 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65903 GGGTCTCCAA
65913 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
65929 CATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
65945 CGT
1 CGT
65948 GTTCGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.54
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:66058 original size:16 final size:16
Alignment explanation
Indices: 66033--66063 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66023 AAATTTTTTT
66033 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
66049 TGTTCGTTTATGTTC
1 TGTTCATTTATGTTC
66064 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:66318 original size:10 final size:10
Alignment explanation
Indices: 66319--66352 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
66309 TGTTCATTTA
66319 TTATGTTCGT
1 TTATGTTCGT
66329 TTATGTTCGT
1 TTATGTTCGT
*
66339 TTATATTCGT
1 TTATGTTCGT
66349 TTAT
1 TTAT
66353 CATTTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.62
Consensus pattern (10 bp):
TTATGTTCGT
Found at i:66325 original size:23 final size:23
Alignment explanation
Indices: 66299--66342 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
66289 GTGTTTGTGT
*
66299 TGTTTGTTTATGTTCATTTATTA
1 TGTTCGTTTATGTTCATTTATTA
*
66322 TGTTCGTTTATGTTCGTTTAT
1 TGTTCGTTTATGTTCATTTAT
66343 ATTCGTTTAT
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:0.14, C:0.07, G:0.16, T:0.64
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTA
Found at i:78240 original size:15 final size:16
Alignment explanation
Indices: 78220--78250 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78210 CCCTTTCACC
78220 TAGAGTG-TGGGATGA
1 TAGAGTGATGGGATGA
78235 TAGAGTGATGGGATGA
1 TAGAGTGATGGGATGA
78251 CTCCCCTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (16 bp):
TAGAGTGATGGGATGA
Found at i:81527 original size:12 final size:12
Alignment explanation
Indices: 81506--81550 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
81496 TAATTTAAAT
* *
81506 TAAATTTATACA
1 TAAATATATATA
81518 TAAATATATATA
1 TAAATATATATA
*
81530 TATATATATATA
1 TAAATATATATA
*
81542 TATATATAT
1 TAAATATAT
81551 TATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAATATATATA
Found at i:81528 original size:2 final size:2
Alignment explanation
Indices: 81521--81550 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
81511 TTATACATAA
81521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81551 TATTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86848 original size:17 final size:19
Alignment explanation
Indices: 86806--86851 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
86796 ATTTTACGAA
*
86806 TTAAAAAAAATAATATGAT
1 TTAAAAAATATAATATGAT
86825 TGT-AAAAATATAAT-T-AT
1 T-TAAAAAATATAATATGAT
86842 TTAAAAAATA
1 TTAAAAAATA
86852 ATCTTTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 10 0.42
18 1 0.04
19 11 0.46
20 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
TTAAAAAATATAATATGAT
Found at i:88179 original size:23 final size:22
Alignment explanation
Indices: 88132--88188 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
88122 CATAATAGGT
*
88132 TTTGGGATTTAAGTATTGAGAA
1 TTTGGGATTTAAGTATTAAGAA
* *
88154 TTTAGGGATTTAAGTTTTAAGTA
1 TTT-GGGATTTAAGTATTAAGAA
*
88177 TTTGGGGTTTAA
1 TTTGGGATTTAA
88189 AATAACAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (22 bp):
TTTGGGATTTAAGTATTAAGAA
Found at i:89033 original size:36 final size:36
Alignment explanation
Indices: 88991--89060 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
88981 CGGTCGTGTC
* **
88991 GAGCTTCGACTGTCCCAACGTGATCTCTAGGATCAG
1 GAGCTTCAACTGTCCCAACGTGATAACTAGGATCAG
89027 GAGCTTCAACTGTCCCAACGTGATAACTAGGATC
1 GAGCTTCAACTGTCCCAACGTGATAACTAGGATC
89061 GGCAGTGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (36 bp):
GAGCTTCAACTGTCCCAACGTGATAACTAGGATCAG
Found at i:90366 original size:33 final size:35
Alignment explanation
Indices: 90328--90394 Score: 102
Period size: 33 Copynumber: 1.9 Consensus size: 35
90318 CACTGTTTAA
90328 ATATGAATTTATTTT-TT-ATTCATATTCTAAAGT
1 ATATGAATTTATTTTATTAATTCATATTCTAAAGT
*
90361 ATATGAATTTATTTTATTAAATTCATATTTTAAA
1 ATATGAATTTATTTTATT-AATTCATATTCTAAA
90395 CTTTATATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 15 0.50
34 2 0.07
36 13 0.43
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (35 bp):
ATATGAATTTATTTTATTAATTCATATTCTAAAGT
Found at i:93780 original size:3 final size:3
Alignment explanation
Indices: 93774--93847 Score: 87
Period size: 3 Copynumber: 24.7 Consensus size: 3
93764 TTCCATTTAC
* * *
93774 TAT TAT TAT TATT TAT TAT TAT TAT GAT TAT GAT TAT TAT TTT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
93820 TTT TAT TTT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
93848 CAAACGGGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:95388 original size:25 final size:23
Alignment explanation
Indices: 95346--95392 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
95336 TTTCTTATAT
95346 TTTATAAATAAATAAATATTTTA
1 TTTATAAATAAATAAATATTTTA
*
95369 TTTATAAATGTAAATTAATATTTT
1 TTTATAAA--TAAATAAATATTTT
95393 TTAATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTATAAATAAATAAATATTTTA
Found at i:95395 original size:23 final size:22
Alignment explanation
Indices: 95345--95399 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 22
95335 TTTTCTTATA
95345 TTTTATAAATAAATAAATATTT
1 TTTTATAAATAAATAAATATTT
*
95367 TATTTATAAATGTAAATTAATATTT
1 T-TTTATAAA--TAAATAAATATTT
*
95392 TTTAATAA
1 TTTTATAA
95400 TAGGATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 6 0.21
25 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTTATAAATAAATAAATATTT
Found at i:98350 original size:3 final size:3
Alignment explanation
Indices: 98344--98417 Score: 87
Period size: 3 Copynumber: 24.7 Consensus size: 3
98334 TTCCATTTAC
* * *
98344 TAT TAT TAT TATT TAT TAT TAT TAT GAT TAT GAT TAT TAT TTT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
98390 TTT TAT TTT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
98418 CAAACGGGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:99955 original size:25 final size:23
Alignment explanation
Indices: 99913--99959 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
99903 TTTCTTATAT
99913 TTTATAAATAAATAAATATTTTA
1 TTTATAAATAAATAAATATTTTA
*
99936 TTTATAAATGTAAATTAATATTTT
1 TTTATAAA--TAAATAAATATTTT
99960 TTAATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTATAAATAAATAAATATTTTA
Found at i:99962 original size:23 final size:22
Alignment explanation
Indices: 99912--99966 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 22
99902 TTTTCTTATA
99912 TTTTATAAATAAATAAATATTT
1 TTTTATAAATAAATAAATATTT
*
99934 TATTTATAAATGTAAATTAATATTT
1 T-TTTATAAA--TAAATAAATATTT
*
99959 TTTAATAA
1 TTTTATAA
99967 TAGGATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 6 0.21
25 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTTATAAATAAATAAATATTT
Found at i:103744 original size:15 final size:15
Alignment explanation
Indices: 103724--103755 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
103714 ATCAATACCT
103724 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
103739 TTTTGCATACATTCA
1 TTTTGCATACATGCA
103754 TT
1 TT
103756 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:111021 original size:1 final size:1
Alignment explanation
Indices: 111015--111072 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
111005 ATTATGCTTG
* * * * * * *
111015 AAAAAAAAAAAAGAAGAAAAGAAATAAAAAAAAAAAAAAGAGAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
111073 GGGGGTCAAG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (1 bp):
A
Found at i:111044 original size:10 final size:10
Alignment explanation
Indices: 111014--111072 Score: 68
Period size: 11 Copynumber: 5.7 Consensus size: 10
111004 TATTATGCTT
111014 GAAAAAAAAA
1 GAAAAAAAAA
111024 -AAAGAAGAAAA
1 GAAA-AA-AAAA
111035 GAAATAAAAAA
1 GAAA-AAAAAA
111046 -AAAAAAAAGA
1 GAAAAAAAA-A
111056 GAAAAAAAAA
1 GAAAAAAAAA
111066 GAAAAAA
1 GAAAAAA
111073 GGGGGTCAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
9 8 0.19
10 14 0.33
11 16 0.37
12 5 0.12
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:111045 original size:19 final size:19
Alignment explanation
Indices: 111018--111073 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
111008 ATGCTTGAAA
111018 AAAAAAAAAGAAGAAAAGA-
1 AAAAAAAAAGAA-AAAAGAG
*
111037 AATAAAAAAAAAAAAAAGAG
1 AA-AAAAAAAGAAAAAAGAG
111057 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
111074 GGGGTCAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAGAG
Found at i:111051 original size:26 final size:24
Alignment explanation
Indices: 111015--111072 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 24
111005 ATTATGCTTG
111015 AAAAAAAAAAAAGAAGAAAAGAAATAA
1 AAAAAAAAAAAAG-AGAAAA-AAA-AA
111042 AAAAAAAAAAAAGAGAAAAAAAAA
1 AAAAAAAAAAAAGAGAAAAAAAAA
*
111066 GAAAAAA
1 AAAAAAA
111073 GGGGGTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 8 0.27
25 3 0.10
26 6 0.20
27 13 0.43
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAAAGAGAAAAAAAAA
Found at i:112727 original size:93 final size:88
Alignment explanation
Indices: 112428--112827 Score: 570
Period size: 93 Copynumber: 4.6 Consensus size: 88
112418 AAATGCCATA
* *
112428 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTA-AAACC-----A
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAAAAAA
112487 TCATTGAATTTGAAAGATGAATG
66 TCATTGAATTTGAAAGATGAATG
*
112510 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-AAACC----AA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAAAAAA
112570 TCATTGAATTTGAAAGATGAATG
66 TCATTGAATTTGAAAGATGAATG
112593 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CC--AAA
*
112658 AGTAATCATTAAATTTGAAAGATGAATG
63 A--AATCATTGAATTTGAAAGATGAATG
*
112686 TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCA-A-AA
* *
112751 CCAATTATTGAATTTGGAAGATGAATG
64 --AATCATTGAATTTGAAAGATGAATG
*
112778 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
112828 ATATAAAACC
Statistics
Matches: 294, Mismatches: 11, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
82 57 0.19
83 77 0.26
84 2 0.01
85 2 0.01
90 1 0.00
91 1 0.00
92 74 0.25
93 80 0.27
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (88 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCAAAAAA
TCATTGAATTTGAAAGATGAATG
Found at i:112816 original size:92 final size:91
Alignment explanation
Indices: 112428--112868 Score: 603
Period size: 92 Copynumber: 5.0 Consensus size: 91
112418 AAATGCCATA
*
112428 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG--T--A---A-AAC
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCAGAAC
112485 C-ATCATTGAATTTGAAAGATGAATG
66 CAATCATTGAATTTGAAAGATGAATG
112510 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T--A---A-AAC
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCAGAAC
112567 CAATCATTGAATTTGAAAGATGAATG
66 CAATCATTGAATTTGAAAGATGAATG
*
112593 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCC--AGA
** *
112658 AGTAATCATTAAATTTGAAAGATGAATG
64 ACCAATCATTGAATTTGAAAGATGAATG
*
112686 TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACC-CAGAA
* *
112751 CCAATTATTGAATTTGGAAGATGAATG
65 CCAATCATTGAATTTGAAAGATGAATG
* * *
112778 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGATATAAAACCCAGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-GAACCCAGAA
*
112843 CCAATCATTGGAA-TTAAAAGATGAAT
65 CCAATCATT-GAATTTGAAAGATGAAT
112869 TGTATGATCG
Statistics
Matches: 327, Mismatches: 18, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
82 57 0.17
83 75 0.23
85 1 0.00
87 1 0.00
92 101 0.31
93 91 0.28
94 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (91 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCAGAAC
CAATCATTGAATTTGAAAGATGAATG
Found at i:112819 original size:185 final size:176
Alignment explanation
Indices: 112486--112827 Score: 558
Period size: 185 Copynumber: 1.9 Consensus size: 176
112476 TGGTAAAACC
* *
112486 ATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
1 ATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
112551 TCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGT
66 TCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGT
112616 GTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAAGTA
131 GTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAAGTA
112662 ATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
1 ATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
112727 TCTGGTTTGGTATGAACCACAGAACCAATTATTGAATTTGGAAGATGAATGTGCTCATAGCATCT
66 TCTGGTTTGG--T-----A-A-AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCT
*
112792 TCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTG
122 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
112828 ATATAAAACC
Statistics
Matches: 152, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
176 73 0.48
178 1 0.01
183 1 0.01
184 1 0.01
185 76 0.50
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (176 bp):
ATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
TCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGT
GTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAAGTA
Found at i:113986 original size:111 final size:112
Alignment explanation
Indices: 113544--114262 Score: 1114
Period size: 110 Copynumber: 6.5 Consensus size: 112
113534 GCAAAGATTC
* *
113544 AAATCC-TCATTTGATGGATCAG-TTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AG
* *
113606 AATGAAGAAGAAATTCATAATG-GAAGAATTTGTTTAACCTTTTGCTC
65 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
* * *
113653 AAATCCATCAATTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAA-TCATCTGAGA
1 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGA
*
113717 AGGAAGAAGAAATTCATAATGAGAAGAA-TTGTTCAACCTTTTGCTT
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
*
113763 AAATCCATCACTTGATAGATTAGC-TTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGA
1 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGA
*
113827 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCCTTTGCTT
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
*
113874 AAATCCATCACTTGATAGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AG
*
113939 AAGGAAGAAG-AATTCATAATGAGAAGAATTTTTTTAACC-TTTGCTT
65 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
113985 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT--GA
1 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGA
114048 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
* * *
114095 AAATCCATCACTTGATAGATTAGCTTTGCCAG-GGAAGTTCATAATGAGAAGAATTCATCTGA-A
1 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGA
* *
114158 GAGGAAGAAG-AATTCATAATGAGAAGAATTTGTTCAACC-TTTGCTC
66 -AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
*
114204 AAATCCATCA-TTGATGGATCAGCTTCT-CCAGA-AAAGTTCATAATGAGAAGAACTCATCT
1 AAATCCATCACTTGATGGATTAGCTT-TGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
Statistics
Matches: 572, Mismatches: 23, Indels: 31
0.91 0.04 0.05
Matches are distributed among these distances:
108 53 0.09
109 105 0.18
110 180 0.31
111 132 0.23
112 90 0.16
113 12 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGA
AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTT
Found at i:114052 original size:221 final size:219
Alignment explanation
Indices: 113544--114262 Score: 1141
Period size: 221 Copynumber: 3.3 Consensus size: 219
113534 GCAAAGATTC
*
113544 AAATCC-TCATTTGATGGATCAG-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-
* * *
113607 ATGAAGAAGAAATTCATAATG-GAAGAATTTGTTTAACCTTTTGCTCAAATCCATCAATTGATGG
65 --GAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTTAAATCCATCACTTGATAG
* *
113671 ATCAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAATCATCTG-AGAAGGAAGAAGAAATTCATA
128 ATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAATCATCTGAAGAAGGAAGAAG-AATTCATA
113735 ATGAGAAGAA-TTGTTCAACCTTTTGCTT
192 ATGAGAAGAATTTGTTCAACC-TTTGCTT
* * *
113763 AAATCCATCACTTGATAGATTAGCTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAGAA
1 AAATCCATCACTTGATGGATCAGCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT--GAA
*
113828 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCCTTTGCTTAAATCCATCACTTGATAGA
64 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTTAAATCCATCACTTGATAGA
113893 TTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTCATAA
129 TTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAA-TCATCTGAAGAAGGAAGAAGAATTCATAA
* *
113958 TGAGAAGAATTTTTTTAACCTTTGCTT
193 TGAGAAGAATTTGTTCAACCTTTGCTT
*
113985 AAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
114050 GAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTTAAATCCATCACTTGATAGAT
65 GAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTTAAATCCATCACTTGATAGAT
*
114115 TAGCTTTGCCAG-GGAAGTTCATAATGAGAAGAATTCATCTGAAG-AGGAAGAAGAATTCATAAT
130 TAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAA-TCATCTGAAGAAGGAAGAAGAATTCATAAT
*
114178 GAGAAGAATTTGTTCAACCTTTGCTC
194 GAGAAGAATTTGTTCAACCTTTGCTT
114204 AAATCCATCA-TTGATGGATCAGCTTCTCCAGA-AAAGTTCATAATGAGAAGAACTCATCT
1 AAATCCATCACTTGATGGATCAGCTT-TCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
Statistics
Matches: 469, Mismatches: 21, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
217 27 0.06
218 19 0.04
219 59 0.13
220 62 0.13
221 188 0.40
222 57 0.12
223 57 0.12
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (219 bp):
AAATCCATCACTTGATGGATCAGCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGG
AAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTTAAATCCATCACTTGATAGATT
AGCTTTGCCAGAGAAAGTTCATAATGAGAAGAATCATCTGAAGAAGGAAGAAGAATTCATAATGA
GAAGAATTTGTTCAACCTTTGCTT
Done.