Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008379.1 Hibiscus syriacus cultivar Beakdansim tig00111139_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: 95590
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Found at i:2004 original size:2 final size:2
Alignment explanation
Indices: 1997--2024 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1987 TTGGCTTACG
1997 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
2025 TTGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3003 original size:2 final size:2
Alignment explanation
Indices: 2996--3136 Score: 179
Period size: 2 Copynumber: 74.0 Consensus size: 2
2986 TCGGGTCGGG
* * * *
2996 TA TA TA TA T- TA AA TA TA AA TA TA TA -A TA TA TA AA T- TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
3035 TT TA T- TA -A TA T- TA TA -A TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3073 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3115 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
3137 ATTTTTTAGT
Statistics
Matches: 120, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
1 7 0.06
2 113 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4996 original size:24 final size:24
Alignment explanation
Indices: 4958--5017 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
4948 AACAGAGATG
* * *
4958 TCAGAAACCAAAACAAAATTCAGA
1 TCAGAAATCAGAACAAAATCCAGA
* * *
4982 TCAGATATCAGAACAGAATCCGGA
1 TCAGAAATCAGAACAAAATCCAGA
5006 TCAGAAATCAGA
1 TCAGAAATCAGA
5018 TAAAACATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.50, C:0.20, G:0.15, T:0.15
Consensus pattern (24 bp):
TCAGAAATCAGAACAAAATCCAGA
Found at i:9278 original size:18 final size:18
Alignment explanation
Indices: 9235--9271 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9225 TTGTGTTATA
*
9235 AATATTAAATTATTTAAT
1 AATATTAAATTATGTAAT
9253 AATATTAAATTTATGTAAT
1 AATATTAAA-TTATGTAAT
9272 TTATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATATTAAATTATGTAAT
Found at i:11059 original size:2 final size:2
Alignment explanation
Indices: 11054--11082 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11044 AAAAATATCT
11054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11083 TTCCAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15722 original size:12 final size:12
Alignment explanation
Indices: 15705--15737 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15695 TATAATTTAA
*
15705 TAATTAAAATTT
1 TAATTAAAATGT
15717 TAATTAAAATGT
1 TAATTAAAATGT
15729 TAA-TAAAAT
1 TAATTAAAAT
15738 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:16993 original size:3 final size:3
Alignment explanation
Indices: 16985--17023 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
16975 ATATTAATTT
*
16985 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17024 TATTCTTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19463 original size:23 final size:23
Alignment explanation
Indices: 19410--19464 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
19400 TTGCTCTCCC
* *
19410 TGCATTTTTACCTTTACACTTTCT
1 TGCA-TTTTACCTTTACAATTCCT
** *
19434 TTAATTTTACTTTTACAATTCCT
1 TGCATTTTACCTTTACAATTCCT
19457 TGCATTTT
1 TGCATTTT
19465 TACATTTCGT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.56
Consensus pattern (23 bp):
TGCATTTTACCTTTACAATTCCT
Found at i:19563 original size:19 final size:19
Alignment explanation
Indices: 19541--19581 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19531 TTCTTTTCGT
*
19541 TTTTAA-ATTTAATTTTTTA
1 TTTTAATATTT-ATTTATTA
19560 TTTTAATATTTATTTATTA
1 TTTTAATATTTATTTATTA
19579 TTT
1 TTT
19582 CTTATTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATATTTATTTATTA
Found at i:20653 original size:20 final size:19
Alignment explanation
Indices: 20628--20665 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
20618 ACCTTACTAA
*
20628 CTCT-TTTTATTTTTTTTC
1 CTCTCTTTTATTTTATTTC
20646 CTCTCTTTTATTTTATTTC
1 CTCTCTTTTATTTTATTTC
20665 C
1 C
20666 ATCACATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (19 bp):
CTCTCTTTTATTTTATTTC
Found at i:23575 original size:106 final size:106
Alignment explanation
Indices: 23444--24467 Score: 1753
Period size: 106 Copynumber: 9.7 Consensus size: 106
23434 AAGTTATCTT
*
23444 TCAACAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
*
23509 ACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
23550 TCAACAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
*
23615 ACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
23656 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
23721 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
23762 TCAACAAACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
*
23827 ACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
23868 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
23933 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
23974 TCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
24039 ACAACGCATA-TTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCA-AGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
24080 TCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
24145 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* **
24186 TCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
*
24251 ACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * *
24292 TCAATAAACAACTTCCCAATTTCAGAGCCAGTTTTAACTTCACAACGAAGGATATTGGACTCCAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
24357 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * * * * * * *
24398 TCAACAAACAATTTTCCAGTTTCAGAGTCAATTTTAACTTCACGGCGGAGGATATTGGCCTCTAG
1 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
24463 ACAAC
66 ACAAC
24468 AAAACTTACC
Statistics
Matches: 873, Mismatches: 43, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
105 1 0.00
106 871 1.00
107 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
Found at i:26515 original size:23 final size:23
Alignment explanation
Indices: 26462--26516 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
26452 TTGCTCTCCC
* *
26462 TGCATTTTTACCTTTACACTTTCT
1 TGCA-TTTTACCTTTACAATTCCT
** *
26486 TTAATTTTACTTTTACAATTCCT
1 TGCATTTTACCTTTACAATTCCT
26509 TGCATTTT
1 TGCATTTT
26517 TACATTTCGT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.56
Consensus pattern (23 bp):
TGCATTTTACCTTTACAATTCCT
Found at i:26615 original size:19 final size:19
Alignment explanation
Indices: 26593--26633 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26583 TTCTTTTCGT
*
26593 TTTTAA-ATTTAATTTTTTA
1 TTTTAATATTT-ATTTATTA
26612 TTTTAATATTTATTTATTA
1 TTTTAATATTTATTTATTA
26631 TTT
1 TTT
26634 CTTATTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATATTTATTTATTA
Found at i:29475 original size:12 final size:12
Alignment explanation
Indices: 29458--29490 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29448 TATAATTTAA
*
29458 TAATTAAAATTT
1 TAATTAAAATGT
29470 TAATTAAAATGT
1 TAATTAAAATGT
29482 TAA-TAAAAT
1 TAATTAAAAT
29491 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:32332 original size:3 final size:3
Alignment explanation
Indices: 32324--32350 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32314 ATATTAATTT
32324 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
32351 TATTCTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32638 original size:12 final size:12
Alignment explanation
Indices: 32621--32653 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32611 TATAATTTAA
*
32621 TAATTAAAATTT
1 TAATTAAAATGT
32633 TAATTAAAATGT
1 TAATTAAAATGT
32645 TAA-TAAAAT
1 TAATTAAAAT
32654 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:34292 original size:2 final size:2
Alignment explanation
Indices: 34285--34315 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34275 AAAAATATCT
34285 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34316 TTCCAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35429 original size:3 final size:3
Alignment explanation
Indices: 35421--35447 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35411 TTATTAATTT
35421 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
35448 TATTCTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:35736 original size:12 final size:12
Alignment explanation
Indices: 35719--35751 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35709 TATAATTTAA
*
35719 TAATTAAAATTT
1 TAATTAAAATGT
35731 TAATTAAAATGT
1 TAATTAAAATGT
35743 TAA-TAAAAT
1 TAATTAAAAT
35752 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:37457 original size:2 final size:2
Alignment explanation
Indices: 37450--37474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37440 AAAAATATCT
37450 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
37475 CCAAGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38586 original size:3 final size:3
Alignment explanation
Indices: 38578--38604 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38568 ATATTAATTT
38578 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
38605 TTCTTGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38892 original size:12 final size:12
Alignment explanation
Indices: 38875--38907 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38865 TATAATTTAA
*
38875 TAATTAAAATTT
1 TAATTAAAATGT
38887 TAATTAAAATGT
1 TAATTAAAATGT
38899 TAA-TAAAAT
1 TAATTAAAAT
38908 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:41731 original size:3 final size:3
Alignment explanation
Indices: 41723--41752 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
41713 GTATGAATTT
41723 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
41753 TATTCTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44875 original size:3 final size:3
Alignment explanation
Indices: 44867--44893 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
44857 ATATTAATTT
44867 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
44894 TATTCTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45185 original size:12 final size:12
Alignment explanation
Indices: 45168--45200 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45158 TATAATTTAA
*
45168 TAATTAAAATTT
1 TAATTAAAATGT
45180 TAATTAAAATGT
1 TAATTAAAATGT
45192 TAA-TAAAAT
1 TAATTAAAAT
45201 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:48030 original size:3 final size:3
Alignment explanation
Indices: 48022--48048 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48012 TTATGAATTT
48022 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
48049 TATTCTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48340 original size:12 final size:12
Alignment explanation
Indices: 48323--48355 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48313 TATAATTTAA
*
48323 TAATTAAAATTT
1 TAATTAAAATGT
48335 TAATTAAAATGT
1 TAATTAAAATGT
48347 TAA-TAAAAT
1 TAATTAAAAT
48356 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:51495 original size:12 final size:12
Alignment explanation
Indices: 51478--51510 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51468 TATAATTTAA
*
51478 TAATTAAAATTT
1 TAATTAAAATGT
51490 TAATTAAAATGT
1 TAATTAAAATGT
51502 TAA-TAAAAT
1 TAATTAAAAT
51511 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:57509 original size:16 final size:16
Alignment explanation
Indices: 57488--57525 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57478 AAAAATAATT
57488 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
57504 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
57520 T-ATAAA
1 TAATAAA
57526 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:57770 original size:11 final size:11
Alignment explanation
Indices: 57688--57771 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 11
57678 TTATATACGT
*
57688 TAATAGTAAAA
1 TAATATTAAAA
*
57699 TAATAATAAATA
1 TAATATTAAA-A
57711 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
57724 TATATATATATAA
1 TA-ATAT-TAAAA
57737 TAACT-TTAAAA
1 TAA-TATTAAAA
*
57748 -AACATTAAAA
1 TAATATTAAAA
*
57758 TAATATTAGAA
1 TAATATTAAAA
57769 TAA
1 TAA
57772 AAATAATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
10 8 0.14
11 24 0.41
12 8 0.14
13 11 0.19
14 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:58251 original size:35 final size:36
Alignment explanation
Indices: 58181--58280 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
58171 GTGCTTGTGG
* * *
58181 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
58218 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
58253 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
58281 TAGGACGGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 11 0.20
37 18 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:59522 original size:204 final size:203
Alignment explanation
Indices: 58743--60132 Score: 1453
Period size: 210 Copynumber: 6.7 Consensus size: 203
58733 ATTGTTCCGA
* * * * **
58743 GTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * * * * * * *
58808 AGTCGCCCCTTTGCTATGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGA
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * *
58873 TGAAATTGACTCTGAACAAAAT-CTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTT
131 TGAAATTGGCTCTG---AAATTGCTTGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTT
* *
58937 GTGTTGTCTCGA
192 GTGTTGTCTTGG
** * * *
58949 GTCCAATATCCTTCGCTACGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* * *
59014 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCG-TCGTG
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GTG
* * * **
59078 GAGTTGAAATCGCGGATGAAACTGAAAAGTTG-TTCGTTGACAACCAGCCGTCCCTTCGTTGTGA
127 AAGTTGAAAT--TGGCT----CTG-AAA-TTGCTT-GTTGACAGTCAGCCGTCCCTTCG-TGTGA
*
59142 AGTTGAACTTGTGTTGTCTCGG
182 AGTTGAACTTGTGTTGTCTTGG
* * * *
59164 GTAGCACGATATCCTCCGTCATG-G-AGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGA
1 GT--C-CAATATCCTTCG-C-TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGA
59227 CAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGT
61 CAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGT
* * * * *
59292 GAAGTTGAGATTGGCTCCGAAATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGC
126 GAAGTTGAAATTGGCTCTGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAAC
*
59357 TTGTGCTGTCTTGG
190 TTGTGTTGTCTTGG
* *
59371 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
59436 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * * *
59501 TGAGATTGGCTCCGAAATTGCTTCTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTG
131 TGAAATTGGCTCTGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTG
*
59566 CTGTCTTGG
195 TTGTCTTGG
* * * *
59575 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGTAAATT-ATTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
* *
59639 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGT
66 AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
**
59704 TGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG-CAGTGGTCCCTTCGTCGTGAAGTT
131 TGAAATTGGCTCT--GA-----AA-TTGCTTGTTGAC-AGTCAGCCGTCCCTTCGT-GTGAAGTT
**
59767 GAACTTGCATTGTC-TGG
186 GAACTTGTGTTGTCTTGG
* * * *
59784 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG
1 -GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * *
59848 CAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTGA
65 CAGCCGTCCCTTCGCT-GTGAAGTTGAACTTGTGTTGTCTCG-AGTCCAATATCCTTCGCTGTGA
* *
59911 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG-CAGCGGTCCCTTCGTCGTGAAG
128 AGTTGAAATTGGCTCTGAAATT-----G--CTTGTTGAC-AGTCAGCCGTCCCTTCGT-GTGAAG
**
59975 TTGAACTTGCATTGTC-TGG
184 TTGAACTTGTGTTGTCTTGG
* * * * *
59994 AGTCCAA-ATACTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 -GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* * * *
60058 CAGCCGTCCCTTCGTTGTGTAGTTGAACTTGCGTTGTCTCGAGTGCCACAATATCCTCCG-TCGT
65 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GT
*
60122 GGAGTTGAAAT
126 GAAGTTGAAAT
60133 CGCGGATGGC
Statistics
Matches: 1036, Mismatches: 97, Indels: 95
0.84 0.08 0.08
Matches are distributed among these distances:
202 4 0.00
203 90 0.09
204 238 0.23
205 3 0.00
206 90 0.09
207 49 0.05
208 9 0.01
209 69 0.07
210 269 0.26
211 9 0.01
212 2 0.00
213 29 0.03
214 3 0.00
215 75 0.07
216 2 0.00
217 1 0.00
218 91 0.09
219 2 0.00
220 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (203 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACC
AGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
TGAAATTGGCTCTGAAATTGCTTGTTGACAGTCAGCCGTCCCTTCGTGTGAAGTTGAACTTGTGT
TGTCTTGG
Found at i:59676 original size:105 final size:103
Alignment explanation
Indices: 58743--60132 Score: 1151
Period size: 105 Copynumber: 13.3 Consensus size: 103
58733 ATTGTTCCGA
* * * * * *
58743 GTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGAC-AGT
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGGAAGTTG-TTGTTGACAAG-
* * * * * * * *
58807 CAGTCGCCCCTTTG-CTATGAAGTTGAGCTTGTGCTGTCTCGA
63 CAGCCGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCT-GG
* * * * * * *
58849 GTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTGAACA----AA-ATCTTGTTGACAATCA
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-ATTGGAAGTTGTTGTTGACAAGCA
* * *
58909 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
65 GCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GG
* ** * ** *
58949 GTCCAATATCCTTCGCTACGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACAACC
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAGTTG-TTGTTGACAAGC
* *
59014 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAG
64 AGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G-G
* * * * * * ** * *
59056 TGGCACGATATCCTCCGTCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTCGTTGACA
1 -GTC-CAATATCCTTCGTTGTGAAGTTGAAATTGGC-TCTGAAATTG-GAAGTTGTT-GTTGACA
* * *
59120 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGG
61 AGCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GG
* * ** * * * *
59164 GTAGCACGATATCCTCCGTCATGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGACA
1 GT--C-CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTG-TTGTTGACA
* * *
59229 ACCAGCCGTCCCTTCG-CTGTGAAGTTGAACTTGTGTTGTCTCGA
61 AGCAGCCGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCT-GG
* * * * *
59273 GTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATT----G--CTTGTCGAC-AGTCA
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAGTTGTTGTTGACAAG-CA
* * * *
59331 GCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTTGG
65 GCCGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTC-TGG
* * * * *
59371 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTGTTTGTTGACAACC
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TTGGAAGTTG-TTGTTGACAAGC
* *
59436 AGCCGTCCCTTCG-CTGTGAAGTTGAACTTGTGTTGTCTCGA
64 AGCCGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCT-GG
* * * * * *
59477 GTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCCGAAATT----G--CTTCTCGAC-AGTCA
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAGTTGTTGTTGACAAG-CA
* * * *
59535 GCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTTGG
65 GCCGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTC-TGG
* * * * * *
59575 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGTAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG-AAGTTGTTGTTGACAAGCA
* * *
59640 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
65 GCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GG
* * *
59680 GTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCA
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTGTTGACAAGCA
** *
59745 GTGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 GCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
59784 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 -GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTGTTGACAAGC
* *
59849 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAA
64 AGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG-G
59890 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCA
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTGTTGTTGACAAGCA
* *
59955 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 GCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
59994 AGTCCAA-ATACTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 -GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTG-TTGTTGACAAG
* *
60058 CAGCCGTCCCTTCGTTGTGTAGTTGAACTTGCGTTGTCTCGAG
63 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-G-G
* * * *
60101 TGCCACAATATCCTCCGTCGTGGAGTTGAAAT
1 -GTC-CAATATCCTTCGTTGTGAAGTTGAAAT
60133 CGCGGATGGC
Statistics
Matches: 1086, Mismatches: 142, Indels: 109
0.81 0.11 0.08
Matches are distributed among these distances:
97 2 0.00
98 162 0.15
99 4 0.00
100 77 0.07
101 2 0.00
102 2 0.00
104 48 0.04
105 383 0.35
106 198 0.18
107 6 0.01
108 13 0.01
109 184 0.17
110 5 0.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (103 bp):
GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAGTTGTTGTTGACAAGCAG
CCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:60872 original size:37 final size:37
Alignment explanation
Indices: 60806--61115 Score: 187
Period size: 37 Copynumber: 8.9 Consensus size: 37
60796 GAAGATTTTG
*
60806 TGTTTCAAGAGTAACTGTCTCAAG-G-GACAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
*
60841 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
* * * * * *
60878 AGTTCCAAAAGAAACTGTCTCAAGGGGGAC-GAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
* * *** * *
60914 TGTTTCAA-AGAAA-----AC-ATATTTA-AATATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
* *
60943 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
* * * *
60980 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
* * * * *
61017 TATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAAATT
*
61045 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
* *
61082 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
61116 CTCTTCTAGT
Statistics
Matches: 207, Mismatches: 45, Indels: 44
0.70 0.15 0.15
Matches are distributed among these distances:
28 2 0.01
29 28 0.14
30 8 0.04
32 1 0.00
34 1 0.00
35 30 0.14
36 43 0.21
37 94 0.45
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
Found at i:60959 original size:102 final size:101
Alignment explanation
Indices: 60839--61115 Score: 351
Period size: 102 Copynumber: 2.7 Consensus size: 101
60829 GGGACAAAAA
* * ** *
60839 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
*
60904 GGACG-AAATTTGTTTCAAAGAAAACATATTTAAATAT
65 GGACGAAAATTTATTTCAAAGAAAACAT-TTTAAATAT
* * *
60941 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAATTATCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
* * * ** * *
61006 AGACGAAAATTTATTTCAAGGGAAATGTTTTCAATGT
65 GGACGAAAATTTATTTCAAAGAAAACATTTTAAATAT
*
61043 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
61108 GGAC-AAAA
65 GGACGAAAA
61116 CTCTTCTAGT
Statistics
Matches: 151, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
101 4 0.03
102 98 0.65
103 49 0.32
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (101 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGG
GACGAAAATTTATTTCAAAGAAAACATTTTAAATAT
Found at i:61096 original size:36 final size:36
Alignment explanation
Indices: 61046--61115 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
61036 TCAATGTTTA
61046 TGTTTCAAGAGAAACTGTCTCAAG-GGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGG-GACAAAATT
*
61082 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAA
61116 CTCTTCTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
Found at i:61624 original size:18 final size:18
Alignment explanation
Indices: 61597--61632 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61587 TGTTGAATCC
*
61597 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
61615 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
61633 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:62092 original size:22 final size:22
Alignment explanation
Indices: 62067--62110 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
62057 CATTTTTGTT
62067 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
62089 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
62111 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:62726 original size:23 final size:24
Alignment explanation
Indices: 62700--62752 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
62690 TTTGCATGTG
*
62700 CTTTTTGTCCCTTTTT-CTTTTTT
1 CTTTTTGTCCCTTTTTGCTTTTGT
* *
62723 CTTTTTGTTCTTTTTTGCTTTTGT
1 CTTTTTGTCCCTTTTTGCTTTTGT
62747 -TTTTTG
1 CTTTTTG
62753 CTTCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.75
Consensus pattern (24 bp):
CTTTTTGTCCCTTTTTGCTTTTGT
Found at i:62733 original size:16 final size:16
Alignment explanation
Indices: 62714--62761 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
62704 TTGTCCCTTT
62714 TTCTTTTTTCTTTTTG
1 TTCTTTTTTCTTTTTG
62730 TTCTTTTTTGC-TTTTG
1 TTCTTTTTT-CTTTTTG
62746 TT-TTTTGCTTCTTTTT
1 TTCTTTT--TTCTTTTT
62762 TTTTTTGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 17 0.61
17 7 0.25
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTCTTTTTG
Found at i:62738 original size:24 final size:24
Alignment explanation
Indices: 62711--62768 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
62701 TTTTTGTCCC
*
62711 TTTTTCTTTTTTCTTTTTG-TTCTT
1 TTTTTCTTTTGT-TTTTTGCTTCTT
*
62735 TTTTGCTTTTGTTTTTTGCTTCTT
1 TTTTTCTTTTGTTTTTTGCTTCTT
62759 TTTTT-TTTTG
1 TTTTTCTTTTG
62769 CCTTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.00, C:0.10, G:0.09, T:0.81
Consensus pattern (24 bp):
TTTTTCTTTTGTTTTTTGCTTCTT
Found at i:67716 original size:7 final size:7
Alignment explanation
Indices: 67704--67791 Score: 52
Period size: 8 Copynumber: 11.3 Consensus size: 7
67694 TCCAATCAAG
67704 AAGAAAA
1 AAGAAAA
67711 AAGAAAA
1 AAGAAAA
67718 GAAGCAAAAA
1 -AAG--AAAA
*
67728 AAAAAACA
1 AAGAAA-A
67736 AAGAAAA
1 AAGAAAA
67743 AAGAGAAA
1 AAGA-AAA
*
67751 CACGAACAA
1 -AAGAA-AA
67760 AAGGAAAA
1 AA-GAAAA
67768 AA-AAAA
1 AAGAAAA
*
67774 AAAAAAA
1 AAGAAAA
67781 CAAGAATAA
1 -AAGAA-AA
67790 AA
1 AA
67792 AAGAAAGAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
6 6 0.09
7 19 0.29
8 24 0.37
9 12 0.18
10 4 0.06
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (7 bp):
AAGAAAA
Found at i:67751 original size:17 final size:16
Alignment explanation
Indices: 67704--67797 Score: 63
Period size: 16 Copynumber: 5.9 Consensus size: 16
67694 TCCAATCAAG
*
67704 AAGAAAAAAGA-AAAG
1 AAGAAAAAAGAGAAAC
*
67719 AAGCAAAAAA-AAAAAC
1 AAG-AAAAAAGAGAAAC
67735 AAAGAAAAAAGAGAAAC
1 -AAGAAAAAAGAGAAAC
*
67752 ACGAACAAAAG-GAAA-
1 AAGAA-AAAAGAGAAAC
* *
67767 AA-AAAAAAAAAAAAC
1 AAGAAAAAAGAGAAAC
*
67782 AAGAATAAAAAAGAAA
1 AAGAA-AAAAGAGAAA
67798 GAGGAACAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.06
14 5 0.08
15 7 0.11
16 25 0.40
17 22 0.35
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.01
Consensus pattern (16 bp):
AAGAAAAAAGAGAAAC
Found at i:70425 original size:105 final size:105
Alignment explanation
Indices: 70052--71045 Score: 1316
Period size: 105 Copynumber: 9.5 Consensus size: 105
70042 GACGAAGGGG
* * * * *
70052 CTTCCCAATTTCAGAGCAAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* *
70117 TCAACTTCACAATGAAGGGA-CGACTGGTTGTCAACAAACAA
66 TCAACTTCACGACGAAGGGACCG-CTGGTTGTCAAC-AACAA
* * * * *
70158 TTTCCCAGTTTCAGAGCCAATTTCAACTTTACAGCAAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
70223 TCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAA
* * * *
70264 CTTCTCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* * *
70329 TCAACTTCACAACGAAGGGACGGCTAGTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* * * * * * * *
70369 TTTCCTAATTTCAGAGACAGTTTCAACTTCCCAGCAAAGGATATTTGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* * *
70434 TCAACTTCACAACGAAGGGACCGTTGGTTGTCAATAAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAA
*
70475 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
70540 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* *
70580 CTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
70645 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* * * * *
70685 CTTCCCAATATCAAAGTCAATTTCAACTTCACAACGAAGGATATTGGAATCCAGACAATGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
70750 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* * * *
70790 CTTCCCAATCTCAGAGCCAATTTTAACTTCACAATGAAGGATATTGGACTCCAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* * * * *
70855 TTAACTTCAGGACGAAGGGACCGTTGTTTGTCAATAA-AA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* ** * *
70894 -TT-TC-A-TTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* *
70955 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAA
* * ** * * *
70996 TTTTCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
71046 TGGAACAATG
Statistics
Matches: 787, Mismatches: 93, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
100 78 0.10
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 384 0.49
106 310 0.39
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (105 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
Found at i:70464 original size:211 final size:210
Alignment explanation
Indices: 70052--71045 Score: 1327
Period size: 211 Copynumber: 4.7 Consensus size: 210
70042 GACGAAGGGG
* * *
70052 CTTCCCAATTTCAGAGCAAATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * *
70117 TCAACTTCACAATGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTTCAGAGCCAATTTC
66 TCAACTTCACAACGAAGGGACGGCT-GTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTC
* * *
70182 AACTTTACAGCAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGC
129 AACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
70247 TGGTTGTCAACAAACAA
194 TGGTTGTCAACAAACAA
* *
70264 CTTCTCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * *
70329 TCAACTTCACAACGAAGGGACGGCTAGTTGTCAACAACAATTTCCTAATTTCAGAGACAGTTTCA
66 TCAACTTCACAACGAAGGGACGGCT-GTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCA
* * * * *
70394 ACTTCCCAGCAAAGGATATTTGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGTT
130 ACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
70459 GGTTGTCAATAAACAA
195 GGTTGTCAACAAACAA
* * *
70475 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * * *
70540 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCA
66 TCAACTTCACAACGAAGGGACGGCTG-TTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCA
* *
70605 ACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
130 ACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
70670 GCTTGTCAAC-AACAA
195 GGTTGTCAACAAACAA
* * * * * **
70685 CTTCCCAATATCAAAGTCAATTTCAACTTCACAACGAAGGATATTGGAATCCAGACAATGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * * * *
70750 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTTA
66 TCAACTTCACAACGAAGGGACGGCTG-TTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCA
** * * * *
70815 ACTTCACAATGAAGGATATTGGACTCCAGACAACACAAGTTTAACTTCAGGACGAAGGGACCGTT
130 ACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
* *
70880 GTTTGTCAA-TAA-AA
195 GGTTGTCAACAAACAA
* ** *
70894 -TT-TC-A-TTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* ** *
70955 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCGGTTCCAGAGCCAATTTC
66 TCAACTTCACAACGAAGGGACGGCT-GTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTC
* **
71020 AACTTCACGACGGAGGATATTGGACT
129 AACTTCACAACAAAGGATATTGGACT
71046 TGGAACAATG
Statistics
Matches: 704, Mismatches: 74, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
205 80 0.11
206 47 0.07
207 1 0.00
208 2 0.00
209 2 0.00
210 196 0.28
211 283 0.40
212 93 0.13
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (210 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
TCAACTTCACAACGAAGGGACGGCTGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAA
CTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
GTTGTCAACAAACAA
Found at i:71628 original size:31 final size:31
Alignment explanation
Indices: 71593--71651 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
71583 TCCGTCCTAC
71593 TAGGATTCAAACTCCTAAAAATAGGATATTT
1 TAGGATTCAAACTCCTAAAAATAGGATATTT
* *
71624 TAGGATTCAAACTCCTAAAGATATGATA
1 TAGGATTCAAACTCCTAAAAATAGGATA
71652 GAATTTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (31 bp):
TAGGATTCAAACTCCTAAAAATAGGATATTT
Found at i:73306 original size:3 final size:3
Alignment explanation
Indices: 73298--73324 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
73288 ATATTAATTT
73298 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
73325 TATTCTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:73565 original size:25 final size:24
Alignment explanation
Indices: 73503--73565 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
73493 GAAAATTCAT
*
73503 TATATATATTAAAATAAAAGTATAA
1 TATATATATTATAATAAAAG-ATAA
*
73528 TATATATCCTTATAATAATAA-ATAA
1 TATATAT-ATTATAATAA-AAGATAA
73553 TATATCATATTAT
1 TATAT-ATATTAT
73566 TAGAATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 20 0.62
26 10 0.31
27 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (24 bp):
TATATATATTATAATAAAAGATAA
Found at i:73609 original size:12 final size:12
Alignment explanation
Indices: 73592--73624 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
73582 TATAATTTAA
*
73592 TAATTAAAATTT
1 TAATTAAAATGT
73604 TAATTAAAATGT
1 TAATTAAAATGT
73616 TAA-TAAAAT
1 TAATTAAAAT
73625 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:76452 original size:3 final size:3
Alignment explanation
Indices: 76444--76479 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
76434 GTATGAATTT
76444 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
76480 TATTCTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:76696 original size:29 final size:31
Alignment explanation
Indices: 76649--76715 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
76639 TTGAAAATTC
*
76649 ATTATATAACATTAAAATAA-AA-GTATAAT
1 ATTATATAACATTAAAATAATAATATATAAT
* * *
76678 ATTATATATCCTTATAATAATAATATATAAT
1 ATTATATAACATTAAAATAATAATATATAAT
*
76709 ATCATAT
1 ATTATAT
76716 TATTAGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.55
30 2 0.06
31 12 0.39
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (31 bp):
ATTATATAACATTAAAATAATAATATATAAT
Found at i:76761 original size:12 final size:12
Alignment explanation
Indices: 76744--76776 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
76734 ATATAATTAA
*
76744 TAATTAAAATTT
1 TAATTAAAATGT
76756 TAATTAAAATGT
1 TAATTAAAATGT
76768 TAA-TAAAAT
1 TAATTAAAAT
76777 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:78318 original size:22 final size:23
Alignment explanation
Indices: 78293--78336 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
78283 AATGAATTAT
*
78293 TTTGTAATT-ATAATAAAATAAA
1 TTTGCAATTAATAATAAAATAAA
* *
78315 TTTGCATTTAATAATGAAATAA
1 TTTGCAATTAATAATAAAATAA
78337 TTAAACCATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
TTTGCAATTAATAATAAAATAAA
Found at i:84553 original size:2 final size:2
Alignment explanation
Indices: 84548--84597 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
84538 TAAAAAATCT
84548 TA TA TA TA TA TA TA TA TA TA T- TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84588 TA TA T- TA TA T
1 TA TA TA TA TA T
84598 CATTGCAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84578 original size:24 final size:24
Alignment explanation
Indices: 84551--84597 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
84541 AAAATCTTAT
84551 ATATATATATATATATATTATATA
1 ATATATATATATATATATTATATA
84575 ATATATATATATATATATTATAT
1 ATATATATATATATATATTATAT
84598 CATTGCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATATATATATATATATTATATA
Found at i:85673 original size:9 final size:10
Alignment explanation
Indices: 85632--85670 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
85622 AATATTAAGA
85632 TTATTAAATT
1 TTATTAAATT
85642 TTATTAAAACTT
1 TTATT-AAA-TT
*
85654 TTAATAAATT
1 TTATTAAATT
85664 TTATTAA
1 TTATTAA
85671 TTTATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 13 0.52
11 6 0.24
12 6 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (10 bp):
TTATTAAATT
Found at i:85835 original size:17 final size:16
Alignment explanation
Indices: 85813--85847 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
85803 TAAATATTAA
85813 ATAATTTAATAATACAT
1 ATAATTTAATAATA-AT
*
85830 ATAATTTATTAATAAT
1 ATAATTTAATAATAAT
85846 AT
1 AT
85848 TTTTATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTTAATAATAAT
Found at i:85976 original size:12 final size:12
Alignment explanation
Indices: 85959--85991 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
85949 TATAATTTAA
*
85959 TAATTAAAATTT
1 TAATTAAAATGT
85971 TAATTAAAATGT
1 TAATTAAAATGT
85983 TAA-TAAAAT
1 TAATTAAAAT
85992 AGTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:86274 original size:14 final size:15
Alignment explanation
Indices: 86252--86282 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
86242 TAAATTGTCA
86252 TTTCATAAATTCTAT
1 TTTCATAAATTCTAT
86267 TTTC-TAAATTCTAT
1 TTTCATAAATTCTAT
86281 TT
1 TT
86283 ATATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCATAAATTCTAT
Found at i:86352 original size:18 final size:18
Alignment explanation
Indices: 86314--86353 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
86304 ATATATATAT
*
86314 ATATTATTTTTCTGAAAA
1 ATATTATTTTTATGAAAA
86332 ATATTATTTTTAT-AAATA
1 ATATTATTTTTATGAAA-A
86350 ATAT
1 ATAT
86354 AAAATTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
ATATTATTTTTATGAAAA
Found at i:87700 original size:2 final size:2
Alignment explanation
Indices: 87695--87731 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
87685 AAAAATATCT
*
87695 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87732 TTCCAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89113 original size:11 final size:12
Alignment explanation
Indices: 89097--89128 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
89087 TATAATTTAA
89097 TAATTAAAAT-T
1 TAATTAAAATGT
89108 TAATTAAAATGT
1 TAATTAAAATGT
89120 TAA-TAAAAT
1 TAATTAAAAT
89129 AGTATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TAATTAAAATGT
Found at i:89404 original size:14 final size:15
Alignment explanation
Indices: 89382--89412 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
89372 TAAATTGTCA
89382 TTTCATAAATTCTAT
1 TTTCATAAATTCTAT
89397 TTTC-TAAATTCTAT
1 TTTCATAAATTCTAT
89411 TT
1 TT
89413 ATATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCATAAATTCTAT
Found at i:90789 original size:2 final size:2
Alignment explanation
Indices: 90784--90813 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
90774 TAAAAAATCT
90784 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90814 TTCCAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:91887 original size:19 final size:19
Alignment explanation
Indices: 91865--91922 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
91855 AAGATTATTA
*
91865 AATTTTATTGAACTT-TAAT
1 AATTATATT-AACTTATAAT
*
91884 AATTATATTAATTTATAAT
1 AATTATATTAACTTATAAT
* *
91903 AATAATA-TAA-TAATAAT
1 AATTATATTAACTTATAAT
91920 AAT
1 AAT
91923 AATAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.26
18 7 0.21
19 18 0.53
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
AATTATATTAACTTATAAT
Found at i:91904 original size:3 final size:3
Alignment explanation
Indices: 91898--91933 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
91888 ATATTAATTT
91898 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
91934 TATTCTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:91920 original size:17 final size:16
Alignment explanation
Indices: 91898--91933 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
91888 ATATTAATTT
91898 ATAATAATAATATAATA
1 ATAATAATAATA-AATA
91915 ATAATAATAATAAATA
1 ATAATAATAATAAATA
91931 ATA
1 ATA
91934 TATTCTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATAATAATAAATA
Found at i:92073 original size:21 final size:20
Alignment explanation
Indices: 92047--92086 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
92037 AAATATTAAA
92047 TAATTTAATAATACATATATG
1 TAATTTAATAATA-ATATATG
*
92068 TAATTTATTAATAATATAT
1 TAATTTAATAATAATATAT
92087 TTTTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTTAATAATAATATATG
Found at i:94806 original size:3 final size:3
Alignment explanation
Indices: 94798--94827 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
94788 ATTTTAATTT
94798 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94828 TATTCTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.