Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007776.1 Hibiscus syriacus cultivar Beakdansim tig00110057_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: 2207776
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:3650 original size:23 final size:22
Alignment explanation
Indices: 3624--3668 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3614 ATAAAGAACC
*
3624 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACA-ACCATT
*
3647 AAAATAAAGTTAAACAACCATT
1 AAAATAAACTTAAACAACCATT
3669 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATAAACTTAAACAACCATT
Found at i:6987 original size:20 final size:20
Alignment explanation
Indices: 6964--7006 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6954 GAGAAAAGGT
*
6964 AAAAGTTAA-AATGAAAGAG
1 AAAAATTAATAATGAAAGAG
*
6983 AAAAATTAATAATGAAAGAT
1 AAAAATTAATAATGAAAGAG
7003 AAAA
1 AAAA
7007 TAAAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (20 bp):
AAAAATTAATAATGAAAGAG
Found at i:7007 original size:19 final size:18
Alignment explanation
Indices: 6958--7011 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
6948 AAGAAAGAGA
*
6958 AAAGGTAAAAGTTAAAATG
1 AAAGATAAAA-TTAAAATG
*
6977 AAAGAGAAAAATTAATAATG
1 AAAGA-TAAAATTAA-AATG
6997 AAAGATAAAA-TAAAA
1 AAAGATAAAATTAAAA
7012 AGTTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.07
18 3 0.10
19 12 0.40
20 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAGATAAAATTAAAATG
Found at i:13908 original size:23 final size:23
Alignment explanation
Indices: 13865--13910 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13855 ATAAAGAACC
*
13865 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
13888 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
13911 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:16663 original size:11 final size:11
Alignment explanation
Indices: 16637--16681 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
16627 GTGTATCGAT
*
16637 GCACTACTACA
1 GCACTGCTACA
* *
16648 TCACTGCTATA
1 GCACTGCTACA
16659 GCACTGCTACA
1 GCACTGCTACA
*
16670 TCACTGCTACA
1 GCACTGCTACA
16681 G
1 G
16682 TAACTTCGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (11 bp):
GCACTGCTACA
Found at i:16668 original size:22 final size:22
Alignment explanation
Indices: 16637--16678 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16627 GTGTATCGAT
16637 GCACTACTACATCACTGCTATA
1 GCACTACTACATCACTGCTATA
*
16659 GCACTGCTACATCACTGCTA
1 GCACTACTACATCACTGCTA
16679 CAGTAACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (22 bp):
GCACTACTACATCACTGCTATA
Found at i:17415 original size:31 final size:31
Alignment explanation
Indices: 17366--17426 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
17356 TGAAGGACCT
*
17366 GTCCATAGATCCCGAAAAATC-TAGGTAATCA
1 GTCCATAGATCCC-AAAAAACATAGGTAATCA
17397 GTCCATATG-TCCCAAAAAACATAGGTAATC
1 GTCCATA-GATCCCAAAAAACATAGGTAATC
17427 TATAACTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 6 0.22
31 20 0.74
32 1 0.04
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (31 bp):
GTCCATAGATCCCAAAAAACATAGGTAATCA
Found at i:17439 original size:37 final size:37
Alignment explanation
Indices: 17397--17498 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
17387 TAGGTAATCA
*
17397 GTCCATATGTCCCAAAAAACATAGGTAATCTATAACT
1 GTCCATATGTCCCAAAGAACATAGGTAATCTATAACT
* *
17434 GTCCATATGTCCCGAAGAACATAGGTAATCTGTAACT
1 GTCCATATGTCCCAAAGAACATAGGTAATCTATAACT
*
17471 GTCCATATGTCCCAAAGAATATAGGTAA
1 GTCCATATGTCCCAAAGAACATAGGTAA
17499 CCCTCGACTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (37 bp):
GTCCATATGTCCCAAAGAACATAGGTAATCTATAACT
Found at i:22480 original size:61 final size:61
Alignment explanation
Indices: 22375--22496 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
22365 TACTCTGTTT
*
22375 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGAAACTTCATTTTCTTTAGTTTATGGGA
1 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGAAACTCCATTTTCTTTAGTTTATGGGA
* * *
22436 GCCTATTAAACTTTAGTATGGACGTCAACTGGGGCAACTCCATTTTCTTTAGTTTATGGGA
1 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGAAACTCCATTTTCTTTAGTTTATGGGA
22497 TGGAAGCTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (61 bp):
GCCTATCAAACTTTAGTACGGACGTCAACTGGGGAAACTCCATTTTCTTTAGTTTATGGGA
Found at i:24019 original size:55 final size:55
Alignment explanation
Indices: 23959--24547 Score: 526
Period size: 55 Copynumber: 10.7 Consensus size: 55
23949 TCGTTTTCAA
* *
23959 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGTGAACATGTTTGCAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTTGCAG
* * * * *
24014 AAGATTGTTCAAGTTCAATACTCCCTAAAAGAAATAGGGAACGAACCTGTTTGCAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAA-CAATAGGGAGCGAACCTGTTTGCAG
* * * *
24070 AAGATTATTCAAGTTCTATACTCCCT-AAAGCGATAGGGTA-CGAA-CTCGTTTGTAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAA-CAATAGGG-AGCGAACCT-GTTTGCAG
* * * * * ** ***
24125 AAGATTATTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCATAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTTGCAG
* * **
24180 AAGATTGTTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCGAACC-CATTGACAG
1 AAGATTGTTCGAGTTCTATACTCCCTG-AAACAATAGGGAGCGAACCTGTTTG-CAG
* * * *
24236 AAGATTGTTAGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTTGCAG
* * * * * **
24291 AAGATTGTTCGAGTTCTATACTCCTTGAAGCAATACGGAGTGAACCCGTTTTTAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTTGCAG
** ** **
24346 AAGATTGTTCGAGTTCTATACTCCCTGAAGTAATAGGGAGCGAACCCATTTTAAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTTGCAG
* * ** **
24401 AAGATTGTTCGACTTCTATACTCCCTGAAA-AGTATAGGGAGCAAACCCATTTTTAG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACA--ATAGGGAGCGAACCTGTTTGCAG
* * * * *
24457 AAGATTGTTCGAGTTCTATATTCCATGAAAGAATAAGGAGCGAACCTGTTTATC-G
1 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTT-GCAG
* * * *
24512 AATACTT-TTCGAGTCCTATACTCTCTGAAAAAATAG
1 AAGA-TTGTTCGAGTTCTATACTCCCTGAAACAATAG
24548 AAAGTAGACA
Statistics
Matches: 448, Mismatches: 72, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
54 4 0.01
55 300 0.67
56 143 0.32
57 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (55 bp):
AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCTGTTTGCAG
Found at i:24240 original size:166 final size:167
Alignment explanation
Indices: 23959--24542 Score: 625
Period size: 166 Copynumber: 3.5 Consensus size: 167
23949 TCGTTTTCAA
* ** **
23959 AAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGTGAACATGTTTGCAGAAGATTGTTC
1 AAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGTGAACCCGTTTATAGAAGATTGTTC
* * ** *
24024 AAGTTCA-ATACTCCCT-AAAAGAAATAGGGAACGAACCTGTTTG-CAGAAGATTATTCAAGTTC
66 GAGTT-ATATACTCCCTGAAAAGAAATAGGGAGCGAACC-CATTGACAGAAGATTGTTCAAGTTC
* *
24086 TATACTCCCTAAAGCGATAGGGTA-CGAACTCGTTTGTAG
129 TATACTCCCTAAAGCAATAGGG-AGCGAACCCGTTTGTAG
* * * * *
24125 AAGATTATTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCATAGAAGATTGTTC
1 AAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGTGAACCCGTTTATAGAAGATTGTTC
24190 GAGTTATATACTCCCTGAAAAG-AATAGGGAGCGAACCCATTGACAGAAGATTGTT-AGAGTTCT
66 GAGTTATATACTCCCTGAAAAGAAATAGGGAGCGAACCCATTGACAGAAGATTGTTCA-AGTTCT
* * *
24253 ATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCAG
130 ATACTCCCTAAAGCAATAGGGAGCGAACCCGTTTGTAG
* * *
24291 AAGATTGTTCGAGTTCTATACTCCTTGAAGCAATACGGAGTGAACCCGTTTTTAGAAGATTGTTC
1 AAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGTGAACCCGTTTATAGAAGATTGTTC
* * * * *
24356 GAGTTCTATACTCCCTG--AAGTAATAGGGAGCGAACCCATTTTA-AGAAGATTGTTCGACTTCT
66 GAGTTATATACTCCCTGAAAAGAAATAGGGAGCGAACCCA-TTGACAGAAGATTGTTCAAGTTCT
* * * *
24418 ATACTCCCTGAAAAG-TATAGGGAGCAAACCCATTTTTAG
130 ATACTCCCT--AAAGCAATAGGGAGCGAACCCGTTTGTAG
* * * * * * *
24457 AAGATTGTTCGAGTTCTATATTCCATGAAAG-AATAAGGAGCGAACCTGTTTATCGAATACTT-T
1 AAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGTGAACCCGTTTATAGAAGA-TTGT
** *
24520 TCGAGTCCTATACTCTCTGAAAA
64 TCGAGTTATATACTCCCTGAAAA
24543 AATAGAAAGT
Statistics
Matches: 355, Mismatches: 49, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
164 3 0.01
165 48 0.14
166 289 0.81
167 13 0.04
168 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (167 bp):
AAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGTGAACCCGTTTATAGAAGATTGTTC
GAGTTATATACTCCCTGAAAAGAAATAGGGAGCGAACCCATTGACAGAAGATTGTTCAAGTTCTA
TACTCCCTAAAGCAATAGGGAGCGAACCCGTTTGTAG
Found at i:24531 original size:111 final size:110
Alignment explanation
Indices: 23959--24547 Score: 556
Period size: 111 Copynumber: 5.3 Consensus size: 110
23949 TCGTTTTCAA
* * *
23959 AAGATTGTTCGAGTTCTATACTCCCTG-AAACAATAGGGAGTGAA--CATGTTTGCAGAAGATTG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACCCAT-TTT-TAGAAGATTG
* * * * * *
24021 TTCAAGTTCAATACTCCCTAAAAGAAATAGGGAACGAACCTGTTTGCAG
64 TTCGAGTTCTATACTCCCT-GAAGCAATAGGGAGCGAACCTGTTTAC-G
* * * * * * *
24070 AAGATTATTCAAGTTCTATACTCCCT--AAAGCGATAGGGTA-CGAACTCGTTTGTAGAAGATTA
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAG-AATAGGG-AGCGAACCCATTTTTAGAAGATTG
* * * **
24132 TTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCATA-G
64 TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTT--TACG
* ***
24180 AAGATTGTTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCGAACCCATTGACAGAAGATTGTT
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACCCATTTTTAGAAGATTGTT
* * **
24245 AGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCAG
66 CGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTAC-G
* * * *
24291 AAGATTGTTCGAGTTCTATACTCCTTG--AAGCAATACGGAGTGAACCCGTTTTTAGAAGATTGT
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAG-AATAGGGAGCGAACCCATTTTTAGAAGATTGT
* *
24354 TCGAGTTCTATACTCCCTGAAGTAATAGGGAGCGAACCCAT-TTTAAG
65 TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAA-CC-TGTTTACG
* * *
24401 AAGATTGTTCGACTTCTATACTCCCTGAAAAGTATAGGGAGCAAACCCATTTTTAGAAGATTGTT
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACCCATTTTTAGAAGATTGTT
* * *
24466 CGAGTTCTATATTCCATGAAAG-AATAAGGAGCGAACCTGTTTATCG
66 CGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACCTGTTTA-CG
* * *
24512 AATACTT-TTCGAGTCCTATACTCTCTGAAAA-AATAG
1 AAGA-TTGTTCGAGTTCTATACTCCCTGAAAAGAATAG
24548 AAAGTAGACA
Statistics
Matches: 391, Mismatches: 67, Indels: 41
0.78 0.13 0.08
Matches are distributed among these distances:
109 4 0.01
110 140 0.36
111 229 0.59
112 16 0.04
113 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (110 bp):
AAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACCCATTTTTAGAAGATTGTT
CGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTACG
Found at i:24534 original size:221 final size:220
Alignment explanation
Indices: 23959--24507 Score: 691
Period size: 221 Copynumber: 2.5 Consensus size: 220
23949 TCGTTTTCAA
*
23959 AAGATTGTTCGAGTTCTATACTCCCTGAAACA-ATAGGGAGTGAA--CATGTTTGCAGAAGATTG
1 AAGATTGTTCGAGTTCTATACTCCCTGAAA-AGATAGGGAGCGAACCCAT-TTT-CAGAAGATTG
* * * * *
24021 TTCAAGTTCAATACTCCCTAAAAGAAATAGGGAACGAACCTGTTTGCAGAAGATTATTCAAGTTC
63 TTCGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTC
* *
24086 TATACTCCCTAAAGCGATAGGGTACGAACTCGTTTGTAGAAGATTATTCGAGTTCTATACTCCCT
128 TATACTCCCTAAAGCAATAGGGTA-GAACCCGTTTGTAGAAGATTATTCGAGTTCTATACTCCCT
*
24151 GAAGCTAGAGGGAGTGAACCCATTCATAG
192 GAAGCTAGAGGGAGCGAACCCATTCATAG
* **
24180 AAGATTGTTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCGAACCCATTGACAGAAGATTGTT
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAG-ATAGGGAGCGAACCCATTTTCAGAAGATTGTT
* * * * *
24245 AGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTA
65 CGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTA
* * * *
24309 TACTCCTTGAAGCAATACGGAGT-GAACCCGTTTTTAGAAGATTGTTCGAGTTCTATACTCCCTG
130 TACTCCCTAAAGCAATA-GG-GTAGAACCCGTTTGTAGAAGATTATTCGAGTTCTATACTCCCTG
* *
24373 AAG-TAATAGGGAGCGAACCCATT-TTAAG
193 AAGCT-AGAGGGAGCGAACCCATTCAT-AG
* * *
24401 AAGATTGTTCGACTTCTATACTCCCTGAAAAGTATAGGGAGCAAACCCATTTTTAGAAGATTGTT
1 AAGATTGTTCGAGTTCTATACTCCCTGAAAAG-ATAGGGAGCGAACCCATTTTCAGAAGATTGTT
* * *
24466 CGAGTTCTATATTCCATGAAAG-AATAAGGAGCGAACCTGTTT
65 CGAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACCTGTTT
24508 ATCGAATACT
Statistics
Matches: 283, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
220 3 0.01
221 232 0.82
222 42 0.15
223 3 0.01
224 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
AAGATTGTTCGAGTTCTATACTCCCTGAAAAGATAGGGAGCGAACCCATTTTCAGAAGATTGTTC
GAGTTCTATACTCCCTGAAAGAAATAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTAT
ACTCCCTAAAGCAATAGGGTAGAACCCGTTTGTAGAAGATTATTCGAGTTCTATACTCCCTGAAG
CTAGAGGGAGCGAACCCATTCATAG
Found at i:24752 original size:3 final size:3
Alignment explanation
Indices: 24738--24791 Score: 72
Period size: 3 Copynumber: 17.0 Consensus size: 3
24728 GTTTTAAAAA
*
24738 TAT TAT TTT TAT TAT TAAT TAT TAT TAT TAT TAAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TA-T
24786 TAT TAT
1 TAT TAT
24792 AAAAAAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 37 0.80
4 9 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24760 original size:16 final size:16
Alignment explanation
Indices: 24739--24791 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
24729 TTTTAAAAAT
*
24739 ATTATTTTTATTATTA
1 ATTATTATTATTATTA
24755 ATTATTATTATTATTA
1 ATTATTATTATTATTA
*
24771 ATTATTATTATTATTT
1 ATTATTATTATTATTA
24787 ATTAT
1 ATTAT
24792 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTATTATTATTA
Found at i:24764 original size:13 final size:13
Alignment explanation
Indices: 24746--24791 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
24736 AATATTATTT
24746 TTATTATTAATT-A
1 TTATTATT-ATTAA
24759 TTATTATTATTAA
1 TTATTATTATTAA
*
24772 TTATTATTATTAT
1 TTATTATTATTAA
24785 TTATTAT
1 TTATTAT
24792 AAAAAAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 3 0.10
13 28 0.90
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTATTATTAA
Found at i:28869 original size:17 final size:18
Alignment explanation
Indices: 28847--28893 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
28837 TATGGAATTG
*
28847 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
28864 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
28882 GATTCCAATTCC
1 GATTCCAATTCC
28894 CTTAGAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:38757 original size:19 final size:19
Alignment explanation
Indices: 38733--38771 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38723 CAAAGGTGGG
38733 TTATCATTTGGTGGAAGCA
1 TTATCATTTGGTGGAAGCA
38752 TTATCATTTGGTGGAAGCA
1 TTATCATTTGGTGGAAGCA
38771 T
1 T
38772 GTCGGTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (19 bp):
TTATCATTTGGTGGAAGCA
Found at i:40297 original size:24 final size:24
Alignment explanation
Indices: 40265--40310 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
40255 TTATTAGTTT
*
40265 AATTTAATATATAAAATTATTAAG
1 AATTAAATATATAAAATTATTAAG
* *
40289 AATTAAATATGTAATATTATTA
1 AATTAAATATATAAAATTATTA
40311 TATATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AATTAAATATATAAAATTATTAAG
Found at i:42944 original size:35 final size:35
Alignment explanation
Indices: 42875--42944 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
42865 GAAATAACTG
* * *
42875 TTTCTTTTAGTCTTGAAATTTTGCTAAGTTGAATA
1 TTTCTTTTAGTCTCGAAATTTTGCTAACTAGAATA
* *
42910 TTTCTTTTAGTCTCGCAGTTTTGCTAACTAGAATA
1 TTTCTTTTAGTCTCGAAATTTTGCTAACTAGAATA
42945 ACTCCGCCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (35 bp):
TTTCTTTTAGTCTCGAAATTTTGCTAACTAGAATA
Found at i:49474 original size:32 final size:32
Alignment explanation
Indices: 49402--49474 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
49392 ACCAACCACT
* * *
49402 CAAGATGATGACATAACATATGTTACGTCACT
1 CAAGATGATGACATAACATATGTCACATCACC
* * *
49434 CAATATGATGACATAACATGTGTCACATGACC
1 CAAGATGATGACATAACATATGTCACATCACC
49466 CAAGATGAT
1 CAAGATGAT
49475 AATATGACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (32 bp):
CAAGATGATGACATAACATATGTCACATCACC
Found at i:51608 original size:3 final size:3
Alignment explanation
Indices: 51593--51656 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
51583 CGGTGAATTC
*
51593 TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
51641 TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT T
51657 TGATTTCTGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:58633 original size:14 final size:14
Alignment explanation
Indices: 58614--58641 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58604 AAGTGAAAGA
58614 ATAGTTATATAATT
1 ATAGTTATATAATT
58628 ATAGTTATATAATT
1 ATAGTTATATAATT
58642 TTGTTATAAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:60784 original size:35 final size:35
Alignment explanation
Indices: 60737--60803 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
60727 ATTTATTGAT
60737 TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTACGA
1 TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTACGA
*
60772 TTAGAGTTTAGAGGCTGATGTTGGGTTAGGTA
1 TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTA
60804 AGATCGGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.22, C:0.06, G:0.37, T:0.34
Consensus pattern (35 bp):
TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTACGA
Found at i:62878 original size:35 final size:35
Alignment explanation
Indices: 62839--62909 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
62829 TTCATCTCTC
62839 TTAAAGAAACTTCCAAATAACTACTTACTTTTTTT
1 TTAAAGAAACTTCCAAATAACTACTTACTTTTTTT
*
62874 TTAAAGAAACTTCCAAATAACTATTTACTTTTTTT
1 TTAAAGAAACTTCCAAATAACTACTTACTTTTTTT
62909 T
1 T
62910 ATATATAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (35 bp):
TTAAAGAAACTTCCAAATAACTACTTACTTTTTTT
Found at i:64002 original size:22 final size:23
Alignment explanation
Indices: 63977--64021 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
63967 AGGATAGTAG
*
63977 AAAAATATATATT-TATTTTTTA
1 AAAAATATATATTAAATTTTTTA
63999 AAAAATATATATTAAATTTTTTA
1 AAAAATATATATTAAATTTTTTA
64022 TTTTATCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAAATATATATTAAATTTTTTA
Found at i:65508 original size:27 final size:27
Alignment explanation
Indices: 65478--65534 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
65468 TAAATACTCT
65478 ACTCGAATGGATTTGAGCCCGAGCTCG
1 ACTCGAATGGATTTGAGCCCGAGCTCG
65505 ACTCGAATGGATTTGAGCCCGAGCTCG
1 ACTCGAATGGATTTGAGCCCGAGCTCG
65532 ACT
1 ACT
65535 TGAGCTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (27 bp):
ACTCGAATGGATTTGAGCCCGAGCTCG
Found at i:65933 original size:36 final size:31
Alignment explanation
Indices: 65843--65928 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
65833 TTAGTCTCAT
* * * *
65843 GAGTTTTCTAGTCGAGTCGAACTCTATTTCA
1 GAGTTTTCAAATCGTGTCAAACTCTATTTCA
*
65874 GAGTTTTCAAGTCGTGTCAAACTCTATTTCA
1 GAGTTTTCAAATCGTGTCAAACTCTATTTCA
65905 GAGTTTTCAAATCGTGTCAAACTC
1 GAGTTTTCAAATCGTGTCAAACTC
65929 AACTCAACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (31 bp):
GAGTTTTCAAATCGTGTCAAACTCTATTTCA
Found at i:66638 original size:2 final size:2
Alignment explanation
Indices: 66631--66666 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
66621 TCTAACTGTA
66631 AT AT AT 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 AT AT AT
66667 TATTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67621 original size:2 final size:2
Alignment explanation
Indices: 67614--67652 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
67604 AAAACAATAC
67614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67653 AATACAAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:69005 original size:19 final size:19
Alignment explanation
Indices: 68981--69019 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68971 CTGCAAAATA
68981 AAATAA-AAGAAGAAATAAT
1 AAATAATAA-AAGAAATAAT
*
69000 AAATAATAAAATAAATAAT
1 AAATAATAAAAGAAATAAT
69019 A
1 A
69020 TTAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATAATAAAAGAAATAAT
Found at i:69567 original size:37 final size:37
Alignment explanation
Indices: 69519--69767 Score: 236
Period size: 36 Copynumber: 7.1 Consensus size: 37
69509 CAAACGAGAC
*
69519 AATTTT-TTTTAAGAACAACAATCTCAAGTGAGATGA
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
* *
69555 AATTTTGTTTTAAGAAAAAAAAACTCAAGTGAGATGA
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
* * *
69592 AATTTTGTTTTAAGAACAACAATATCAAATGAGAT--
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
* *
69627 AATTTTTTTTTAAGAAAAACATTCTCAA---AG-T--
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
** * * * ** *
69658 --TTGAGTTTCATGAGAAACTGTCTCAAGTGAGACGA
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
*
69693 AA-TTTGTTTTAAGAACAACAATCTCAAGTGAGATGA
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
* *
69729 AA-TTTGTTTTAAGAAAAACAATCTCAAGAGAGATAA
1 AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
69765 AAT
1 AAT
69768 CTTAAGTGAA
Statistics
Matches: 170, Mismatches: 33, Indels: 19
0.77 0.15 0.09
Matches are distributed among these distances:
29 18 0.11
31 1 0.01
32 4 0.02
35 24 0.14
36 66 0.39
37 57 0.34
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (37 bp):
AATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATGA
Found at i:70068 original size:59 final size:59
Alignment explanation
Indices: 69951--70086 Score: 195
Period size: 59 Copynumber: 2.3 Consensus size: 59
69941 AAATTTCAAG
* * *
69951 GGAAAATATCTCAAGTGAGATGAATTTTTTGTTTCAAGAGAAACTGTATCGAGTGAGAC
1 GGAAAATATCTCAAGGGAGATGAATTTTTTGTTTCAAGAGAAAATGTATCGAGCGAGAC
*
70010 -GAAAATATCTCAAGGGAGATGAATTTTTTTGTTTCAAGAGAAAATGTCTCGAGCGAGAC
1 GGAAAATATCTCAAGGGAGATGAA-TTTTTTGTTTCAAGAGAAAATGTATCGAGCGAGAC
*
70069 GGGAAAAT-TTTCAAGGGA
1 -GGAAAATATCTCAAGGGA
70087 AAATACCTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
58 22 0.32
59 32 0.46
60 9 0.13
61 6 0.09
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (59 bp):
GGAAAATATCTCAAGGGAGATGAATTTTTTGTTTCAAGAGAAAATGTATCGAGCGAGAC
Found at i:70143 original size:64 final size:63
Alignment explanation
Indices: 70072--70190 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 63
70062 GCGAGACGGG
* * *
70072 AAAATTTTCAAGGGAAAATACCTCAA-GGTAGATAAAAATTTTTGTTTCAAGAGAAATTGTTTGA
1 AAAATTTTCAAGAGAAAATACCTAAATGG-AGAT-AAAATTTTTATTTCAAGAGAAATTGTTTGA
* *
70136 AAAATTTTCAAGAGAAAATATCTAAATGGAGATGAAATTTTTATTTCAAGAGAAA
1 AAAATTTTCAAGAGAAAATACCTAAATGGAGATAAAATTTTTATTTCAAGAGAAA
70191 CTGTCTCGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 20 0.41
64 27 0.55
65 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (63 bp):
AAAATTTTCAAGAGAAAATACCTAAATGGAGATAAAATTTTTATTTCAAGAGAAATTGTTTGA
Found at i:70266 original size:18 final size:19
Alignment explanation
Indices: 70243--70278 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
70233 AAAGCGAGAC
70243 AAAATTT-TGTTTAAAGAT
1 AAAATTTATGTTTAAAGAT
70261 AAAATTTATGTTTAAAGA
1 AAAATTTATGTTTAAAGA
70279 GAAACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
AAAATTTATGTTTAAAGAT
Found at i:70921 original size:26 final size:26
Alignment explanation
Indices: 70881--70947 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
70871 AAGATTAATG
* *
70881 AAGAAGTTTTGAAAAACGTTTGATAA
1 AAGAATTTTTGAAAAACATTTGATAA
* * * *
70907 AAGATTTTTTTAAAAATATTTGATGA
1 AAGAATTTTTGAAAAACATTTGATAA
70933 AAGAA-TTTTGAAAAA
1 AAGAATTTTTGAAAAA
70948 TGTTGTCCCT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 9 0.27
26 24 0.73
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (26 bp):
AAGAATTTTTGAAAAACATTTGATAA
Found at i:71520 original size:16 final size:16
Alignment explanation
Indices: 71501--71553 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
71491 TTTCTATTTA
71501 TTCTTTATTCTTTTTT
1 TTCTTTATTCTTTTTT
*
71517 TTCTTTAGTTATTTTTT
1 TTCTTTA-TTCTTTTTT
*
71534 CTTTTTTATTCATTTTTT
1 -TTCTTTATTC-TTTTTT
71552 TT
1 TT
71554 GCCTCTTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.23
17 12 0.39
18 12 0.39
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (16 bp):
TTCTTTATTCTTTTTT
Found at i:71541 original size:18 final size:18
Alignment explanation
Indices: 71501--71551 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
71491 TTTCTATTTA
*
71501 TTCTTTATT-CTTTTT-T
1 TTCTTTATTATTTTTTCT
71517 TTCTTTAGTTATTTTTTCT
1 TTCTTTA-TTATTTTTTCT
71536 TT-TTTATTCATTTTTT
1 TTCTTTATT-ATTTTTT
71552 TTGCCTCTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.23
17 4 0.13
18 16 0.53
19 3 0.10
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (18 bp):
TTCTTTATTATTTTTTCT
Found at i:74488 original size:14 final size:14
Alignment explanation
Indices: 74471--74498 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
74461 ATATCTAATT
74471 CACATGATTGTTTA
1 CACATGATTGTTTA
74485 CACATGATTGTTTA
1 CACATGATTGTTTA
74499 AAAGATTTTC
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CACATGATTGTTTA
Found at i:78017 original size:153 final size:155
Alignment explanation
Indices: 77688--78058 Score: 396
Period size: 153 Copynumber: 2.4 Consensus size: 155
77678 TGTGGTATAT
* * * * * *
77688 GAGCATGTGGTTCAAATTTGGTAAAAAATG-ACTTAAAATAAATCACAAATTGAAGGAATAAGGA
1 GAGCATGAGGCTCAAATTTGGTAAAAAATGAACTTAAAATAAATGACGAATTGAAGAAATAAAGA
* * *
77752 GATATGGAAAATAGAAAGACTAAATTGAAAAATAAATAATTTGTTAACAAAAAGAGGAATTGAAA
66 GATATGAAAAATAGAAAGACTAAATT--AAAATAAATAATTTGGTAACAAAAAGAGAAATTGAAA
*
77817 GTACACATGTATTCTAATATGACTTAC
129 GTACACAAGTATTCTAATATGACTTAC
* *
77844 GAGCATGTGGCTCAAATTTGGTAAAAAAAGGAACTTAAAATAAATGACGAATTGAAGAAATAAAG
1 GAGCATGAGGCTCAAATTTGGT-AAAAAATGAACTTAAAATAAATGACGAATTGAAGAAATAAAG
* * * * *
77909 AGATTTCGAAAAATTG-AAGAACTAAATT-AAA-ACA-AA-TTGGTATCAAAAATAGAAATTGAA
65 AGATAT-GAAAAATAGAAAG-ACTAAATTAAAATAAATAATTTGGTAACAAAAAGAGAAATTGAA
* * *
77969 AGTACACAAGTATTCTATTATGATTTAG
128 AGTACACAAGTATTCTAATATGACTTAC
* * ** * * *
77997 GAGTATGAGGTTGGAATTTGGTTAAAAATGAACTTAAAATGAAGGA-GAAATTGAAGAAATAA
1 GAGCATGAGGCTCAAATTTGGTAAAAAATGAACTTAAAATAAATGACG-AATTGAAGAAATAA
78059 TGAAATCAGG
Statistics
Matches: 183, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
151 1 0.01
152 34 0.19
153 61 0.33
154 2 0.01
155 2 0.01
156 24 0.13
157 7 0.04
158 37 0.20
159 15 0.08
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.26
Consensus pattern (155 bp):
GAGCATGAGGCTCAAATTTGGTAAAAAATGAACTTAAAATAAATGACGAATTGAAGAAATAAAGA
GATATGAAAAATAGAAAGACTAAATTAAAATAAATAATTTGGTAACAAAAAGAGAAATTGAAAGT
ACACAAGTATTCTAATATGACTTAC
Found at i:80104 original size:5 final size:5
Alignment explanation
Indices: 80096--80130 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
80086 ATTTATTTAT
80096 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC ATTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTT
80131 ATTTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:80137 original size:4 final size:4
Alignment explanation
Indices: 80128--80169 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
80118 TTCTTTTCAT
*
80128 TTTA TTTA TTTA TTT- TTTC TTTA CTTTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA --TTTA TTTA TTTA TTTA T
80170 CATGTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
6 4 0.12
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:80156 original size:25 final size:25
Alignment explanation
Indices: 80082--80167 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
80072 TATTTATATA
*
80082 TTTTATTTATTTA-TTTTTCTTTTC
1 TTTTATTTATTTATTTTTTCTTTAC
* * * *
80106 TTTTCTTT-TCT-TTTCTT-TTCA-
1 TTTTATTTATTTATTTTTTCTTTAC
80127 TTTTATTTATTTATTTTTTCTTTAC
1 TTTTATTTATTTATTTTTTCTTTAC
80152 TTTTATTTATTTATTT
1 TTTTATTTATTTATTT
80168 ATCATGTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
21 7 0.15
22 4 0.08
23 11 0.23
24 10 0.21
25 16 0.33
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTATTTATTTATTTTTTCTTTAC
Found at i:80257 original size:27 final size:27
Alignment explanation
Indices: 80197--80257 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
80187 TACCATCATT
*
80197 TTCC-TATATTATATTTATGTTATTTT
1 TTCCTTATATTATATTTATGTTATTTC
** *
80223 TTTATTATATT-TATTTATGCTTCTTTC
1 TTCCTTATATTATATTTATG-TTATTTC
80250 TTCCTTAT
1 TTCCTTAT
80258 GTTTTGTCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.20, C:0.11, G:0.03, T:0.66
Consensus pattern (27 bp):
TTCCTTATATTATATTTATGTTATTTC
Found at i:81076 original size:19 final size:19
Alignment explanation
Indices: 81052--81099 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
81042 GGAAGACATT
81052 GTGCATCGATACACTAGGA
1 GTGCATCGATACACTAGGA
*
81071 GTGCATCGATACACTAGGG
1 GTGCATCGATACACTAGGA
81090 GTGCATCGAT
1 GTGCATCGAT
81100 GCATAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (19 bp):
GTGCATCGATACACTAGGA
Found at i:81151 original size:17 final size:18
Alignment explanation
Indices: 81129--81168 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
81119 TTTCAAACAA
81129 GCATGG-AGTGCATCGAT
1 GCATGGCAGTGCATCGAT
*
81146 GCATGGTCTGTGCATCGAT
1 GCATGG-CAGTGCATCGAT
81165 GCAT
1 GCAT
81169 AAAATGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
19 14 0.70
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (18 bp):
GCATGGCAGTGCATCGAT
Found at i:81183 original size:18 final size:18
Alignment explanation
Indices: 81156--81220 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
81146 GCATGGTCTG
81156 TGCA-TCGATGCATAAAA
1 TGCATTCGATGCATAAAA
81173 TGCATTCGATGCATAAAA
1 TGCATTCGATGCATAAAA
81191 TGCATTCGATGCATAAAA
1 TGCATTCGATGCATAAAA
81209 TGCATTCGATGC
1 TGCATTCGATGC
81221 TTTCAATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 4 0.09
18 43 0.91
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (18 bp):
TGCATTCGATGCATAAAA
Found at i:81952 original size:25 final size:25
Alignment explanation
Indices: 81919--81984 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
81909 CCAAATATAT
*
81919 AAATTCAAACATCCAATCATCCAAC
1 AAATTCAAATATCCAATCATCCAAC
81944 AAATTCAAATATCCAATCATCCAAC
1 AAATTCAAATATCCAATCATCCAAC
81969 AAATTCAAATATCCAA
1 AAATTCAAATATCCAA
81985 AATAAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATTCAAATATCCAATCATCCAAC
Found at i:87762 original size:22 final size:21
Alignment explanation
Indices: 87720--87759 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
87710 AAGACTATTT
87720 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
87741 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
87760 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:90652 original size:13 final size:13
Alignment explanation
Indices: 90634--90670 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
90624 TTCACTTAAG
90634 GCTCTAAACCCGA
1 GCTCTAAACCCGA
90647 GCTCTAAACCCGA
1 GCTCTAAACCCGA
90660 GCTCTAAACCC
1 GCTCTAAACCC
90671 TATTTAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.41, G:0.14, T:0.16
Consensus pattern (13 bp):
GCTCTAAACCCGA
Found at i:94110 original size:95 final size:95
Alignment explanation
Indices: 93932--94194 Score: 305
Period size: 95 Copynumber: 2.7 Consensus size: 95
93922 AGATTATAAT
* * * * * *
93932 ATTATATATATACAATAAAGCTTGAGCTATCCCTCTAAAGCAATTGGTTAAATGCACTGTCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
* * *
93997 TGGGTAAGATTCAGCTAGCCTGACAAAGGTG
65 TAGATAAGATTCAACTAGCCTGACAAAGGTG
* * *
94028 ATTATAATGTACAATAAAGCTTGAGTTGTCCCTCTACAGCAATTGGTTAAACACCCCGACTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
* **
94093 AGATAATATTCAACTAGCCTGGTAAAGGTG
66 AGATAAGATTCAACTAGCCTGACAAAGGTG
*
94123 ATTCTAATAACTATACAATAATA--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGAC
1 A-T-T-ATAA-TATACAATAA-AGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGAC
*
94186 TTAATAGAT
61 TTTATAGAT
94195 CCAGCTACCC
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
95 75 0.52
96 7 0.05
97 1 0.01
98 50 0.35
99 9 0.06
100 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
AGATAAGATTCAACTAGCCTGACAAAGGTG
Found at i:95585 original size:34 final size:35
Alignment explanation
Indices: 95528--95631 Score: 156
Period size: 34 Copynumber: 2.9 Consensus size: 35
95518 CAAAAAAAAG
*
95528 TTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATT
1 TTGTCTCTCTTGAGACA-ATTCTCTTAAAACAAATT
95564 TTGTCTCTCTTGAGA-AATTCTCTTAAAACAAATT
1 TTGTCTCTCTTGAGACAATTCTCTTAAAACAAATT
* *
95598 TTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
1 TTGTCTCTCTTGAGACAA-TTCTCTTAAAACAAA
95632 ATCTTTGAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 32 0.51
35 3 0.05
36 28 0.44
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (35 bp):
TTGTCTCTCTTGAGACAATTCTCTTAAAACAAATT
Found at i:95743 original size:36 final size:36
Alignment explanation
Indices: 95644--96011 Score: 335
Period size: 36 Copynumber: 10.3 Consensus size: 36
95634 CTTTGAATCT
* * * *
95644 GTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* ** * * *
95680 ATTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
95717 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
95753 GTTTCCCTTGAATCAAATTTTGTTTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
95789 GTTTCCCTTGAATCAAA-TTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
95824 ATTTCCCTTGAAACAAA------ATCT-TTGA-ATCTA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-C-A
* * * *
95854 -TTTTCCTTTAAACAAATTTCGTCTCTCTCG-GTACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG-ACA
** * *
95889 GTTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 G-TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
95927 GTTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
95963 ATTTTCCTTGAAACAAAGTTTTGCCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
*
96000 GTTTCTCTTGAA
1 GTTTCCCTTGAA
96012 GCACCAATCT
Statistics
Matches: 271, Mismatches: 44, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.00
29 19 0.07
30 4 0.01
35 36 0.13
36 119 0.44
37 73 0.27
38 18 0.07
39 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:95952 original size:210 final size:210
Alignment explanation
Indices: 95528--96011 Score: 735
Period size: 210 Copynumber: 2.3 Consensus size: 210
95518 CAAAAAAAAG
* * * *
95528 TTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-A-ATTCTCTTAAA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
*
95591 ACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAA
66 ACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTGAA
* * *
95656 ACTAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACAGTTT
131 ACAAATTTCGTCTCCCTCGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTT
95721 CTCTTGAAACAAATT
196 CTCTTGAAACAAATT
* * *
95736 TTGTCTCTCTTGAGACAGTTTCCCTTGAATCAAATTTTGTTTCTCTTGAGACAGTTTCCCTTGAA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
* *
95801 TCAAA-TTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTTAA
66 ACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTGAA
* *
95865 ACAAATTTCGTCTCTCTCG-GTACAGTTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGT
131 ACAAATTTCGTCTCCCTCGAG-ACA-ATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGT
95929 TT-TCCTTGAAACAAATT
194 TTCT-CTTGAAACAAATT
* * *
95946 TTGTCTCTCTTGAGACAATTTTCCTTGAAACAAAGTTTTGCCTCTCTTGAGACAGTTTCTCTTGA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGA
96011 A
65 A
96012 GCACCAATCT
Statistics
Matches: 249, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
208 48 0.19
209 78 0.31
210 95 0.38
211 28 0.11
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (210 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
ACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTGAA
ACAAATTTCGTCTCCCTCGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTT
CTCTTGAAACAAATT
Found at i:95963 original size:21 final size:21
Alignment explanation
Indices: 95933--95995 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
95923 GACAGTTTTC
95933 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
*
95954 CTTGAGAC-AA--TT-T-TC-
1 CTTGAAACAAATTTTGTCTCT
*
95969 CTTGAAACAAAGTTTTGCCTCT
1 CTTGAAACAAA-TTTTGTCTCT
95991 CTTGA
1 CTTGA
95996 GACAGTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 13
0.67 0.06 0.27
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 1 0.03
18 2 0.06
19 2 0.06
20 2 0.06
21 9 0.28
22 5 0.16
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCT
Found at i:96010 original size:73 final size:74
Alignment explanation
Indices: 95855--96011 Score: 196
Period size: 73 Copynumber: 2.1 Consensus size: 74
95845 TTGAATCTAT
* * * * * *
95855 TTTC-CTTTAAACAAATTTCGTCTCTCTCGGTACAGTTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTCTCTTGAAACAAATTTCGTCTCTCTCGGTACAATTTTCTCTTGAAACAAAGTTTTGCCTCTC
95919 TTGAGACAG
66 TTGAGACAG
* *
95928 TTT-TCCTTGAAACAAATTTTGTCTCTCTTGAG-ACAATTTTC-CTTGAAACAAAGTTTTGCCTC
1 TTTCT-CTTGAAACAAATTTCGTCTCTCTCG-GTACAATTTTCTCTTGAAACAAAGTTTTGCCTC
95990 TCTTGAGACAG
64 TCTTGAGACAG
96001 TTTCTCTTGAA
1 TTTCTCTTGAA
96012 GCACCAATCT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
73 40 0.56
74 31 0.43
75 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (74 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTCGGTACAATTTTCTCTTGAAACAAAGTTTTGCCTCTC
TTGAGACAG
Found at i:96034 original size:30 final size:31
Alignment explanation
Indices: 96000--96084 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 31
95990 TCTTGAGACA
* * *
96000 GTTTCTCTTGAAGCACCAATC-TTTGAAATT
1 GTTTCTCTTGAAACACCAAACATTTGAAAAT
*
96030 GTTTCTCTTGAAACACAAAAAAACATTTGAAAAT
1 GTTTCTCTTGAAACAC---CAAACATTTGAAAAT
96064 GTTTCTCTTGAAACACCAAAC
1 GTTTCTCTTGAAACACCAAAC
96085 CTTCGAGTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 15 0.33
31 4 0.09
33 3 0.07
34 24 0.52
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (31 bp):
GTTTCTCTTGAAACACCAAACATTTGAAAAT
Found at i:97435 original size:2 final size:2
Alignment explanation
Indices: 97428--97470 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
97418 ATTAATATTA
97428 AT AT AT AT AT AT 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 AT AT AT AT AT AT
97470 A
1 A
97471 GTTTTTTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:97517 original size:21 final size:21
Alignment explanation
Indices: 97493--97560 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
97483 TTTATTTCCC
*
97493 TTATGTATTTATATATTTTAT
1 TTATTTATTTATATATTTTAT
* *
97514 TTATTTATTTATCT-TTTCTTT
1 TTATTTATTTATATATTT-TAT
*
97535 TTATTTATTTATTTA-TTTAT
1 TTATTTATTTATATATTTTAT
97555 TTATTT
1 TTATTT
97561 TTCCTTTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.28
21 29 0.73
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (21 bp):
TTATTTATTTATATATTTTAT
Found at i:97518 original size:4 final size:4
Alignment explanation
Indices: 97493--97560 Score: 75
Period size: 4 Copynumber: 16.5 Consensus size: 4
97483 TTTATTTCCC
* * *
97493 TTAT GTAT TTAT ATATT TTAT TTAT TTAT TTAT CTT-T TCTTT TTAT TTAT
1 TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT -TTAT T-TAT TTAT TTAT
97543 TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TT
97561 TTCCTTTACT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
3 1 0.02
4 47 0.85
5 7 0.13
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:97521 original size:25 final size:25
Alignment explanation
Indices: 97493--97561 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
97483 TTTATTTCCC
*
97493 TTATGTATTTATATATTTTATTTAT
1 TTATTTATTTATATATTTTATTTAT
* *
97518 TTATTTATCTTTTCT-TTTTATTTAT
1 TTATTTAT-TTATATATTTTATTTAT
*
97543 TTATTTATTTATTTATTTT
1 TTATTTATTTATATATTTT
97562 TCCTTTACTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 4 0.11
25 29 0.78
26 4 0.11
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (25 bp):
TTATTTATTTATATATTTTATTTAT
Found at i:97551 original size:33 final size:33
Alignment explanation
Indices: 97500--97563 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
97490 CCCTTATGTA
97500 TTTATATATTTTATTTATTTATTTATCTTTTCTT
1 TTTATATATTTTATTTATTTATTTAT-TTTTCTT
*
97534 TTTATTTA-TTTATTTATTTATTTATTTTTC
1 TTTATATATTTTATTTATTTATTTATTTTTC
97564 CTTTACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 5 0.17
33 17 0.59
34 7 0.24
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (33 bp):
TTTATATATTTTATTTATTTATTTATTTTTCTT
Found at i:97575 original size:33 final size:33
Alignment explanation
Indices: 97509--97583 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
97499 ATTTATATAT
*
97509 TTTATTTATTTATTTATCTTTTCTTTTTATTTA
1 TTTATTTATTTATTTATCTTTTCTTTCTATTTA
97542 TTTATTTATTTATTTAT-TTTTCCTTTACT-TTTA
1 TTTATTTATTTATTTATCTTTT-CTTT-CTATTTA
*
97575 TTAATTTAT
1 TTTATTTAT
97584 CTATCATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 4 0.11
33 33 0.87
34 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (33 bp):
TTTATTTATTTATTTATCTTTTCTTTCTATTTA
Found at i:100876 original size:23 final size:23
Alignment explanation
Indices: 100841--100900 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
100831 ATTAAGCACA
*
100841 ATAACATATTAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
100864 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
100887 ATAATAAAATAGGT
1 ATAACATAATAGGT
100901 TAATTACTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:101034 original size:23 final size:23
Alignment explanation
Indices: 100999--101048 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
100989 ATCAAGCACA
*
100999 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
101022 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
101045 ATAA
1 ATAA
101049 TAAACTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:101071 original size:158 final size:157
Alignment explanation
Indices: 100799--101192 Score: 637
Period size: 158 Copynumber: 2.5 Consensus size: 157
100789 AAATATATCC
* *
100799 GATAACATAACCGGTTAATTACCGTTAATATTATTAAGCACAATAACATATTAGGTAACGCTTAT
1 GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
*
100864 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTTTTATTACAACATA
66 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
*
100929 TTAGGTAAACGCCTAAAATGTTACCAAT
131 TTAGATAAACG-CTAAAATGTTACCAAT
100957 GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
1 GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
*
101022 ATAACGTAATAGGTAGCGCTTATATAATAAACTAGGTTAATTACTTAATTTGTTATTACAACATA
66 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
*
101087 TTAGATAAACGCTAATATGTTACCAAT
131 TTAGATAAACGCTAAAATGTTACCAAT
* * * * * *
101114 GATAACATAACTGGTTAATTACTAG-AAACATTATCAAGCATAATAACATATTAGGTAGTGCTTA
1 GATAACATAACCGGTTAATTAC-CGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTA
* *
101178 TGTAACATAATAGGT
65 TATAACGTAATAGGT
101193 TGCACATTAT
Statistics
Matches: 221, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
157 84 0.38
158 137 0.62
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (157 bp):
GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
TTAGATAAACGCTAAAATGTTACCAAT
Found at i:101821 original size:240 final size:248
Alignment explanation
Indices: 101307--102050 Score: 1360
Period size: 240 Copynumber: 3.0 Consensus size: 248
101297 ATGTTAACAA
*
101307 AATTTAAACTGATGTAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGATTTGTT
1 AATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGATTTGTT
*
101372 ATCAAGCTTTATCAACATTGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAACATT
66 ATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAACATT
101437 GGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGGAATATATATATATA
131 GGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGGAATATATATATATA
101502 ATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
196 A-GTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
101556 AATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGATTTGTT
1 AATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGATTTGTT
*
101621 ATCAAGCTTTATCAACATGGTAATTGTTTATGCATA-TATAA-GATATCGATTGACTTTACCATT
66 ATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAACATT
101684 GG-AATT-A-ATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTAT-GAA-ATATATATATA
131 GGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGGAATATATATATATA
101744 A-TGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
196 AGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
*
101796 AATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGATTAATTACTTGATTTGTT
1 AATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGATTTGTT
101861 ATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAACATT
66 ATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAACATT
*
101926 GGAAATTAATATATTACTTGGTAGTAATAGATTTTGAAATTATAAGTATGGAATATATATATATA
131 GGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGGAATATATATATATA
101991 ATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
196 A-GTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
102045 ATATTT
1 A-ATTT
102051 TCATGATACC
Statistics
Matches: 479, Mismatches: 6, Indels: 19
0.95 0.01 0.04
Matches are distributed among these distances:
240 151 0.32
241 5 0.01
242 35 0.07
243 7 0.01
244 40 0.08
245 39 0.08
246 7 0.01
247 35 0.07
248 5 0.01
249 151 0.32
250 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (248 bp):
AATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGATTTGTT
ATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAACATT
GGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGGAATATATATATATA
AGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTTACTT
Found at i:104325 original size:200 final size:200
Alignment explanation
Indices: 103972--104342 Score: 602
Period size: 200 Copynumber: 1.9 Consensus size: 200
103962 CGTAATTTAA
* * * *
103972 AAAAAGTATCGACATAAATTTAAAAAGTGTTGATACATTGTGTTGACCTATTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTTGACCTATTCTCTAATAAAACC
* *
104037 GGTATATTTTTACCAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
66 GATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
104102 TTGGGATCGATACATACAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGTCATTCATTC
131 TTGGGATCGATACATACAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGTCATTCATTC
104167 TGGAC
196 TGGAC
* *
104172 AAAATGTATCGACACAAATTTAGAAAA-TGTTGATACATTATGTTGACCTATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAATTTA-AAAAGTGTTGATACATTATGTTGACCTATTCTCTAATAAAAC
*
104236 CGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCA-GTTTCGATGT
65 CGATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTAT-AGGTTTCGATGT
* **
104300 TTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGT
129 TTTTGGGATCGATACATACAATAAATGTATCGACACTTTATGT
104343 TGACATATTT
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
200 152 0.97
201 5 0.03
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTTGACCTATTCTCTAATAAAACC
GATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
TTGGGATCGATACATACAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGTCATTCATTC
TGGAC
Found at i:104407 original size:128 final size:129
Alignment explanation
Indices: 104209--104443 Score: 384
Period size: 128 Copynumber: 1.8 Consensus size: 129
104199 TGTTGATACA
* *
104209 TTATGTTGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTAT
1 TTATGTTGACATATTCTCTAATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTAT
*
104274 TACATTATAATTATCAGTTTCGAT-GTTTTTGGGATCGATACTTTTAATAAATGTATCGACACT
66 TACATTATAATTATCAGTTTCAATGGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACT
* * * *
104337 TTATGTTGACATATTTTCTAATTAAACC-AGTATATTTCTACCTGTTACATTGTAAATTTACCTA
1 TTATGTTGACATATTCTCTAATAAAACCGA-TATATTTATACCGGTTACATTGTAAATTTACCTA
104401 TTACATTATAATTATCAGTTTCAATGGTTTTTGGGATCGATAC
65 TTACATTATAATTATCAGTTTCAATGGTTTTTGGGATCGATAC
104444 AAACATTTAA
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
127 1 0.01
128 80 0.82
129 17 0.17
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (129 bp):
TTATGTTGACATATTCTCTAATAAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCAGTTTCAATGGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACT
Found at i:104878 original size:19 final size:19
Alignment explanation
Indices: 104851--104921 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
104841 ATTTATACAC
* *
104851 CCTACAATATCATTTTCTA
1 CCTATAATATTATTTTCTA
* *
104870 CCTATAATATTATATAC-A
1 CCTATAATATTATTTTCTA
*
104888 ACTATCAATATTTATTTTCTA
1 CCTAT-AATA-TTATTTTCTA
104909 CCTATAATATTAT
1 CCTATAATATTAT
104922 ATAATCAGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 5 0.12
19 21 0.51
20 10 0.24
21 5 0.12
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (19 bp):
CCTATAATATTATTTTCTA
Found at i:104917 original size:20 final size:20
Alignment explanation
Indices: 104862--104919 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
104852 CTACAATATC
104862 ATTTTCTACCTATAATA-TT
1 ATTTTCTACCTATAATATTT
* * *
104881 ATATAC-AACTATCAATATTT
1 ATTTTCTACCTAT-AATATTT
104901 ATTTTCTACCTATAATATT
1 ATTTTCTACCTATAATATT
104920 ATATAATCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.17
19 8 0.27
20 12 0.40
21 5 0.17
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTTCTACCTATAATATTT
Found at i:105976 original size:183 final size:182
Alignment explanation
Indices: 105490--106084 Score: 967
Period size: 183 Copynumber: 3.3 Consensus size: 182
105480 ATTTATTAAA
* * * * * * *
105490 GTATTGACACATTTAACATATTCGGTAGTGCTTTACCGGTTTGTCATAACGAAATCGGTTTTGTC
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTGTCATAATGAAACCGGTTTTGTC
* *
105555 ATATTTTTACCTTTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGAC
66 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGC
* * * *
105620 GCTATTGCTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTTAATG
131 GCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
* * * *
105672 GTATCGACACATTCAACATATCCGGTAGAGATTTACCGGTTT-TAATAATAAAACCGGTTTTATC
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTGTCATAATGAAACCGGTTTTGTC
*
105736 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATTGACACTTTATAGGC
66 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGC
* * *
105801 ACTATTACTGCTTCTCTTTTAAATTCTAAAAGTATCGATACTTATTTCAATG
131 GCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
*
105853 GTATCGACACATTCAACATATCCGGTAGCGATTTATCGGTTTAGTCATAATGAAACCGGTTTTGT
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTT-GTCATAATGAAACCGGTTTTGT
105918 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
65 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
105983 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
130 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
106036 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATA
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGG-TTTGTCATA
106085 TTTTTACCTG
Statistics
Matches: 380, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
181 164 0.43
182 37 0.10
183 176 0.46
184 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (182 bp):
GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTGTCATAATGAAACCGGTTTTGTC
ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGC
GCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
Found at i:106188 original size:162 final size:163
Alignment explanation
Indices: 105907--106246 Score: 522
Period size: 162 Copynumber: 2.1 Consensus size: 163
105897 TCATAATGAA
*
105907 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGA
* *
105972 CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGG
66 CACATTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAAT-C
* *
106037 T-ATCGACACATTCAACATATCCGGTAGCGATTT
130 TAATCGAAACATTCAACATATCCAGTAGCGATTT
**
106070 ACCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTAT-TTGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGA
** *
106134 CACATTATTTGCGCTATTATTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATCT
66 CACATTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATCT
* * *
106199 AATCGAAACTTTCAACATATCCAGTAGTGCTTT
131 AATCGAAACATTCAACATATCCAGTAGCGATTT
**
106232 ACTAGTTTTGTCATA
1 ACCGGTTTTGTCATA
106247 ATGAAACCGG
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
161 1 0.01
162 106 0.66
163 54 0.34
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (163 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGA
CACATTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATCT
AATCGAAACATTCAACATATCCAGTAGCGATTT
Found at i:107803 original size:21 final size:23
Alignment explanation
Indices: 107766--107808 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
107756 AACCTACCAA
*
107766 TAATTATGTCAAGAGAATATAAT
1 TAATTATGTCAAGAGAACATAAT
107789 TAATTA-GTC-AGAGAACATAA
1 TAATTATGTCAAGAGAACATAA
107809 AATTTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (23 bp):
TAATTATGTCAAGAGAACATAAT
Found at i:108968 original size:32 final size:32
Alignment explanation
Indices: 108932--108993 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
108922 ACGATACAAC
* *
108932 ACATGTCA-GTGCACCACTTTAAGTGACATGAT
1 ACATGTCACGT-CAACACTTTAAGAGACATGAT
*
108964 ACATGTCACGTCAACACTTTAGGAGACATG
1 ACATGTCACGTCAACACTTTAAGAGACATG
108994 TTATGTCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (32 bp):
ACATGTCACGTCAACACTTTAAGAGACATGAT
Found at i:116734 original size:14 final size:13
Alignment explanation
Indices: 116714--116746 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
116704 AGCAACTTTC
116714 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
116727 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
116740 GAAAAAA
1 GAAAAAA
116747 CGGTTCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:118099 original size:39 final size:38
Alignment explanation
Indices: 117991--118100 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 38
117981 AGTAGACATT
*
117991 TAGCGGCGTTTTAGCTAAAAACGCCGC-AATATAGTGTAA
1 TAGCGGCGTTTT-G-TAAAAACGCCGCAAAAATAGTGTAA
*
118030 TAGCGACGTTTATTGTATAAAACGCCGCAAAAATA-TGTGATA
1 TAGCGGCG-TT-TTGTA-AAAACGCCGCAAAAATAGTGT-A-A
*
118072 TAGTGGCGTTTTGTAAAAACGCCGCAAAA
1 TAGCGGCGTTTTGTAAAAACGCCGCAAAA
118101 TGTTAAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
39 23 0.38
40 21 0.34
41 10 0.16
42 7 0.11
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (38 bp):
TAGCGGCGTTTTGTAAAAACGCCGCAAAAATAGTGTAA
Found at i:119216 original size:56 final size:57
Alignment explanation
Indices: 119095--119280 Score: 340
Period size: 56 Copynumber: 3.3 Consensus size: 57
119085 GTGAAGACTG
*
119095 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTTTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
*
119152 TTTATGCATAAGTACTTTAATGTTTCTAAATTAT-ATGTATTTTGTTGTTAACTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
119208 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTA-TTTGTTGTTAAGTAGT
1 TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
119264 TTTATGCATAAGTACTT
1 TTTATGCATAAGTACTT
119281 CTGTTTTAAT
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
56 86 0.69
57 39 0.31
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (57 bp):
TTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTATTTTGTTGTTAAGTAGT
Found at i:119585 original size:43 final size:39
Alignment explanation
Indices: 119538--119632 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 39
119528 AATATTTATA
119538 TTTAGTGGCGTTTGTATGAAAACGCCGCTACGTCCTTTCCTAC
1 TTTAGTGGCGTTTGTATGAAAACGCCGCTA-G-CC--TCCTAC
* *
119581 TTTAGTGGCGTTCGTATGAAAACGCCGCTAGCCTCGTAC
1 TTTAGTGGCGTTTGTATGAAAACGCCGCTAGCCTCCTAC
119620 TTTAGTGGCGTTT
1 TTTAGTGGCGTTT
119633 TGTAGAACGC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 17 0.35
41 2 0.04
42 1 0.02
43 29 0.59
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (39 bp):
TTTAGTGGCGTTTGTATGAAAACGCCGCTAGCCTCCTAC
Found at i:120954 original size:60 final size:60
Alignment explanation
Indices: 120856--120974 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
120846 TCCATGAATA
* * * *
120856 AAACTATGTGAATGATAAGGAGTTAATGCTCAACTATGTTACTAGGTAAGCCAAGATAAG
1 AAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAGATAAG
* *
120916 AAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTTGGTACGCCAAGATAA
1 AAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAGATAA
120975 AATTCGTATG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (60 bp):
AAACCATGTGAATGATAAAGAGCTAAGGCTCAACTATGTTACTAGGTAAGCCAAGATAAG
Found at i:122333 original size:37 final size:38
Alignment explanation
Indices: 122244--122463 Score: 259
Period size: 37 Copynumber: 5.8 Consensus size: 38
122234 AACATATTTT
* *
122244 TAGGTTGCAACCTAATTTATCATATAGAAACCTG-AATTC
1 TAGGTTGCAACCTGATTTATCATAT--AAACTTGAAATTC
*
122283 TAGGTTACAACCTGATTTATCATATAAACTTGAAATT-
1 TAGGTTGCAACCTGATTTATCATATAAACTTGAAATTC
122320 TAGGTTGCAACCTGATTTAT-ATATAAACTTG-AATTC
1 TAGGTTGCAACCTGATTTATCATATAAACTTGAAATTC
* * *
122356 TAGGTCGCAACCTAATTTATCATATAAACTTGAATTTC
1 TAGGTTGCAACCTGATTTATCATATAAACTTGAAATTC
** * *
122394 TAGGTTGCAACCTGATTTATCATATGGAAACCCGAACTTT
1 TAGGTTGCAACCTGATTTATCATAT--AAACTTGAAATTC
** *
122434 TAGGTTGCAGTCTGATTTATCATAAAAACT
1 TAGGTTGCAACCTGATTTATCATATAAACT
122464 AGTAAGCTAA
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.03
36 29 0.18
37 36 0.23
38 35 0.22
39 23 0.15
40 31 0.20
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (38 bp):
TAGGTTGCAACCTGATTTATCATATAAACTTGAAATTC
Found at i:122367 original size:73 final size:75
Alignment explanation
Indices: 122242--122463 Score: 295
Period size: 73 Copynumber: 2.9 Consensus size: 75
122232 GAAACATATT
* *
122242 TTTAGGTTGCAACCTAATTTATCATATAGAAACCTGAATTCTAGGTTACAACCTGATTTATCATA
1 TTTAGGTTGCAACCTGATTTATCATAT-GAAACCTGAATTCTAGGTTGCAACCTGATTTATCATA
122307 TAAACTTGAAA
65 TAAACTTGAAA
* * *
122318 TTTAGGTTGCAACCTGATTTAT-ATAT-AAACTTGAATTCTAGGTCGCAACCTAATTTATCATAT
1 TTTAGGTTGCAACCTGATTTATCATATGAAACCTGAATTCTAGGTTGCAACCTGATTTATCATAT
*
122381 AAACTTGAAT
66 AAACTTGAAA
* * **
122391 TTCTAGGTTGCAACCTGATTTATCATATGGAAACCCGAACTTTTAGGTTGCAGTCTGATTTATCA
1 TT-TAGGTTGCAACCTGATTTATCATAT-GAAACCTGAA-TTCTAGGTTGCAACCTGATTTATCA
*
122456 TAAAAACT
63 TATAAACT
122464 AGTAAGCTAA
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
73 44 0.35
74 20 0.16
75 8 0.06
76 21 0.17
77 7 0.06
78 27 0.21
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (75 bp):
TTTAGGTTGCAACCTGATTTATCATATGAAACCTGAATTCTAGGTTGCAACCTGATTTATCATAT
AAACTTGAAA
Found at i:125379 original size:21 final size:19
Alignment explanation
Indices: 125345--125396 Score: 86
Period size: 21 Copynumber: 2.6 Consensus size: 19
125335 ATGAAGCAAG
125345 GGAAGCAGAGAGCAGCAGC
1 GGAAGCAGAGAGCAGCAGC
125364 GGAAGCAGCCAGAGCAGCAGC
1 GGAAGCAG--AGAGCAGCAGC
125385 GGAAGCAGAGAG
1 GGAAGCAGAGAG
125397 AGAAACAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.39
21 19 0.61
ACGTcount: A:0.37, C:0.21, G:0.42, T:0.00
Consensus pattern (19 bp):
GGAAGCAGAGAGCAGCAGC
Found at i:125429 original size:20 final size:20
Alignment explanation
Indices: 125406--125459 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
125396 GAGAAACAGT
125406 GGCAGCACAAGAGAGGCAGC
1 GGCAGCACAAGAGAGGCAGC
125426 GGCAGCACAAGAGAGGCAGC
1 GGCAGCACAAGAGAGGCAGC
*
125446 GGCAGCAAAAGAGA
1 GGCAGCACAAGAGA
125460 AGCAACATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.22, G:0.39, T:0.00
Consensus pattern (20 bp):
GGCAGCACAAGAGAGGCAGC
Found at i:126057 original size:43 final size:41
Alignment explanation
Indices: 125978--126107 Score: 176
Period size: 43 Copynumber: 3.2 Consensus size: 41
125968 AACCTACTGT
*
125978 GGCGTTTGTCTTC-AATGCCGCT-AAATCAACATCTATTGC
1 GGCGTTTGTCTTCAAACGCCGCTAAAATCAACATCTATTGC
*
126017 GGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATTGT
1 GGCGTTTGTCTT-CAAACGCCGCTAAA-ATCAACATCTATTGC
* *
126060 GGCATTTGTCTATCAAACGCCGCTAAAATCAA-ACCTATTGC
1 GGCGTTTGTCT-TCAAACGCCGCTAAAATCAACATCTATTGC
126101 GGCGTTT
1 GGCGTTT
126108 TTTCTTGAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
39 12 0.15
40 1 0.01
41 21 0.26
42 7 0.09
43 38 0.47
44 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (41 bp):
GGCGTTTGTCTTCAAACGCCGCTAAAATCAACATCTATTGC
Found at i:126121 original size:43 final size:42
Alignment explanation
Indices: 125809--126125 Score: 171
Period size: 42 Copynumber: 7.6 Consensus size: 42
125799 ACCGATCTTA
* *
125809 GCGGCGTTTGTATTA-AAGACGCCGC-CAAATCAAACA-CATATT
1 GCGGCGTTTGTCTTACAA-ACGCCGCTAAAATC-AACATC-TATT
* *
125851 GCGGCGTTTCAG-C-TA-AAACGCCGCTAAACCTTAACA-CTTATT
1 GCGGCGTTT--GTCTTACAAACGCCGCTAAA-ATCAACATC-TATT
** * * * * *
125893 GCGGCGTTTGTGATAAAAATGCCACTAAAAT-AACACCTACT
1 GCGGCGTTTGTCTTACAAACGCCGCTAAAATCAACATCTATT
** * * * *
125934 GCGGCGTTCTG--AGAAAAACGCTGCTATAAATCGAA-ACCTACT
1 GCGGCGTT-TGTCTTACAAACGCCGCTA-AAATC-AACATCTATT
* *
125976 GTGGCGTTTGTCTT-C-AATGCCGCT-AAATCAACATCTATT
1 GCGGCGTTTGTCTTACAAACGCCGCTAAAATCAACATCTATT
*
126015 GCGGCGTTTGTCTTCCAAACGCCGCTAAATATCAACATCTATT
1 GCGGCGTTTGTCTTACAAACGCCGCTAAA-ATCAACATCTATT
* * *
126058 GTGGCATTTGTC-TATCAAACGCCGCTAAAATCAA-ACCTATT
1 GCGGCGTTTGTCTTA-CAAACGCCGCTAAAATCAACATCTATT
* *
126099 GCGGCGTTTTTTCTTGAAAAACGCCGC
1 GCGGCG-TTTGTCTT-ACAAACGCCGC
126126 AAACTTTAGC
Statistics
Matches: 220, Mismatches: 32, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
38 2 0.01
39 23 0.10
40 13 0.06
41 53 0.24
42 66 0.30
43 61 0.28
44 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
GCGGCGTTTGTCTTACAAACGCCGCTAAAATCAACATCTATT
Found at i:131172 original size:45 final size:44
Alignment explanation
Indices: 131064--131177 Score: 178
Period size: 44 Copynumber: 2.6 Consensus size: 44
131054 AGAGAAAAAT
*
131064 ATTTTTTATTTAGAT-C-AAACTACGTTGTTTTGGTATAAATTTG
1 ATTTTTTA-TAAGATCCAAAACTACGTTGTTTTGGTATAAATTTG
*
131107 ATTTTTTATAAGATCCAAAACTACGTTGTTTTGGTATAAATTTT
1 ATTTTTTATAAGATCCAAAACTACGTTGTTTTGGTATAAATTTG
131151 ATTTTTTTATAAGATCCAAAACTACGT
1 A-TTTTTTATAAGATCCAAAACTACGT
131178 CGTCTTGATG
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
42 5 0.08
43 9 0.14
44 27 0.41
45 25 0.38
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (44 bp):
ATTTTTTATAAGATCCAAAACTACGTTGTTTTGGTATAAATTTG
Found at i:131224 original size:41 final size:41
Alignment explanation
Indices: 131167--131249 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
131157 TTATAAGATC
131167 CAAAACTACGTCGTCTTGATGTTAATTGACACGTCATAATG
1 CAAAACTACGTCGTCTTGATGTTAATTGACACGTCATAATG
131208 CAAAACTACGTCGTCTTGATGTTAATTGACACGTCATAATG
1 CAAAACTACGTCGTCTTGATGTTAATTGACACGTCATAATG
131249 C
1 C
131250 CGTTACAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (41 bp):
CAAAACTACGTCGTCTTGATGTTAATTGACACGTCATAATG
Found at i:137394 original size:21 final size:21
Alignment explanation
Indices: 137364--137411 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
137354 TAATTTTCAA
*
137364 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
137385 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
137406 ACATTG
1 ACATTG
137412 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:137930 original size:22 final size:21
Alignment explanation
Indices: 137891--137932 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
137881 TTTTGAAAGT
*
137891 TTTTTTAAAAATTTTTTTTGG
1 TTTTTTAAAAATTGTTTTTGG
137912 TTTTTTAAAAATTGGTTTTTG
1 TTTTTTAAAAATT-GTTTTTG
137933 AATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (21 bp):
TTTTTTAAAAATTGTTTTTGG
Found at i:137941 original size:2 final size:2
Alignment explanation
Indices: 137934--137973 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
137924 TGGTTTTTGA
137934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
137974 ATTTTGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:138059 original size:37 final size:38
Alignment explanation
Indices: 137962--138256 Score: 246
Period size: 37 Copynumber: 8.4 Consensus size: 38
137952 ATATATATAT
137962 ATATATAATATA-A--TTTTGAAAACATTTTT-AAAA-
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
* **
137995 A-CTAT-A-ATATAGTTTTTTCAAACATTTTTGAAAAC
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
* * *
138030 ATA-ATAATATATAGTTTTTGAAAATA-TTTTGAATAT
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
*
138066 ATATATATATAATATAATTTTTGAAAACA-TTTT-AAAA-
1 ATATATA-AT-ATATAGTTTTTGAAAACATTTTTGAAAAC
* *
138103 ATATAT-ATA-ATA-----T--ATA-GTTTTTGAAAAC
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
* *
138131 ATATATAATATATAGTTTTTGAAAATA-TTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
138168 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
* ** *
138206 -TATATAATATATAG-TTTGGAAAACATTTTAAAAAAT
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
138242 ATATATATATATATA
1 ATATATA-ATATATA
138257 ATATAGTTTT
Statistics
Matches: 212, Mismatches: 23, Indels: 49
0.75 0.08 0.17
Matches are distributed among these distances:
26 6 0.03
27 4 0.02
28 7 0.03
29 3 0.01
30 6 0.03
31 2 0.01
32 3 0.01
33 18 0.08
34 5 0.02
35 6 0.03
36 30 0.14
37 81 0.38
38 21 0.10
39 20 0.09
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (38 bp):
ATATATAATATATAGTTTTTGAAAACATTTTTGAAAAC
Found at i:138064 original size:26 final size:26
Alignment explanation
Indices: 138035--138170 Score: 90
Period size: 26 Copynumber: 5.3 Consensus size: 26
138025 AAAACATAAT
138035 AATATATAGTTTTTGAAAATATTTTG
1 AATATATAGTTTTTGAAAATATTTTG
* *
138061 AATATATA-TATATAT-AATATAATTTTTG
1 AATATATAGT-T-TTTGAAAAT-A-TTTTG
* * *
138089 AA-A-ACA--TTTTAAAAATATATAT-
1 AATATATAGTTTTTGAAAATAT-TTTG
* *
138111 AATATATAGTTTTTGAAAACATATAT-
1 AATATATAGTTTTTGAAAATAT-TTTG
138137 AATATATAGTTTTTGAAAATATTTTG
1 AATATATAGTTTTTGAAAATATTTTG
*
138163 AAAATATA
1 AATATATA
138171 TATAATATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
22 3 0.03
23 6 0.07
24 7 0.08
25 3 0.03
26 57 0.66
27 4 0.05
28 7 0.08
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (26 bp):
AATATATAGTTTTTGAAAATATTTTG
Found at i:138141 original size:76 final size:76
Alignment explanation
Indices: 137997--138144 Score: 201
Period size: 76 Copynumber: 1.9 Consensus size: 76
137987 TTTTAAAAAC
* ** * * *
137997 TATAATATAGTTTTTTCAAACATTTTTGAAAACATAATAATATATAGTTTTTGAAAATATTTTGA
1 TATAATATAATTTTTGAAAACATTTTTAAAAACATAATAATATATAGTTTTTGAAAACATTATGA
138062 ATATATATATA
66 ATATATATATA
*
138073 TATAATATAATTTTTGAAAACA-TTTTAAAAATATATATAATATATAGTTTTTGAAAACATATAT
1 TATAATATAATTTTTGAAAACATTTTTAAAAACATA-ATAATATATAGTTTTTGAAAACAT-TAT
138137 -AATATATA
64 GAATATATA
138145 GTTTTTGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
75 11 0.17
76 50 0.79
77 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (76 bp):
TATAATATAATTTTTGAAAACATTTTTAAAAACATAATAATATATAGTTTTTGAAAACATTATGA
ATATATATATA
Found at i:138152 original size:63 final size:61
Alignment explanation
Indices: 138070--138195 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 61
138060 GAATATATAT
138070 ATATATAATATAATTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAAC
1 ATATATAATATAATTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAAC
* *
138131 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTTGAAAAC
1 ATATATAATATA-A-TTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAAC
138194 AT
1 AT
138196 TTTTGAAAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 12 0.20
62 1 0.02
63 48 0.79
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (61 bp):
ATATATAATATAATTTTTGAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAAC
Found at i:138158 original size:24 final size:26
Alignment explanation
Indices: 138095--138155 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
138085 TTTGAAAACA
* *
138095 TTTTAAAAATATATATAATATATAGT
1 TTTTGAAAACATATATAATATATAGT
138121 TTTTGAAAACATATATAATATATAGT
1 TTTTGAAAACATATATAATATATAGT
138147 TTTTGAAAA
1 TTTTGAAAA
138156 TATTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
TTTTGAAAACATATATAATATATAGT
Found at i:138288 original size:3 final size:3
Alignment explanation
Indices: 138274--138309 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
138264 TTTAAAAATA
* *
138274 TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
138310 ATGCTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:138291 original size:12 final size:12
Alignment explanation
Indices: 138274--138309 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
138264 TTTAAAAATA
138274 TATTACTATTAT
1 TATTACTATTAT
138286 TATTACTATTAT
1 TATTACTATTAT
*
138298 TATTATTATTAT
1 TATTACTATTAT
138310 ATGCTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:143232 original size:33 final size:33
Alignment explanation
Indices: 143190--143255 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
143180 CTGTCTCTGT
143190 TGTGGATGTAGCCACAACTGACTACAATTTTGA
1 TGTGGATGTAGCCACAACTGACTACAATTTTGA
*
143223 TGTGGATGTAGCCACAACTGACTGCAATTTTGA
1 TGTGGATGTAGCCACAACTGACTACAATTTTGA
143256 AACCCAGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (33 bp):
TGTGGATGTAGCCACAACTGACTACAATTTTGA
Found at i:148005 original size:2 final size:2
Alignment explanation
Indices: 147998--148044 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
147988 TGATGTATGT
147998 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
148040 TA TA T
1 TA TA T
148045 TCCTATTACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:158155 original size:39 final size:39
Alignment explanation
Indices: 158112--158210 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
158102 CAATTGCATG
*
158112 AATCCCTAATTCCCCATTTTCATTTC-CCTCTTGCACCTC
1 AATCCCTAATTCCCCATTTTCATTTCTCCT-TCGCACCTC
* * * * * *
158151 AATCCATATTTTCCCTTTTTTATTTCTCCTTCGCATCTC
1 AATCCCTAATTCCCCATTTTCATTTCTCCTTCGCACCTC
*
158190 AATCCCTAATTCACCATTTTC
1 AATCCCTAATTCCCCATTTTC
158211 CTCTTCGTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
39 43 0.93
40 3 0.07
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.43
Consensus pattern (39 bp):
AATCCCTAATTCCCCATTTTCATTTCTCCTTCGCACCTC
Found at i:163338 original size:39 final size:39
Alignment explanation
Indices: 163294--163392 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 39
163284 CAATTGCCTG
163294 AATCCCTAATTTCCCATTTTCATTTC-CCTCTCGCACCCC
1 AATCCCTAATTTCCCATTTTCATTTCTCCT-TCGCACCCC
* * * * *
163333 GATCCCTAATTCCCCTTTTTCATTTCTCCTTCGCATCTC
1 AATCCCTAATTTCCCATTTTCATTTCTCCTTCGCACCCC
163372 AATCCCTAA-TTCACCATTTTC
1 AATCCCTAATTTC-CCATTTTC
163393 CTCTTTGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.04
39 45 0.90
40 3 0.06
ACGTcount: A:0.18, C:0.39, G:0.03, T:0.39
Consensus pattern (39 bp):
AATCCCTAATTTCCCATTTTCATTTCTCCTTCGCACCCC
Found at i:166952 original size:18 final size:19
Alignment explanation
Indices: 166912--166953 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
166902 CCCCTTTGGC
*
166912 GAGTATTGATACTACCCCT
1 GAGTATTGATACTACCACT
*
166931 -AGTATTGATACT-CCATT
1 GAGTATTGATACTACCACT
166948 GAGTAT
1 GAGTAT
166954 CGGTACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (19 bp):
GAGTATTGATACTACCACT
Found at i:169885 original size:17 final size:18
Alignment explanation
Indices: 169857--169893 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
169847 AATTTTCTGA
169857 GTTTTTATAAAAGTAAAT
1 GTTTTTATAAAAGTAAAT
*
169875 GTTTTTA-AAAAGTCAAT
1 GTTTTTATAAAAGTAAAT
169892 GT
1 GT
169894 GACACCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.43
Consensus pattern (18 bp):
GTTTTTATAAAAGTAAAT
Found at i:176132 original size:21 final size:21
Alignment explanation
Indices: 176102--176159 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
176092 TCCTTAAGGA
176102 GTGGTCCTTCGAGACATATAT
1 GTGGTCCTTCGAGACATATAT
* *
176123 GTGGTTCTTC-AGGATATATAT
1 GTGGTCCTTCGA-GACATATAT
176144 GTGGTCCTTCGAGACA
1 GTGGTCCTTCGAGACA
176160 AATTTATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (21 bp):
GTGGTCCTTCGAGACATATAT
Found at i:178081 original size:17 final size:17
Alignment explanation
Indices: 178059--178110 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
178049 CTTTCTAAAC
178059 AAAGAAAGAAGAAGACA
1 AAAGAAAGAAGAAGACA
* *
178076 AAAGAAATAAGAAGAAA
1 AAAGAAAGAAGAAGACA
*
178093 AAAGAAAGAAGAATACA
1 AAAGAAAGAAGAAGACA
178110 A
1 A
178111 GGAAATGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (17 bp):
AAAGAAAGAAGAAGACA
Found at i:184898 original size:17 final size:17
Alignment explanation
Indices: 184876--184908 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
184866 TTCTTTCTAG
*
184876 AGAAAGAGAGAAGAATA
1 AGAAAGAGAAAAGAATA
184893 AGAAAGAGAAAAGAAT
1 AGAAAGAGAAAAGAAT
184909 GCAATGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
AGAAAGAGAAAAGAATA
Found at i:187940 original size:14 final size:14
Alignment explanation
Indices: 187895--187932 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
187885 CAGTCGGACT
187895 AAGACTAAGCAAGC
1 AAGACTAAGCAAGC
*
187909 AAGACTACGCAAGC
1 AAGACTAAGCAAGC
187923 AAGACTAAGC
1 AAGACTAAGC
187933 CATCAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.08
Consensus pattern (14 bp):
AAGACTAAGCAAGC
Found at i:189088 original size:2 final size:2
Alignment explanation
Indices: 189073--189120 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
189063 TCGCATAAGC
* *
189073 TA TA TA TC TC 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
189115 TA TA TA
1 TA TA TA
189121 ATCGAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:190548 original size:19 final size:19
Alignment explanation
Indices: 190524--190562 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
190514 TTTTTATTTT
190524 TTTTAATTATAATATTAAA
1 TTTTAATTATAATATTAAA
*
190543 TTTTAATTATATTATTAAA
1 TTTTAATTATAATATTAAA
190562 T
1 T
190563 CATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTATAATATTAAA
Found at i:195360 original size:88 final size:88
Alignment explanation
Indices: 195211--195387 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 88
195201 ATAATGGTAT
*
195211 ATTTATCACGCAATAATGAAGATTTTACTGGCTACCATGAATGAATATGCCATTGCCCACTTAGT
1 ATTTATCACGCAATAATGAAGATTTTACTGGCAACCATGAATGAATATGCCATTGCCCACTTAGT
195276 AGGACAGAGTATAACTAGCACAA
66 AGGACAGAGTATAACTAGCACAA
* *
195299 ATTTATCA-GACAATAATTAAGATTTTACTGGCAACCATGAATGATTATGCCATTGCCCACTTAG
1 ATTTATCACG-CAATAATGAAGATTTTACTGGCAACCATGAATGAATATGCCATTGCCCACTTAG
* *
195363 TAGGACAGATTATAACTGGCACAA
65 TAGGACAGAGTATAACTAGCACAA
195387 A
1 A
195388 CCTTCTCTGG
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 1 0.01
88 82 0.99
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (88 bp):
ATTTATCACGCAATAATGAAGATTTTACTGGCAACCATGAATGAATATGCCATTGCCCACTTAGT
AGGACAGAGTATAACTAGCACAA
Found at i:201346 original size:31 final size:31
Alignment explanation
Indices: 201311--201384 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
201301 ATGGTCGGGA
201311 ACCATATTGCAAACAGACTAAATGTTGGGGG
1 ACCATATTGCAAACAGACTAAATGTTGGGGG
* **
201342 ACCATATTGTAAATGGACTAAATGTTGGGGG
1 ACCATATTGCAAACAGACTAAATGTTGGGGG
**
201373 ACTGTATTGCAA
1 ACCATATTGCAA
201385 GTTTTAAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (31 bp):
ACCATATTGCAAACAGACTAAATGTTGGGGG
Found at i:202217 original size:4 final size:4
Alignment explanation
Indices: 202210--206465 Score: 4636
Period size: 4 Copynumber: 1074.5 Consensus size: 4
202200 TATGACATGA
* * * **
202210 ATGT ATGT ATGT ATAT ATGT ATGT ATAT ATAT ATGT ATGT ACAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
202258 ATGT ACGT ATGA ACGT ATGT ACGT ACGT ATGC ACGT ACGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *** * * * * * * **
202306 ATGT ACGT ATGT ACGT ACGT AT-T CACGC ACAC ACGC ACGC ACGC ACAT
1 ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT
* * *
202354 ATGT ATGT ATGT ATAT ATAT ATAT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
202400 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-A ATGT ATGA
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
202447 ATGC ATGAT ATGC ATGT ATGT AT-A ATTT ATGA ATGC ATGAT ATGC ATGT
1 ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T ATGT ATGT
* * * * *
202496 ATGT ATGC ATAT ATGT ATGT ATGT ATGC ATGC ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
202544 ATGC ATGT ATGT ATGT ATGT ATGC ATGC ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * ** *
202592 ATGC ATGC ATTT ATGT ATGT ATGT ATGC AT-T CATGT ATAC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT
* * * * * * * **
202640 ATGT ATGC ATGG ATGC ATGT ATGC ATGG ATGT -TGT ATGC ATGG ATAC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
202687 ATGT ATGC ATGG ATGC ATGT ATGC ATGT GTGC ATGT ATGA ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
202735 ATGT ATGA ATGC ATGAT ATGC ATGT ATGA ATGC ATGAT ATGC ATGT ATGA
1 ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT
* * * * * * *
202785 ATGC ATGAT ATGC ATGT ATGA ATGC ATGAT ATGC ATGT ATGA ATGC ATGAT
1 ATGT ATG-T ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATG-T
* * * * * *
202836 ATGC ATGT ATGA ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
202884 ATGAT ATGC ATGT ATGC ATGC ATGC ATGC ATGT ATGT ATAT ATGC ATGC
1 ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * ** *
202933 ATGAT ATGC ATGT ATGA ATGC ATGAT ATGC ATGT ATGA ATAC ATGAT ATGC
1 ATG-T ATGT ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATG-T ATGT
* * * * * * * *
202984 ATGA ATGC ATGAT ATGC ATGA ATGC ATGAT ATGC ATGT ATGC ATGAT ATGC
1 ATGT ATGT ATG-T ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATG-T ATGT
* * * * * * *
203035 ATGT ATGT ATGC ATGC ATGC ATGT ATGT ATGC ATGC ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* ** * * *
203083 ATGT ATGC ATAC ATGC ATGT ATGT ATAT ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
203131 ATGA ATGC ATGT ATAT ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
** * * * * * * * *
203179 ATAC ATGG ATGC ATGT ATGC ATGG ATGC ATGT ATGC ATGT ATGC ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * ** * * *
203227 ATGC ACGG ATGT -TGT ATGC ATGG ATAC ATGT ATGC ATGG ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
203274 ATGC ATGT GTGC ATGT ATGCAT ATG- GTGC ATGT ATGC ATGT GTGC ATGT
1 ATGT ATGT ATGT ATGT ATG--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * *
203323 ATGC ATGT ATGA ATGC ATGT ATGC ATGT ATGA ATGC ATG- ATGT GCATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT --ATGT
* * * * * *
203372 ATGA ATGC ATG- ATGT GCATGT ATGA ATGC ATGAT ATGC ATGT ATGA ATGT
1 ATGT ATGT ATGT ATGT --ATGT ATGT ATGT ATG-T ATGT ATGT ATGT ATGT
* * * *
203422 ATGC GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGA ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
203470 ATGC GTGA ATGT ATGT ATAT ATAT ATGT ATGC ATGT ATGCAT ATG- GTGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG--T ATGT ATGT
* * * * * * *
203519 ATGT ATGC ATGT GTGC ATGT ATGC ATGT ATGA ATGC ATGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
203567 ATGA ATGC ATG- ATGT GCATGT ATGA ATGT ATG- ATGT GCATGT ATGA
1 ATGT ATGT ATGT ATGT --ATGT ATGT ATGT ATGT ATGT --ATGT ATGT
* * * * *
203613 ATGC ATGAT ATGC ATGT ATGA ATGT ATGC GTGT ATGT ATGT ATGT ATGT
1 ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
203662 ATGT ATAT ATGT ATGA ATGT ATGC GTGA ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
203710 ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
203758 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
203806 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
203854 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
** * * * * *
203902 ATGT ATGT ATGT ATAC ATGC ATGC ATGT ATGT ATGC ATGC A-GC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
203949 ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATG- -TGT ATG- ATGT CTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
203993 ATG- ATG- ATGT ATGT ATGGT ATGT ATGT ATG- ATGT ATGT ATGT ATTGT
1 ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT
* *
204040 CT-T ATGT ATGT ATGT ATGT ATGT ATGT AGGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
204086 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
204134 ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
204181 ATAT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
204229 ATGGAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGG
1 AT-G-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
204277 ATGT ATGC ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
204322 ATGT ATGT ATGT ATGT ATGT AGGT ATGT ATGT ATGT ATGT AGGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
204370 ATGT ATGT ATGT ATGT ATGT ATGT ATAGAT ATGT ATGT ATGT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT-G-T ATGT ATGT ATGT ATGT ATGT
* * *
204420 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT AGGT ATGT GTAGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT
204469 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
204517 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT AATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT
*
204563 ATGT ATGT A--T ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
204609 A-GT ATGT ATGT ATGT ATGT ATG- A-GT AT-T ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
204652 ATGT ATGT ATGT ATTGT CTGT ATGT ATGT A-GT ATGT -TGGT ATGT ATGT
1 ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT
204700 ATGT ATGT AT-T GATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
204747 ATGT ATGT A--T ATTT ATGT A--T ATGT ATGC ATGC ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
204791 ATGT ATGT ATGC ATGC ATGC ATGC ATGT A-GT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
204838 ATGT ATGT ATGT ATGT ATGT ATGT AGGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
204885 GTAT GTGT ATGT ATAT ATGT ATGT A--T ATGT A-GT -TGT ATGT ATTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT
* *
204930 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
204978 ATG- ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
** * * *
205025 ATAC ATGC ATGG ATGT ATGT ATGT ATGG ATGT ATG- ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205071 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * *
205117 A-GA ATGC ATGAT ATGC ATGT ATGA ATGT ATGC GTGT ATGT TTGT A-AT
1 ATGT ATGT ATG-T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205164 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -TGT ATG- ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205210 ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
205255 ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
205303 ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATAAT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT
* * *
205351 ATGT ATGT ATTAT ATGT ATGT ATGC ATGT ATGC ATGT AATGT ATGT ATG-
1 ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT
205400 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
205447 A-GT ATAT ATGCA ATGT GATGT ATGT ATGT ATGT -TGT ATGT ATGT TTGT
1 ATGT ATGT ATG-T ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205495 ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
205542 ATGT -GGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
205588 ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
205634 ATGT ATGGT ATGT ATGT ATGT ATGT ATGT ATATT ATGT ATGT ATGT ATGT
1 ATGT AT-GT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT
205684 ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT A-GT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
205729 ATGT A-GT ATGT ATGT ATGT ATGT A--T ATGC ATGT ATGT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
205774 ATGT ATGT ATGT GTGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
205822 ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT GTGT ATGT A--T ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
205868 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
205915 ATGT ATGT ATGT ATGT TTGT ATG- ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
205961 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AGGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
206009 AGGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
206056 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
206104 ATGT A-GT ATGT ATGT ATGT ATGT ATGT A-GT A-GT ATGT ATGT ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
206149 ATGT ATGT ATGT ATGT ATTT ATGT GTTGT ATGT A-GT ATAT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT ATGT ATGT
206197 ATGT ATTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT A-TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
206246 ATGT ATGT ATTT ATGT ATGC ATGT ATGC ATGT ATGT ATGT TTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
206294 ATGC ATGC ATGC ATGC ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
206341 A--T ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT AGGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
206386 ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATAT ATGT TTGT ATGTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-T
* * *
206435 ATGT ATGT ATGC ATGC ATGAT ATGC ATGT AT
1 ATGT ATGT ATGT ATGT ATG-T ATGT ATGT AT
206466 ATTTTATTCA
Statistics
Matches: 3644, Mismatches: 460, Indels: 296
0.83 0.10 0.07
Matches are distributed among these distances:
2 35 0.01
3 163 0.04
4 3299 0.91
5 117 0.03
6 30 0.01
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:212734 original size:80 final size:80
Alignment explanation
Indices: 212557--212809 Score: 389
Period size: 80 Copynumber: 3.1 Consensus size: 80
212547 TTGGGGCCTA
** * *
212557 TGGGCCTACCCAAGAATATCCTTAGATCCGTAGGGTTACCTTAAGCACATAACAAAAAGGAAACC
1 TGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAAC--AAAGGAAACC
212622 AACCTAAGGATATACCT
64 AACCTAAGGATATACCT
* *
212639 TGGGTCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAGCAAAGGAAACCAA
1 TGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAACAAAGGAAACCAA
*
212704 CCTAAGGATATACCC
66 CCTAAGGATATACCT
* *
212719 TGGGCCTATCCAAGGGTATCCGTAGATCCGTAGGGTTACCTTATGCACACAACAAAGGAAACCAA
1 TGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAACAAAGGAAACCAA
*
212784 CCTAAGGATATGCCT
66 CCTAAGGATATACCT
212799 TGGGCCCTACC
1 TGGG-CCTACC
212810 TAATATACCC
Statistics
Matches: 156, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 104 0.67
81 5 0.03
82 47 0.30
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (80 bp):
TGGGCCTACCCAAGGGTATCCTTAGATCCGTAGGGTTACCTTATGCACACAACAAAGGAAACCAA
CCTAAGGATATACCT
Found at i:216746 original size:23 final size:24
Alignment explanation
Indices: 216715--216760 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
216705 TGATGATCTT
*
216715 AAAACTTTTTTGACAAA-GTGGAAC
1 AAAAC-TTTTTGAAAAAGGTGGAAC
216739 AAAA-TTTTTGAAAAAGGTGGAA
1 AAAACTTTTTGAAAAAGGTGGAA
216761 ATTCAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 6 0.30
24 4 0.20
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAACTTTTTGAAAAAGGTGGAAC
Found at i:220302 original size:20 final size:20
Alignment explanation
Indices: 220277--220314 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
220267 CCCCCTTTGA
*
220277 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
220297 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
220315 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Found at i:222485 original size:16 final size:16
Alignment explanation
Indices: 222464--222512 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
222454 AGTGGTTTTA
222464 AGTGTGTTTTAAAATG
1 AGTGTGTTTTAAAATG
222480 AGTGTGTTTTAAAATG
1 AGTGTGTTTTAAAATG
222496 AGTGTGTTTTAAAATG
1 AGTGTGTTTTAAAATG
222512 A
1 A
222513 TAAATGGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (16 bp):
AGTGTGTTTTAAAATG
Found at i:224871 original size:13 final size:13
Alignment explanation
Indices: 224853--224878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
224843 AAACATTTTA
224853 TCATCTTCTTCTT
1 TCATCTTCTTCTT
224866 TCATCTTCTTCTT
1 TCATCTTCTTCTT
224879 CCCGTGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.62
Consensus pattern (13 bp):
TCATCTTCTTCTT
Found at i:226613 original size:2 final size:2
Alignment explanation
Indices: 226606--226645 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
226596 ATCAAATACA
226606 AT AT AT AT AT 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 AT AT AT AT AT
226646 GATGTATATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:227655 original size:22 final size:21
Alignment explanation
Indices: 227601--227660 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
227591 GATTTCTAGG
*
227601 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
227622 CAA-GGGAATCGATACCCATT
1 CAAGGGGAATCGATACCCATT
*
227642 CAATGGGGAGTCGATACCC
1 CAA-GGGGAATCGATACCC
227661 CTCAAGCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 19 0.54
21 3 0.09
22 13 0.37
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Done.