Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 58 of 433
Found at i:16551054 original size:51 final size:51
Alignment explanation
Indices: 16550991--16551098 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
16550981 CTCAAACTTA
*
16550991 CTTCATACTTCATCCGGAATTATTACATTGTTGCTATACCTTCAACAAGAG
1 CTTCATACTTCATCCGGAATAATTACATTGTTGCTATACCTTCAACAAGAG
* * * * * *
16551042 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAATAAGAG
1 CTTCATACTTCATCCGGAATAATTACATTGTTGCTATACCTTCAACAAGAG
16551093 CTTCAT
1 CTTCAT
16551099 GTTTTATCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (51 bp):
CTTCATACTTCATCCGGAATAATTACATTGTTGCTATACCTTCAACAAGAG
Found at i:16553440 original size:46 final size:46
Alignment explanation
Indices: 16553364--16553549 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
16553354 TTGCACATAG
* * *
16553364 TCACATATCACACACCGAAGCCATAGCCCAGCCATGGTCTTACATGGA
1 TCACATAT--CACACTGATGCCATAGCCCAGCCATGGTCTTACACGGA
* ** *
16553412 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTTACACGG-A
* * * *
16553459 GCACGTAATCACATATCTCTGATGCCATAGCCCAGCTATGGTCTTACACAGA
1 TCACAT-ATCAC--A---CTGATGCCATAGCCCAGCCATGGTCTTACACGGA
* * *
16553511 TCACATATCACACTGATGCCATGGTCCAACCATGGTCTT
1 TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTT
16553550 TTCCGTCAAT
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
46 53 0.47
47 5 0.04
48 13 0.12
49 1 0.01
50 1 0.01
51 5 0.04
52 5 0.04
53 29 0.26
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTTACACGGA
Found at i:16554660 original size:21 final size:20
Alignment explanation
Indices: 16554614--16554697 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
16554604 CCTGATCAGT
*
16554614 ATACGACACATAAGTGCCTA
1 ATACGACACACAAGTGCCTA
* * *
16554634 AAACGACACACGAGATGCCTG
1 ATACGACACACAAG-TGCCTA
16554655 ATACGACACACAATGTGCCTGAA
1 ATACGACACACAA-GTGCCT--A
* *
16554678 ATATGACACATAAAGTGCCT
1 ATACGACACA-CAAGTGCCT
16554698 GATCAGTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
20 11 0.22
21 21 0.42
22 1 0.02
23 15 0.30
24 2 0.04
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
ATACGACACACAAGTGCCTA
Found at i:16554986 original size:29 final size:28
Alignment explanation
Indices: 16554904--16554987 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
16554894 AACATACCAG
* * * *
16554904 TATAATCTTCCAAAACGCACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
16554932 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
16554960 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
16554988 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:16556564 original size:51 final size:51
Alignment explanation
Indices: 16556488--16556607 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
16556478 CTCAAACTTA
* *
16556488 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * *
16556539 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* *
16556590 CTTCATGTTTTATCCGGA
1 CTTCATATTTCATCCGGA
16556608 TAACTTAGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:16558460 original size:45 final size:45
Alignment explanation
Indices: 16558403--16558494 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
16558393 CCAACTTACG
16558403 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
1 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
16558448 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
1 AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
16558493 AA
1 AA
16558495 CTTTAAGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (45 bp):
AATTTTTGAGCTAGTTTAGCATTGGTGTTGTGGATGAAAACTTAT
Found at i:16559194 original size:11 final size:11
Alignment explanation
Indices: 16559180--16559282 Score: 57
Period size: 11 Copynumber: 8.5 Consensus size: 11
16559170 TTTATTATTT
16559180 TAATATTTTAA
1 TAATATTTTAA
16559191 TAATATTTTAA
1 TAATATTTTAA
16559202 TAATAAATTTTAAAAA
1 TAAT--ATTTT---AA
16559218 TAATAATTTTAAA
1 TAAT-ATTTT-AA
16559231 TAATATTATTCACA
1 TAATATT-TT-A-A
* *
16559245 TATTA-TTGAA
1 TAATATTTTAA
*
16559255 -AATATTCAATAA
1 TAATATT--TTAA
16559267 TAATATTTTAA
1 TAATATTTTAA
16559278 TAATA
1 TAATA
16559283 AATATTTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 24 0.32
12 6 0.08
13 22 0.30
14 5 0.07
15 6 0.08
16 6 0.08
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (11 bp):
TAATATTTTAA
Found at i:16559207 original size:14 final size:14
Alignment explanation
Indices: 16559188--16559289 Score: 66
Period size: 13 Copynumber: 6.8 Consensus size: 14
16559178 TTTAATATTT
16559188 TAATAATATTTTAA
1 TAATAATATTTTAA
16559202 TAATAA-ATTTTAA
1 TAATAATATTTTAA
*
16559215 AAATAATAATTTT-A
1 TAATAAT-ATTTTAA
16559229 -AATAATATTATTCACA
1 TAATAATATT-TT-A-A
* *
16559245 TATTATTGAAAATATTCAA
1 TA--A-T-AATAT-TTTAA
16559264 TAATAATATTTTAA
1 TAATAATATTTTAA
16559278 TAATAAATATTT
1 TAAT-AATATTT
16559290 ATTACAATTA
Statistics
Matches: 70, Mismatches: 5, Indels: 25
0.70 0.05 0.25
Matches are distributed among these distances:
12 3 0.04
13 20 0.29
14 15 0.21
15 16 0.23
16 2 0.03
17 2 0.03
19 4 0.06
20 2 0.03
21 5 0.07
22 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (14 bp):
TAATAATATTTTAA
Found at i:16559288 original size:15 final size:15
Alignment explanation
Indices: 16559262--16559324 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
16559252 GAAAATATTC
16559262 AATAAT-AATATTTT
1 AATAATAAATATTTT
16559276 AATAATAAATATTTATT
1 AATAATAAATA-TT-TT
* *
16559293 ACAATTATAAATATATT
1 --AATAATAAATATTTT
*
16559310 AATAATAAATGTTTT
1 AATAATAAATATTTT
16559325 GTAGTATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 6 0.15
15 16 0.41
16 2 0.05
17 4 0.10
18 1 0.03
19 10 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATAAATATTTT
Found at i:16559315 original size:48 final size:47
Alignment explanation
Indices: 16559204--16559317 Score: 114
Period size: 48 Copynumber: 2.4 Consensus size: 47
16559194 TATTTTAATA
*
16559204 ATAAAT-T-TTAAAAATAATAATTTTAAATAATATTATTCACATATT
1 ATAAATATATTAATAATAATAATTTTAAATAATATTATTCACATATT
16559249 ATTGAAA-ATATTCAATAATAAT-ATTTTAATAATAAATATTTATT-ACA-ATT
1 A-T-AAATATATT-AATAATAATAATTTT-A-AAT-AATA-TTATTCACATATT
16559299 ATAAATATATTAATAATAA
1 ATAAATATATTAATAATAA
16559318 ATGTTTTGTA
Statistics
Matches: 58, Mismatches: 1, Indels: 17
0.76 0.01 0.22
Matches are distributed among these distances:
45 1 0.02
46 1 0.02
47 4 0.07
48 18 0.31
49 15 0.26
50 7 0.12
51 7 0.12
52 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (47 bp):
ATAAATATATTAATAATAATAATTTTAAATAATATTATTCACATATT
Found at i:16560115 original size:13 final size:13
Alignment explanation
Indices: 16560090--16560128 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
16560080 CAGACGTATC
16560090 TTCTTTTTCTTTTT
1 TTCTTTTT-TTTTT
16560104 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
16560117 TTCTCTTTTTTT
1 TTCT-TTTTTTT
16560129 GGCAAGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:16560117 original size:15 final size:16
Alignment explanation
Indices: 16560088--16560128 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
16560078 CCCAGACGTA
*
16560088 TCTTCTTTTTCTTTTTT
1 TCTT-TTTTTCTTTTTC
16560105 TCTTTTTTT-TTTTTC
1 TCTTTTTTTCTTTTTC
16560120 TCTTTTTTT
1 TCTTTTTTT
16560129 GGCAAGAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 5 0.22
17 4 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TCTTTTTTTCTTTTTC
Found at i:16560125 original size:9 final size:8
Alignment explanation
Indices: 16560088--16560128 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
16560078 CCCAGACGTA
16560088 TCTTCTTTT
1 TCTT-TTTT
16560097 TCTTTTTT
1 TCTTTTTT
16560105 TCTTTTTT
1 TCTTTTTT
*
16560113 T-TTTTTC
1 TCTTTTTT
16560120 TCTTTTTT
1 TCTTTTTT
16560128 T
1 T
16560129 GGCAAGAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.21
8 19 0.66
9 4 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TCTTTTTT
Found at i:16560394 original size:8 final size:8
Alignment explanation
Indices: 16560381--16560475 Score: 50
Period size: 8 Copynumber: 11.2 Consensus size: 8
16560371 CATTAAAGCT
16560381 ATATAAAA
1 ATATAAAA
16560389 ATATAAAA
1 ATATAAAA
* * *
16560397 TTATTAAT
1 ATATAAAA
16560405 AT-TAAAA
1 ATATAAAA
16560412 ATATAAAA
1 ATATAAAA
16560420 A-ATTGAAAA
1 ATA-T-AAAA
*
16560429 TGGATATAAAC
1 ---ATATAAAA
* *
16560440 TTAAAAAA
1 ATATAAAA
*
16560448 ATAAAAAA
1 ATATAAAA
16560456 TATTATAAAA
1 -A-TATAAAA
16560466 ATATAAAA
1 ATATAAAA
16560474 AT
1 AT
16560476 TCTCATAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
7 6 0.09
8 42 0.64
9 6 0.09
10 6 0.09
11 3 0.05
12 2 0.03
13 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (8 bp):
ATATAAAA
Found at i:16560483 original size:20 final size:20
Alignment explanation
Indices: 16560441--16560484 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
16560431 GATATAAACT
*
16560441 TAAAAAAATAAAAAATATTA
1 TAAAAAAATAAAAAATATCA
* * *
16560461 TAAAAATATAAAAATTCTCA
1 TAAAAAAATAAAAAATATCA
16560481 TAAA
1 TAAA
16560485 TTATATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAAAAATAAAAAATATCA
Found at i:16560596 original size:9 final size:9
Alignment explanation
Indices: 16560546--16560609 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
16560536 CTATAATTTC
16560546 ATAAAAATT
1 ATAAAAATT
16560555 ATAAGAAA-T
1 ATAA-AAATT
*
16560564 ATTAAAATT
1 ATAAAAATT
*
16560573 GATATAAACTT
1 -ATA-AAAATT
16560584 ATAAAAATT
1 ATAAAAATT
*
16560593 ATAAAAAATC
1 AT-AAAAATT
16560603 ATAAAAA
1 ATAAAAA
16560610 CTTAAAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 3 0.07
9 21 0.47
10 16 0.36
11 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:16560599 original size:29 final size:29
Alignment explanation
Indices: 16560544--16560613 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
16560534 TTCTATAATT
* *
16560544 TCATAAAAA-TTATAAGAAATATTAAAAT
1 TCATAAAAACTTATAAGAAATATAAAAAA
* *
16560572 TGATATAAACTTATAA-AAATTATAAAAAA
1 TCATAAAAACTTATAAGAAA-TATAAAAAA
16560601 TCATAAAAACTTA
1 TCATAAAAACTTA
16560614 AAATAGACCA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (29 bp):
TCATAAAAACTTATAAGAAATATAAAAAA
Found at i:16561167 original size:86 final size:84
Alignment explanation
Indices: 16560962--16561192 Score: 347
Period size: 84 Copynumber: 2.7 Consensus size: 84
16560952 TTAAGCACTT
* **
16560962 CCTTTTTTTTTCACTCAATTGAGCACTTGAGCTTTCAAAATGCATAAAAAAACCCTCAAACTTTA
1 CCTTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCATAAAAAAACCCTCAAACTTTA
16561027 AAGAAAGAACAATTAAAAC
66 AAGAAAGAACAATTAAAAC
*
16561046 CCTTTTTTTTTCACTCAATTGGGTGCATGAGCTTTCAAAATGCATAAAAAAAACCCTCAAACTTT
1 CCTTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCAT-AAAAAAACCCTCAAACTTT
*
16561111 AAA-AAAGAACAATTAAACC
65 AAAGAAAGAACAATTAAAAC
* * *
16561130 CCTGCTTTTTTTTCACTCAATTGGGTGCTTGAACTTTCAAAATGCATCAAAAAGATCCTCAAA
1 CCT--TTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCAT-AAAAAAACCCTCAAA
16561193 ATTTTTCAAA
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
84 59 0.44
85 22 0.16
86 53 0.40
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (84 bp):
CCTTTTTTTTTCACTCAATTGGGTGCTTGAGCTTTCAAAATGCATAAAAAAACCCTCAAACTTTA
AAGAAAGAACAATTAAAAC
Found at i:16561411 original size:12 final size:12
Alignment explanation
Indices: 16561385--16561429 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
16561375 TGAACAAGCT
**
16561385 CTCGTTTATAAA
1 CTCGTTTATTGA
*
16561397 CTCTTTTATTGA
1 CTCGTTTATTGA
16561409 CTCGTTTA-TGA
1 CTCGTTTATTGA
16561420 CTCGTTTATT
1 CTCGTTTATT
16561430 TATTAATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:16561557 original size:22 final size:23
Alignment explanation
Indices: 16561515--16561558 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
16561505 TCATTAACAT
*
16561515 TGTTCATGAATATCTTCAATTATA
1 TGTTCATGAACA-CTTCAATTATA
16561539 TGTTCATGAACA-TTCAATTA
1 TGTTCATGAACACTTCAATTA
16561559 AGTAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACACTTCAATTATA
Found at i:16561799 original size:18 final size:18
Alignment explanation
Indices: 16561754--16561801 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
16561744 GCCCATGCTC
16561754 TTATTAAATATTAGAAAAA
1 TTATTAAAT-TTAGAAAAA
* **
16561773 ATAAAAAATTTAGAAAAA
1 TTATTAAATTTAGAAAAA
16561791 TTATTAAATTT
1 TTATTAAATTT
16561802 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
TTATTAAATTTAGAAAAA
Found at i:16561810 original size:37 final size:37
Alignment explanation
Indices: 16561754--16561842 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
16561744 GCCCATGCTC
*
16561754 TTATTAAATATTAGAAAAAATA-AAAAATTTAGAAAAA
1 TTATTAAATATTAGAAAAAATATAAAAAATTA-AAAAA
* *
16561791 TTATTAAATTTTA-ATAAAAATATAAAAAATTAAAAAT
1 TTATTAAATATTAGA-AAAAATATAAAAAATTAAAAAA
*
16561828 TTATTAAAAATTAGA
1 TTATTAAATATTAGA
16561843 TTTTTTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 1 0.02
37 34 0.77
38 9 0.20
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (37 bp):
TTATTAAATATTAGAAAAAATATAAAAAATTAAAAAA
Found at i:16561823 original size:19 final size:19
Alignment explanation
Indices: 16561766--16561823 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 19
16561756 ATTAAATATT
*
16561766 AGAAAAA-ATAAAAAATTT
1 AGAAAAATATAAAAAATTA
* **
16561784 AGAAAAATTATTAAATTTTA
1 AGAAAAA-TATAAAAAATTA
*
16561804 ATAAAAATATAAAAAATTA
1 AGAAAAATATAAAAAATTA
16561823 A
1 A
16561824 AAATTTATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 7 0.23
19 10 0.33
20 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AGAAAAATATAAAAAATTA
Found at i:16563030 original size:41 final size:39
Alignment explanation
Indices: 16562908--16563043 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 39
16562898 ACCAATTTGG
* * * * *
16562908 CACCTAGTGCTTCATCGGATAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGT-ATAAATTGA
* * ** *
16562948 CACCCAGTGTCTCATTGGCTAAACCGAA--ATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTATAAATTGA
16562985 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGTA-TAAATTGA
*
16563026 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
16563044 CTCGAAGTCG
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 23 0.29
38 8 0.10
40 22 0.28
41 25 0.32
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTATAAATTGA
Found at i:16563211 original size:15 final size:17
Alignment explanation
Indices: 16563183--16563222 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
16563173 TAATCAATAT
*
16563183 ATTCAATATATATATCA
1 ATTCAATATATATATAA
16563200 ATTCAAT-T-TATATAA
1 ATTCAATATATATATAA
16563215 ATTCAATA
1 ATTCAATA
16563223 AATTCATCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTCAATATATATATAA
Found at i:16563845 original size:196 final size:195
Alignment explanation
Indices: 16563507--16564088 Score: 963
Period size: 194 Copynumber: 3.0 Consensus size: 195
16563497 CAATATTTGG
*
16563507 CTAATTT-TCAATTTAGT-CTCTAAACCGAGACTAACTTTTATTCTTCATATTTAATTCTTTATT
1 CTAATTTCT-AATTTAGTCCT-TAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATT
* * **
16563570 TTCATGCAAATTCCACTTTAGACTAAATTCAACTCTTTATTTTCACATAAATTCCTAAATTTCAA
64 TTCATGCAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAA
**
16563635 AATTTTCACAATTTAGTCGTTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTT
129 AATTTTCACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTT
16563700 TAC
194 T-C
*
16563703 CTAATTTCTAATTTAGTCCTTAAACCGAGATTAACTTTTATTCTTCACATTTAATTCTTTATTTT
1 CTAATTTCTAATTTAGTCCTTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTT
16563768 CATGCAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAA
66 CATGCAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAA
* *
16563833 TTTTCTCAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAAT-CATTTTTTC
131 TTTTCACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTTTC
* *
16563897 CTAATTTCTAATTTAGTCCCTAAACCGAGACTAACTTTTATTCTTCACATTCAATTCTTTATTTT
1 CTAATTTCTAATTTAGTCCTTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTT
* *
16563962 CATGCAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATCCCTAAATTTTAAAA
66 CATGCAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAA
* * *
16564027 TTTTCACAATTTAGTCCCTATTACTTAAAATTTACAATTTATTCTATAATTCAATCCTTTTT
131 TTTTCACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTT
16564089 CATTTCAGAC
Statistics
Matches: 363, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
194 177 0.49
195 12 0.03
196 171 0.47
197 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (195 bp):
CTAATTTCTAATTTAGTCCTTAAACCGAGACTAACTTTTATTCTTCACATTTAATTCTTTATTTT
CATGCAAATTCCACTTTAGACGAAATCCAACTCCCTATTTTCACATAAATTCCTAAATTTCAAAA
TTTTCACAATTTAGTCCCTATTACTCAAAATTTACAATTTATTTTACAATTCAATCCTTTTTTTC
Found at i:16565285 original size:10 final size:10
Alignment explanation
Indices: 16565270--16565352 Score: 68
Period size: 10 Copynumber: 8.6 Consensus size: 10
16565260 ATTTATAAAA
16565270 TTTTTATAAT
1 TTTTTATAAT
16565280 TTTTTAT-A-
1 TTTTTATAAT
*
16565288 TTTCTAT-AT
1 TTTTTATAAT
16565297 ATTTTT-TAAT
1 -TTTTTATAAT
*
16565307 TTTTTA-ATT
1 TTTTTATAAT
*
16565316 TTTTTATAAA
1 TTTTTATAAT
* *
16565326 ATTTTACAAT
1 TTTTTATAAT
16565336 TTTTTATATAT
1 TTTTTATA-AT
16565347 TTTTTA
1 TTTTTA
16565353 CGATTTTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
8 7 0.12
9 15 0.26
10 27 0.47
11 8 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:16565286 original size:29 final size:27
Alignment explanation
Indices: 16565260--16565344 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
16565250 GTTCTTATGA
16565260 ATTTATAAAATTTTTATAATTTTTTAT
1 ATTTATAAAATTTTTATAATTTTTTAT
* *
16565287 ATTTCTATATATTTTT-TAATTTTTTAATTT
1 ATTTATA-AAATTTTTATAATTTTTT-A--T
* *
16565317 TTTTATAAAA-TTTTACAATTTTTTAT
1 ATTTATAAAATTTTTATAATTTTTTAT
16565343 AT
1 AT
16565345 ATTTTTTACG
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
26 2 0.04
27 15 0.33
28 13 0.28
29 10 0.22
30 6 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTATAAAATTTTTATAATTTTTTAT
Found at i:16565310 original size:28 final size:29
Alignment explanation
Indices: 16565263--16565348 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
16565253 CTTATGAATT
16565263 TATAAAATTTTTATAA-TTTTTTATATTTC
1 TATAAAATTTTT-TAATTTTTTTATATTTC
* * * *
16565292 TAT-ATATTTTTTAATTTTTTAATTTTTT
1 TATAAAATTTTTTAATTTTTTTATATTTC
**
16565320 TATAAAATTTTACAATTTTTTATATATTT
1 TATAAAATTTTTTAATTTTTT-TATATTT
16565349 TTTACGATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
27 3 0.07
28 20 0.44
29 17 0.38
30 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TATAAAATTTTTTAATTTTTTTATATTTC
Found at i:16565317 original size:7 final size:8
Alignment explanation
Indices: 16565268--16565319 Score: 59
Period size: 8 Copynumber: 6.0 Consensus size: 8
16565258 GAATTTATAA
16565268 AATTTTTAT
1 AATTTTT-T
16565277 AATTTTTT
1 AATTTTTT
*
16565285 ATATTTCTAT
1 A-ATTT-TTT
16565295 ATATTTTTT
1 A-ATTTTTT
16565304 AATTTTTT
1 AATTTTTT
16565312 AATTTTTT
1 AATTTTTT
16565320 TATAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
8 17 0.44
9 14 0.36
10 8 0.21
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
AATTTTTT
Found at i:16565353 original size:21 final size:20
Alignment explanation
Indices: 16565298--16565360 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 20
16565288 TTTCTATATA
*
16565298 TTTTT-TAATTTTTTA-ATT
1 TTTTTATAATTTTTTACAAT
**
16565316 TTTTTATAAAATTTTACAAT
1 TTTTTATAATTTTTTACAAT
*
16565336 TTTTTATATATTTTTTACGAT
1 TTTTTATA-ATTTTTTACAAT
16565357 TTTT
1 TTTT
16565361 ATTTTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 5 0.14
19 8 0.22
20 10 0.28
21 13 0.36
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTATAATTTTTTACAAT
Found at i:16565359 original size:29 final size:29
Alignment explanation
Indices: 16565261--16565350 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
16565251 TTCTTATGAA
*
16565261 TTTATAAAATTTTTATAATTTTTT-ATATT
1 TTTATAAAA-TTTTACAATTTTTTAATATT
* * ** *
16565290 TCTAT-ATATTTTTTAATTTTTTAATTTT
1 TTTATAAAATTTTACAATTTTTTAATATT
16565318 TTTATAAAATTTTACAATTTTTTATATATT
1 TTTATAAAATTTTACAATTTTTTA-ATATT
16565348 TTT
1 TTT
16565351 TACGATTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 13 0.27
28 10 0.20
29 19 0.39
30 7 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTATAAAATTTTACAATTTTTTAATATT
Found at i:16565618 original size:91 final size:92
Alignment explanation
Indices: 16565470--16565648 Score: 270
Period size: 91 Copynumber: 2.0 Consensus size: 92
16565460 TAATAAAAGC
* * * **
16565470 AGGGGTTTAATTGCTTTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAGTTCAAG
1 AGGGGATTAATTGCTTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
*
16565535 TACCCAATTGAGTGCAAAAAAAAGAGT
66 TACCCAAATGAGTGCAAAAAAAAGAGT
* *
16565562 AGGGGATTAATTGC-TTTTTTTGAAAAGGTTTGAGGGCCTTTATGATACATTTTGAAAGTTCAAG
1 AGGGGATTAATTGCTTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
*
16565626 TACTCAAATGAGTGCAAAAAAAA
66 TACCCAAATGAGTGCAAAAAAAA
16565649 AAGGTAGTGA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 65 0.83
92 13 0.17
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (92 bp):
AGGGGATTAATTGCTTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGTTCAAG
TACCCAAATGAGTGCAAAAAAAAGAGT
Found at i:16565672 original size:92 final size:91
Alignment explanation
Indices: 16565464--16565673 Score: 269
Period size: 91 Copynumber: 2.3 Consensus size: 91
16565454 AAGTTTTAAT
* * * * **
16565464 AAAAGCAGGGGTTTAATTGCTTTTTTTTGAAAAAGTTTGAGAGTCTTTTTGATGTATTTTGAAAG
1 AAAAGTAGGGGATTAATTGC-TTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAG
*
16565529 TTCAAGTACCCAATTGAGTGCAAAAAA
65 TTCAAGTACCCAAATGAGTGCAAAAAA
* * *
16565556 AAGAGTAGGGGATTAATTGCTTTTTTTGAAAAGGTTTGAGGGCCTTTATGATACATTTTGAAAGT
1 AAAAGTAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGT
*
16565621 TCAAGTACTCAAATGAGTGCAAAAAA
66 TCAAGTACCCAAATGAGTGCAAAAAA
* *
16565647 AAAAGGTA-GTGACTTAATTACTTTTTT
1 AAAA-GTAGGGGA-TTAATTGCTTTTTT
16565674 AAAGTTTAAG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
91 69 0.68
92 33 0.32
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (91 bp):
AAAAGTAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAGAGCCTTTATGATACATTTTGAAAGT
TCAAGTACCCAAATGAGTGCAAAAAA
Found at i:16565969 original size:12 final size:12
Alignment explanation
Indices: 16565952--16565990 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
16565942 GGCCAGCCCC
16565952 ATATTAATTTTT
1 ATATTAATTTTT
*
16565964 ATATTATTTTTT
1 ATATTAATTTTT
*
16565976 ATA-TAATTTTA
1 ATATTAATTTTT
16565987 ATAT
1 ATAT
16565991 ATATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:16566151 original size:30 final size:30
Alignment explanation
Indices: 16566115--16566177 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
16566105 ACTTAACAAG
16566115 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
*
16566145 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
16566175 CAA
1 CAA
16566178 TAAATAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAATAAAATTAA
Found at i:16566649 original size:28 final size:29
Alignment explanation
Indices: 16566609--16566690 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
16566599 TATGTTTTTA
*
16566609 AATTTAAAT-ATTTTAAATAATTTTTATT
1 AATTTTAATAATTTTAAATAATTTTTATT
*
16566637 AATTTT-ATAATTTT-AATAAGTTTATATT
1 AATTTTAATAATTTTAAATAA-TTTTTATT
* *
16566665 AATTTTAATATTTTTAATAAAATTTT
1 AATTTTAATAATTTTAA-ATAATTTT
16566691 AATAATTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 7 0.16
28 23 0.52
29 7 0.16
30 4 0.09
31 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
AATTTTAATAATTTTAAATAATTTTTATT
Found at i:16566660 original size:17 final size:18
Alignment explanation
Indices: 16566625--16566662 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16566615 AATATTTTAA
* *
16566625 ATAATTTTTATTAATTTT
1 ATAATTTTTAATAAGTTT
16566643 ATAA-TTTTAATAAGTTT
1 ATAATTTTTAATAAGTTT
16566660 ATA
1 ATA
16566663 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATAATTTTTAATAAGTTT
Found at i:16566680 original size:20 final size:20
Alignment explanation
Indices: 16566642--16566695 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
16566632 TTATTAATTT
16566642 TATAATTTTAATAAGTTT-A
1 TATAATTTTAATAAGTTTAA
**
16566661 TATTAATTTTAATATTTTTAA
1 TA-TAATTTTAATAAGTTTAA
*
16566682 TAAAATTTTAATAA
1 TATAATTTTAATAA
16566696 TTACTAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATAATTTTAATAAGTTTAA
Found at i:16566697 original size:9 final size:9
Alignment explanation
Indices: 16566516--16566697 Score: 77
Period size: 9 Copynumber: 19.2 Consensus size: 9
16566506 CTAGTTCAAT
*
16566516 TTTTTATAA
1 TTTTAATAA
*
16566525 TTTTTATAA
1 TTTTAATAA
*
16566534 GTTTATATCAA
1 TTTTA-AT-AA
*
16566545 TTTTAATATTT
1 TTTTAATA--A
16566556 TTTTAAATAA
1 TTTT-AATAA
*
16566566 TTTT-TTACA
1 TTTTAATA-A
*
16566575 TTTT-ATTA
1 TTTTAATAA
*
16566583 TTTTAAAAAA
1 TTTT-AATAA
* *
16566593 TTCTAATATG
1 TTTTAATA-A
*
16566603 TTTTTA-AA
1 TTTTAATAA
*
16566611 TTTAAAT-A
1 TTTTAATAA
16566619 TTTTAAATAA
1 TTTT-AATAA
*
16566629 TTTTTATTAA
1 -TTTTAATAA
16566639 TTTT-ATAA
1 TTTTAATAA
16566647 TTTTAATAA
1 TTTTAATAA
*
16566656 GTTTATATTAA
1 -TTT-TAATAA
*
16566667 TTTTAATAT
1 TTTTAATAA
16566676 TTTTAATAAAA
1 TTTTAAT--AA
16566687 TTTTAATAA
1 TTTTAATAA
16566696 TT
1 TT
16566698 ACTAACATTA
Statistics
Matches: 130, Mismatches: 25, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
8 22 0.17
9 49 0.38
10 28 0.22
11 27 0.21
12 4 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTAATAA
Found at i:16567482 original size:29 final size:25
Alignment explanation
Indices: 16567414--16567481 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 25
16567404 ATTTGAATTT
*
16567414 TAAAATATGAAAAATAGGACTAAATT
1 TAAAATAT-AAAAATAGGACTAAATC
*
16567440 TAAAGAAATAAAAATAGAAAGACTAAATC
1 TAAA-ATATAAAAATAG---GACTAAATC
16567469 TAAAATATAAAAA
1 TAAAATATAAAAA
16567482 AATATAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 12 0.34
27 3 0.09
28 8 0.23
29 12 0.34
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (25 bp):
TAAAATATAAAAATAGGACTAAATC
Found at i:16572130 original size:293 final size:291
Alignment explanation
Indices: 16571591--16572180 Score: 1117
Period size: 293 Copynumber: 2.0 Consensus size: 291
16571581 ATAGATTGTT
*
16571591 AATAACGAAGGAAAGAGTCCTAATTGACATAAAATAGAATTTCTAACTTAGAGTTTATGAAGAAA
1 AATAACGAAGGAAAGAGTCCTAATTGACATAAAATAGAATTCCTAACTTAGAGTTTATGAAGAAA
16571656 CAAAAACCTAATATAATAGAGAAAATAAGTAAAACTAAAACTCTTAATAAAACCTGATATAATAA
66 CAAAAACCTAATATAATAGAGAAAATAAGTAAAACTAAAACTCTTAATAAAACCTGATATAATAA
*
16571721 ATAAAACTAAAATTCCTATTGCAATAAAAGCGTCTATATCATTACTTCCCTTCTCGGAGTTGAGC
131 ATAAAACTAAAATTCCTATTGCAATAAAAGCGTCCATATCATTACTTCCCTTCTCGGAGTTGAGC
16571786 TTGCCCTCAAGCTCAAATTCAGAATAAACTTCAGAACTTATCCAAAATCACTCATCATCATCTTG
196 TTGCCCTCAAGCTCAAATTCAGAATAAACTTCAGAACTTATCCAAAATCACTCATCATCATCTTG
16571851 CTTGCCTTCAACATATGATACTTCTATGCAA
261 CTTGCCTTCAACATATGATACTTCTATGCAA
16571882 AATAACGAAGGAAAGAGTCCTAATTGACATAAAATAGAATTCCTAACTTAGAGTTTATGAAGAAA
1 AATAACGAAGGAAAGAGTCCTAATTGACATAAAATAGAATTCCTAACTTAGAGTTTATGAAGAAA
*
16571947 CAAAAACCTAATATAATAGAGAAAATAAGTAAAATTAAAACTCTTAATAAAACCTGATATATAAT
66 CAAAAACCTAATATAATAGAGAAAATAAGTAAAACTAAAACTCTTAATAAAACCTG--ATATAAT
16572012 AAATAAAACTAAAATTCCTATTGCAATAAAAGCGTCCATATCATTACTTCCCTTCTCGGAGTTGA
129 AAATAAAACTAAAATTCCTATTGCAATAAAAGCGTCCATATCATTACTTCCCTTCTCGGAGTTGA
*
16572077 GCTTGTCCTCAAGCTCAAATTCAGAATAAACTTCAGAACTTATCCAAAATCACTCATCATCATCT
194 GCTTGCCCTCAAGCTCAAATTCAGAATAAACTTCAGAACTTATCCAAAATCACTCATCATCATCT
*
16572142 TGCTTGCCTTCAACATATGATATTTCTATGCAA
259 TGCTTGCCTTCAACATATGATACTTCTATGCAA
16572175 AATAAC
1 AATAAC
16572181 TTTTTACATT
Statistics
Matches: 292, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
291 119 0.41
293 173 0.59
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.29
Consensus pattern (291 bp):
AATAACGAAGGAAAGAGTCCTAATTGACATAAAATAGAATTCCTAACTTAGAGTTTATGAAGAAA
CAAAAACCTAATATAATAGAGAAAATAAGTAAAACTAAAACTCTTAATAAAACCTGATATAATAA
ATAAAACTAAAATTCCTATTGCAATAAAAGCGTCCATATCATTACTTCCCTTCTCGGAGTTGAGC
TTGCCCTCAAGCTCAAATTCAGAATAAACTTCAGAACTTATCCAAAATCACTCATCATCATCTTG
CTTGCCTTCAACATATGATACTTCTATGCAA
Found at i:16578600 original size:39 final size:39
Alignment explanation
Indices: 16578538--16578681 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
16578528 CCGCACAAAG
* * *
16578538 GCCTTCGGGACTTAACCCGGATATCACGATTTGGACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
16578578 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
16578617 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
16578656 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
16578682 TCGAACATTC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 84 0.90
40 9 0.10
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:16578654 original size:78 final size:79
Alignment explanation
Indices: 16578529--16578680 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 79
16578519 TTATGGAACC
* *
16578529 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACGATTTGGACAATTGCCTTCGGGCTTAGCC
1 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
16578594 CGGATATCATAACT
66 CGGATATCATAACT
** * *
16578608 CGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
16578672 CGGATATCA
66 CGGATATCA
16578681 CTCGAACATT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 51 0.76
79 16 0.24
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAACT
Found at i:16581704 original size:59 final size:56
Alignment explanation
Indices: 16581524--16581704 Score: 191
Period size: 59 Copynumber: 3.1 Consensus size: 56
16581514 CATTTGACAA
* * * *
16581524 ATACCAAATTGAACAAAAAAAATAGGTACCAAATTAGGAAAAAGAGTCAAGTTTAG
1 ATACCAAATTGACCAAAAAAATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
* ** * * *
16581580 GTACCAAATCAAACCCTAAAAAAGATTAAGTACCAACTTAAGAAAAAGTGTCAAGTTTGG
1 ATACCAAAT-TGA-CC-AAAAAA-ATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
* *
16581640 GTACCAAATTGGACCAAGAAAAATTTAGGTATCAAATTAAGAAAAAGTGTCAAGTTTAG
1 ATACCAAATT-GACCAA-AAAAA-TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
16581699 ATACCA
1 ATACCA
16581705 TATATTATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
56 8 0.08
57 1 0.01
58 4 0.04
59 48 0.48
60 40 0.40
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (56 bp):
ATACCAAATTGACCAAAAAAATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAG
Found at i:16581874 original size:20 final size:19
Alignment explanation
Indices: 16581849--16581890 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
16581839 AATAAACATG
*
16581849 TTATTTTCAATTATTTTATT
1 TTATTTTCAATT-TTTAATT
*
16581869 TTATTTTTAATTTTTAATT
1 TTATTTTCAATTTTTAATT
16581888 TTA
1 TTA
16581891 ATTAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTCAATTTTTAATT
Found at i:16581915 original size:17 final size:16
Alignment explanation
Indices: 16581885--16581918 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16581875 TTAATTTTTA
16581885 ATTTTAATTAATAAAT
1 ATTTTAATTAATAAAT
*
16581901 ATTTTATTTATATAAAT
1 ATTTTAATTA-ATAAAT
16581918 A
1 A
16581919 AAATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAATTAATAAAT
Found at i:16582029 original size:85 final size:86
Alignment explanation
Indices: 16581916--16582074 Score: 227
Period size: 85 Copynumber: 1.8 Consensus size: 86
16581906 ATTTATATAA
16581916 ATAAAATAATAAATATGGAATTATATAATGAAAATAGATTTTATAT-TA-ATTCATTATGTTAAA
1 ATAAAATAATAAATATGGAATTATATAATGAAAAT--ATTTTATATATACATT-ATTATGTTAAA
*
16581979 A-ATATTTTTTTAATTAATAACTT
63 ATATATATTTTTAATTAATAACTT
* *
16582002 ATAAAA-AATAAATATGTAGTTATATAATGAAAATATTTTATATATATCATTATTATGTTAAAAT
1 ATAAAATAATAAATATGGAATTATATAATGAAAATATTTTATATATA-CATTATTATGTTAAAAT
16582066 ATATATTTT
65 ATATATTTT
16582075 AAAAGTATCA
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
83 9 0.14
84 2 0.03
85 38 0.58
86 17 0.26
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (86 bp):
ATAAAATAATAAATATGGAATTATATAATGAAAATATTTTATATATACATTATTATGTTAAAATA
TATATTTTTAATTAATAACTT
Found at i:16583592 original size:16 final size:17
Alignment explanation
Indices: 16583558--16583592 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16583548 ATGTATTGGG
*
16583558 TTGAGAAACTTATTTAA
1 TTGAGAAACTTAATTAA
16583575 TTGAGAAA-TTAATTAA
1 TTGAGAAACTTAATTAA
16583591 TT
1 TT
16583593 AATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAACTTAATTAA
Found at i:16585315 original size:44 final size:43
Alignment explanation
Indices: 16585244--16585354 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
16585234 TCAAGATGTG
*
16585244 GTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGTCATA
1 GTCTTACATGTAATCAAATATCGATGCCAAC-GTCCCAGACATA
* * *
16585287 GTCTTACATGTAAATCATAA-GTCGATGCCAACGTCCTAGACATG
1 GTCTTACATGT-AATCA-AATATCGATGCCAACGTCCCAGACATA
* * *
16585331 GTCTTACATGAAAACACATATCGA
1 GTCTTACATGTAATCAAATATCGA
16585355 ATCCTATGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
42 1 0.02
43 19 0.34
44 32 0.57
45 4 0.07
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (43 bp):
GTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGACATA
Found at i:16590269 original size:21 final size:20
Alignment explanation
Indices: 16590243--16590298 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
16590233 TACATGGCCT
16590243 GACCACATGGGCGTGTCCCTA
1 GACCACA-GGGCGTGTCCCTA
16590264 GACCACACGGGCGTGTCCCTA
1 GACCACA-GGGCGTGTCCCTA
*
16590285 GATCAC-GGGCGTGT
1 GACCACAGGGCGTGT
16590299 GAGCCCTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.24
21 25 0.76
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (20 bp):
GACCACAGGGCGTGTCCCTA
Found at i:16591772 original size:27 final size:27
Alignment explanation
Indices: 16591734--16591787 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16591724 TGTTTTATAC
16591734 TTAGGTGAGCATAGGAGAGTAAAAAGA
1 TTAGGTGAGCATAGGAGAGTAAAAAGA
16591761 TTAGGTGAGCATAGGAGAGTAAAAAGA
1 TTAGGTGAGCATAGGAGAGTAAAAAGA
16591788 GTGAGAAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.33, T:0.19
Consensus pattern (27 bp):
TTAGGTGAGCATAGGAGAGTAAAAAGA
Found at i:16601021 original size:8 final size:8
Alignment explanation
Indices: 16601008--16601039 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16600998 TTAGATCGGT
16601008 AAAAGCCG
1 AAAAGCCG
16601016 AAAAGCCG
1 AAAAGCCG
*
16601024 AAATGCCG
1 AAAAGCCG
16601032 AAAAGCCG
1 AAAAGCCG
16601040 GCTTTTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:16601793 original size:38 final size:39
Alignment explanation
Indices: 16601741--16601818 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
16601731 GCTACGGCCC
* *
16601741 AGATTGATACTGATATGGG-TTAGGCCCAG-TATACTCTG
1 AGATTAATACTGATATGGGCTAAGGCCCAGTTA-ACTCTG
*
16601779 AGATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTG
1 AGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTG
16601818 A
1 A
16601819 TTTCTGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 17 0.49
39 16 0.46
40 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (39 bp):
AGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTG
Found at i:16608581 original size:13 final size:13
Alignment explanation
Indices: 16608563--16608590 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16608553 CTGCCAAATG
16608563 GACACGGCCGTGT
1 GACACGGCCGTGT
16608576 GACACGGCCGTGT
1 GACACGGCCGTGT
16608589 GA
1 GA
16608591 GGAAGTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.39, T:0.14
Consensus pattern (13 bp):
GACACGGCCGTGT
Found at i:16616323 original size:120 final size:121
Alignment explanation
Indices: 16616182--16616400 Score: 377
Period size: 120 Copynumber: 1.8 Consensus size: 121
16616172 TAATCATGAT
* *
16616182 AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAGGTTAGACGCCCGTGTGAATAGGCCGT
1 AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAAGTCAGACGCCCGTGTGAATAGGCCGT
*
16616247 GTGCCTCACACGGCATTAAACACACCCATGTGTCGAGACTAAATCGAGCTCATACA
66 GTGCCTCACACAGCATTAAACACACCCATGTGTCGAGACTAAATCGAGCTCATACA
* *
16616303 AAATTTTTTG-AACTTAAATATTTTTCAAAGTTATAAAAGTCAGATGCCCGTGTGAATATGCCGT
1 AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAAGTCAGACGCCCGTGTGAATAGGCCGT
*
16616367 GTGCCTCACACAGCATTAGACACACCCATGTGTC
66 GTGCCTCACACAGCATTAAACACACCCATGTGTC
16616401 TAGGTAGTGG
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
120 82 0.89
121 10 0.11
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (121 bp):
AAATTTTTTGAAACTTAAATATTTTTCAAAGTTATAAAAGTCAGACGCCCGTGTGAATAGGCCGT
GTGCCTCACACAGCATTAAACACACCCATGTGTCGAGACTAAATCGAGCTCATACA
Found at i:16627881 original size:13 final size:13
Alignment explanation
Indices: 16627863--16627887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16627853 CACAAACGAT
16627863 AAAATTTTCACAC
1 AAAATTTTCACAC
16627876 AAAATTTTCACA
1 AAAATTTTCACA
16627888 AACATAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:16631122 original size:24 final size:24
Alignment explanation
Indices: 16631095--16631175 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
16631085 TCAGCTTGTA
16631095 AGAGCTTACTGTTTTCAGCTCATC
1 AGAGCTTACTGTTTTCAGCTCATC
* *
16631119 AGAGCTTACTGTTTTTAGCTCGTC
1 AGAGCTTACTGTTTTCAGCTCATC
16631143 AGAGCTTA-TCG-TTTCAGCTCAAT-
1 AGAGCTTACT-GTTTTCAGCTC-ATC
16631166 AGAGCTTACT
1 AGAGCTTACT
16631176 ATCCATCAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 17 0.34
24 33 0.66
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCATC
Found at i:16631370 original size:19 final size:19
Alignment explanation
Indices: 16631346--16631425 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
16631336 AAAAGCTATG
16631346 TGTTATACGGATGAATTAC
1 TGTTATACGGATGAATTAC
* *
16631365 TGTTATATGGATGAAGTAC
1 TGTTATACGGATGAATTAC
* * *
16631384 TGTTTAAATGGATGAGTTAC
1 TG-TTATACGGATGAATTAC
* * *
16631404 TATTAT-CGAATGATTTAC
1 TGTTATACGGATGAATTAC
16631422 TGTT
1 TGTT
16631426 TATATGATTG
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
18 12 0.24
19 22 0.45
20 15 0.31
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (19 bp):
TGTTATACGGATGAATTAC
Found at i:16631404 original size:20 final size:19
Alignment explanation
Indices: 16631354--16631404 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
16631344 TGTGTTATAC
* *
16631354 GGATGAATTACTGTTATAT
1 GGATGAGTTACTGTTAAAT
16631373 GGATGAAG-TACTGTTTAAAT
1 GGATG-AGTTACTG-TTAAAT
16631393 GGATGAGTTACT
1 GGATGAGTTACT
16631405 ATTATCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (19 bp):
GGATGAGTTACTGTTAAAT
Found at i:16635667 original size:27 final size:27
Alignment explanation
Indices: 16635649--16635700 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16635639 ATAGTGAGTC
16635649 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
16635676 CGCACACTTAGTGCTATATGATCAA
1 CGCACACTTAGTGCTATATAATCAA
16635701 ACTCTGTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:16637490 original size:40 final size:40
Alignment explanation
Indices: 16637408--16637573 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
16637398 AAATTGAATG
* * ** ***
16637408 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* *
16637447 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
* **
16637487 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGGTT
* *
16637526 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-AGTGGTT
16637566 ATATCCGG
1 ATATCCGG
16637574 TTATATTCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
38 3 0.03
39 43 0.42
40 53 0.52
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGGTT
Found at i:16637531 original size:39 final size:40
Alignment explanation
Indices: 16637408--16637557 Score: 155
Period size: 39 Copynumber: 3.8 Consensus size: 40
16637398 AAATTGAATG
* * *
16637408 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
16637447 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
16637487 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* *
16637526 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
16637558 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 43 0.47
40 43 0.47
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:16637540 original size:79 final size:79
Alignment explanation
Indices: 16637408--16637573 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
16637398 AAATTGAATG
*
16637408 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
16637473 TTGTGCA-AGTGGCT
66 TTGTGCACA-TGGCT
* * ** *
16637487 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
* *
16637550 ATTTGTGCACATGGTT
64 AATTGTGCACATGGCT
16637566 ATATCCGG
1 ATATCCGG
16637574 TTATATTCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 4 0.05
79 71 0.93
80 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCACATGGCT
Found at i:16646756 original size:28 final size:27
Alignment explanation
Indices: 16646693--16646762 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16646683 ATAGTGAGTC
16646693 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
16646720 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
16646748 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16646763 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:16651369 original size:18 final size:18
Alignment explanation
Indices: 16651336--16651376 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16651326 GGCTGTTTCT
16651336 GGGCTATGTGGGCCACAC
1 GGGCTATGTGGGCCACAC
*
16651354 GGGC-ATGTGGGCCCACAT
1 GGGCTATGTGGG-CCACAC
16651372 GGGCT
1 GGGCT
16651377 CGCACTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.15, C:0.27, G:0.41, T:0.17
Consensus pattern (18 bp):
GGGCTATGTGGGCCACAC
Found at i:16651524 original size:27 final size:27
Alignment explanation
Indices: 16651511--16651761 Score: 306
Period size: 27 Copynumber: 9.3 Consensus size: 27
16651501 ATGATTTACT
**
16651511 CTTATGTGGTAAAATGACACTTTTGCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
*
16651538 CTTATGTGGTACAATGACTGTTTTGCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
* * * *
16651565 CTTATATGTTTAAATGATTGTTTTGCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
*
16651592 CTTATGTGGTAAAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
* * ** *
16651619 TTTATATGGTAAAATGACCATTTTACCC
1 CTTATGTGGTAAAATGACTGTTTT-GCC
* *
16651647 CTTATATGGTAAAATGACTGTTTTTCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
* *
16651674 CTTATGTGGTGAAATGACTGTTTTGCT
1 CTTATGTGGTAAAATGACTGTTTTGCC
*
16651701 CTTATGTGGTAAGATGACTGTTTTGCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
* *
16651728 CTTATATGGTAAAATGACTGTTTTTCC
1 CTTATGTGGTAAAATGACTGTTTTGCC
16651755 C-TATGTG
1 CTTATGTG
16651762 ATGTATATAT
Statistics
Matches: 191, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 5 0.03
27 163 0.85
28 23 0.12
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (27 bp):
CTTATGTGGTAAAATGACTGTTTTGCC
Found at i:16651689 original size:109 final size:109
Alignment explanation
Indices: 16651511--16651745 Score: 330
Period size: 109 Copynumber: 2.2 Consensus size: 109
16651501 ATGATTTACT
* * * * *
16651511 CTTATGTGGTAAAATGA-CACTTTTGCCCTTATGTGGTACAATGACTGTTTTGCCCTTATATGTT
1 CTTATATGGTAAAATGACCACTTTTCCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGGT
* *
16651575 TAAATGATTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCC
66 GAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCC
* * *
16651619 TTTATATGGTAAAATGACCA-TTTTACCCCTTATATGGTAAAATGACTGTTTTTCCCTTATGTGG
1 CTTATATGGTAAAATGACCACTTTT-CCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGG
* * *
16651683 TGAAATGACTGTTTTGCTCTTATGTGGTAAGATGACTGTTTTGCC
65 TGAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCC
16651728 CTTATATGGTAAAATGAC
1 CTTATATGGTAAAATGAC
16651746 TGTTTTTCCC
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
108 19 0.17
109 92 0.83
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (109 bp):
CTTATATGGTAAAATGACCACTTTTCCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGGT
GAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTGCC
Found at i:16652132 original size:18 final size:18
Alignment explanation
Indices: 16652106--16652142 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16652096 GGACTTGCAT
16652106 ACTGCTTACTGTAACTGC
1 ACTGCTTACTGTAACTGC
* *
16652124 ACTGTTTACTGTTACTGC
1 ACTGCTTACTGTAACTGC
16652142 A
1 A
16652143 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (18 bp):
ACTGCTTACTGTAACTGC
Found at i:16654654 original size:22 final size:22
Alignment explanation
Indices: 16654609--16654654 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
16654599 TGCTTTCATA
**
16654609 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
16654631 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
16654653 AT
1 AT
16654655 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:16663413 original size:13 final size:13
Alignment explanation
Indices: 16663395--16663423 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16663385 AAGCACGGGA
16663395 AAAAAATATGTAT
1 AAAAAATATGTAT
16663408 AAAAAATATGTAT
1 AAAAAATATGTAT
16663421 AAA
1 AAA
16663424 TTACGGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
AAAAAATATGTAT
Found at i:16671843 original size:10 final size:12
Alignment explanation
Indices: 16671817--16671845 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16671807 ATGTAACCGA
16671817 ATATACCACATT
1 ATATACCACATT
16671829 ATATACCACATT
1 ATATACCACATT
16671841 ATATA
1 ATATA
16671846 TGCACATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATACCACATT
Found at i:16676769 original size:40 final size:40
Alignment explanation
Indices: 16676723--16676905 Score: 276
Period size: 40 Copynumber: 4.6 Consensus size: 40
16676713 ACTCGTTCAT
* * * * * *
16676723 ATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGA
*
16676763 ACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGA
*
16676803 ATGCCTTTGGGACTTAGCCCGGATATAGTAGCTCACACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGA
**
16676843 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGTACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGA
16676883 ATGCCTTCGGGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
16676906 ATTAGCCACT
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACGA
Found at i:16684973 original size:40 final size:39
Alignment explanation
Indices: 16684917--16685121 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 39
16684907 CGGAATTTAA
** * *
16684917 CCGGATATAGCT-ACTCGTTCATATGCCTTCGAGACATAGC
1 CCGGATATAG-TAACTCGCACA-ATGCCTTCGGGACTTAGC
* *
16684957 CCGGTTATAGTAACTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
*
16684997 CCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
* * *
16685037 CCGGATATAGTAGCTCGCACGAATTCCTTCAGGACTTAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
*
16685077 CCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
16685117 CCGGA
1 CCGGA
16685122 ATTAGCCACT
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
Found at i:16685054 original size:80 final size:80
Alignment explanation
Indices: 16684939--16685160 Score: 295
Period size: 80 Copynumber: 2.8 Consensus size: 80
16684929 ACTCGTTCAT
* * * *
16684939 ATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAAACGCCTTCGGGACTTAGCCCGGATA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAACGCCTTCAGGACTTAGCCCGGATA
16685004 TAGTAGCTCGCACGA
66 TAGTAGCTCGCACGA
* * **
16685019 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATTCCTTCAGGACTTAGCCCGGATA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAACGCCTTCAGGACTTAGCCCGGATA
16685084 TAGTAGCTCGCACGA
66 TAGTAGCTCGCACGA
** * * *
16685099 ATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCACAAATG-CTCTCAGGATTTAGCCCGG
1 ATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAACGCCT-TCAGGACTTAGCCCGG
16685161 TTATCATCCG
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 3 0.02
80 122 0.98
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAACGCCTTCAGGACTTAGCCCGGATA
TAGTAGCTCGCACGA
Found at i:16685142 original size:40 final size:40
Alignment explanation
Indices: 16684939--16685121 Score: 294
Period size: 40 Copynumber: 4.6 Consensus size: 40
16684929 ACTCGTTCAT
* * * * *
16684939 ATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
*
16684979 ACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
16685019 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
* *
16685059 ATTCCTTCAGGACTTAGCCCGGATATAGTAGCTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
16685099 ATGCCTTCGGGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
16685122 ATTAGCCACT
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGA
Found at i:16690008 original size:22 final size:22
Alignment explanation
Indices: 16689963--16690008 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16689953 ATAATTCATA
**
16689963 ATTATAATAAAGAATTTATCAC
1 ATTATAATAAAGAATTTAAAAC
* *
16689985 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGAATTTAAAAC
16690007 AT
1 AT
16690009 ACTACCATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGAATTTAAAAC
Found at i:16696236 original size:28 final size:27
Alignment explanation
Indices: 16696203--16696283 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
16696193 TTAGAATACT
*
16696203 TTAGTTTACTAAAATTA-TCGAAATACCC
1 TTAGTTT-CTAAAAATACT-GAAATACCC
*
16696231 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTCTAAAAATACTGAAATACCC
* * *
16696258 -TCGATTTGTAAAATTACTGAAATACC
1 TTAG-TTTCTAAAAATACTGAAATACC
16696284 TTCGACTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 37 0.79
28 8 0.17
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACTGAAATACCC
Found at i:16696242 original size:27 final size:28
Alignment explanation
Indices: 16696212--16696301 Score: 107
Period size: 27 Copynumber: 3.3 Consensus size: 28
16696202 TTTAGTTTAC
16696212 TAAAATTA-TCGAAATACCCTTAG-TTTG
1 TAAAATTACT-GAAATACCCTTAGATTTG
* *
16696239 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
* *
16696266 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACTGAAATACCCTTAGATTTG
16696293 TAAAATTAC
1 TAAAATTAC
16696302 CAAAGTACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.07
27 51 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
TAAAATTACTGAAATACCCTTAGATTTG
Found at i:16696347 original size:27 final size:27
Alignment explanation
Indices: 16696307--16696517 Score: 282
Period size: 27 Copynumber: 7.9 Consensus size: 27
16696297 ATTACCAAAG
16696307 TACCC-CGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
16696333 TACCCCCAATTTACATAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
16696360 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* * *
16696387 TACCCTCGACTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
16696414 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
16696441 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
16696468 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
16696495 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
16696518 AAAATACCAT
Statistics
Matches: 164, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
26 6 0.04
27 158 0.96
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:16696525 original size:27 final size:27
Alignment explanation
Indices: 16696468--16696719 Score: 107
Period size: 27 Copynumber: 9.3 Consensus size: 27
16696458 ATTACTGTTT
* *****
16696468 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
16696495 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * **
16696522 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
16696549 TACTCCTAG-TTTGTAAAATTACCAAAA
1 TAC-CCTTGATTTACAAAATTACCAAAA
* *** *
16696576 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** ** *
16696603 TACCCTCAATTTGTAAATTTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
16696630 TACCCCTAATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
* *
16696657 TACCTTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* * * **
16696686 TATCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
16696713 TACCCTT
1 TACCCTT
16696720 AGTTTGTAGA
Statistics
Matches: 178, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
26 6 0.03
27 144 0.81
28 10 0.06
29 18 0.10
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:16696580 original size:81 final size:79
Alignment explanation
Indices: 16696495--16696747 Score: 186
Period size: 81 Copynumber: 3.1 Consensus size: 79
16696485 ATTACTGTTT
*
16696495 TACCCTCGATTTACAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATACTCCTAGTT
1 TACCCTTGATTT-CAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATAC-CCTAGTT
16696560 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** ** * *** * *
16696576 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAATTTACCAAAATACCCCTAATT
1 TACCCTTGATTT-CAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATA-CCCTAGTT
** *
16696641 TACAAAGTTA-CAGAAA
64 TGTAAAATTACCA-AAA
* * ** **
16696657 TACCTTTGACTTTCTAAAAATTA-TAGAAATATCATTGGTTTACAAAATTACTGAAATACCCTTA
1 TACCCTTGA-TTTC--AAAATTACTA-AAATACCATTGGTTTGTAAAATTACCAAAATACCC-TA
* *
16696721 GTTTGTAGATTTACCAAAA
61 GTTTGTAAAATTACCAAAA
*
16696740 CACCCTTG
1 TACCCTTG
16696748 TAGGATGAAA
Statistics
Matches: 125, Mismatches: 39, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
80 2 0.02
81 67 0.54
82 7 0.06
83 47 0.38
84 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (79 bp):
TACCCTTGATTTCAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCTAGTTTG
TAAAATTACCAAAA
Found at i:16696634 original size:54 final size:54
Alignment explanation
Indices: 16696495--16696634 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
16696485 ATTACTGTTT
* ** * *
16696495 TACCCTCGATTTACAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
16696549 TACTCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TAC-CCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
16696603 TACCCTCAATTTGTAAATTTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
16696635 CTAATTTACA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.04
54 68 0.92
55 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:16696657 original size:54 final size:54
Alignment explanation
Indices: 16696537--16696660 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 54
16696527 TTGGTTTGTA
* * ** **
16696537 AAATTACCA-AAATACTCCT-AGTTTGTAAAATTACCAAAATACCCTTGGTTTGTG
1 AAATTA-CAGAAATAC-CCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGAC
* *
16696591 AAATTACCGAAATACCCTCAATTTGTAAATTTACCAAAATACCCCTAATTT-AC
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGAC
16696644 AAAGTTACAGAAATACC
1 AAA-TTACAGAAATACC
16696661 TTTGACTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
53 7 0.12
54 51 0.88
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTGAC
Found at i:16696869 original size:27 final size:27
Alignment explanation
Indices: 16696778--16696869 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
16696768 ACCCCTATTA
* *
16696778 GGTAAAAAGACTGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
16696805 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
16696832 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
16696859 GGTAAAATGAC
1 GGTAAAATGAC
16696870 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:16697701 original size:26 final size:26
Alignment explanation
Indices: 16697672--16697795 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
16697662 GAGGAAGTGC
*
16697672 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
16697698 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
16697724 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
16697750 AAAAGGTCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
16697776 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
16697796 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 9 0.10
26 81 0.90
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:16697999 original size:42 final size:42
Alignment explanation
Indices: 16697940--16698031 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
16697930 TAGTCTCCCC
* ** * *
16697940 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTAATATTG
16697982 AAATGGGCTTGCATACATCCATTGACATTACATGTAATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTAATATTG
16698024 AAATGGGC
1 AAATGGGC
16698032 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTAATATTG
Found at i:16698090 original size:31 final size:31
Alignment explanation
Indices: 16698055--16698133 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
16698045 CATTTACAGT
16698055 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* * *
16698086 AAAGGATTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
16698117 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
16698134 AATCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:16700684 original size:36 final size:37
Alignment explanation
Indices: 16700612--16700690 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
16700602 AATGATGTTA
*
16700612 ATGCCTAAGTTAATCTAAAGTAAGTTTATAAACACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
*
16700649 ATGCATAAGTTAATCTAAAGTAA-TTTATAAGCACAT
1 ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
16700685 ATGCAT
1 ATGCAT
16700691 GTAATGGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 18 0.45
37 22 0.55
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (37 bp):
ATGCATAAGTTAATCTAAAGTAAGTTTATAAACACAT
Found at i:16705891 original size:15 final size:15
Alignment explanation
Indices: 16705873--16705916 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
16705863 GAAGCCCAGA
16705873 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
16705888 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
16705903 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
16705917 TTTACAGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:16714532 original size:16 final size:16
Alignment explanation
Indices: 16714511--16714564 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16714501 TATATAGTCG
16714511 TCTAGATTCAAATGTA
1 TCTAGATTCAAATGTA
* *
16714527 TCTAGA--CAACCATTTG
1 TCTAGATTCAA--ATGTA
16714543 TCTAGATTCAAATGTA
1 TCTAGATTCAAATGTA
16714559 TCTAGA
1 TCTAGA
16714565 CATTCTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 3 0.10
16 24 0.80
18 3 0.10
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (16 bp):
TCTAGATTCAAATGTA
Found at i:16723458 original size:19 final size:21
Alignment explanation
Indices: 16723431--16723473 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
16723421 ATTTCCACTG
16723431 ATTTCTTTT-CAAATTTT-TA
1 ATTTCTTTTACAAATTTTATA
* *
16723450 ATTTTTTTTATAAATTTTATA
1 ATTTCTTTTACAAATTTTATA
16723471 ATT
1 ATT
16723474 CATATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 7 0.35
21 5 0.25
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTCTTTTACAAATTTTATA
Found at i:16723535 original size:2 final size:2
Alignment explanation
Indices: 16723494--16723518 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16723484 TTTTCTAGAT
16723494 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16723519 TCTAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16736197 original size:27 final size:28
Alignment explanation
Indices: 16736140--16736209 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
16736130 AAATTTGTAC
**
16736140 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
16736168 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
16736195 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16736210 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:16736218 original size:27 final size:27
Alignment explanation
Indices: 16736140--16736221 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
16736130 AAATTTGTAC
* *
16736140 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
16736168 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
16736195 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
16736222 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:16740159 original size:2 final size:2
Alignment explanation
Indices: 16740114--16740145 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16740104 TTTTCAGACT
16740114 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
16740146 AATGTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16752594 original size:41 final size:41
Alignment explanation
Indices: 16752506--16752618 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 41
16752496 ACATTATTCT
* * * *
16752506 TAAATTGCACATATGTGCCCTTGTTTGTACTTTAATATCCT
1 TAAATTGCACATACGTGCCCTTGTTTGTACTTCAATACCCC
* * **
16752547 TGAATTGCACATACGTTCCCTTGTTTGTACTTCGGTACCCC
1 TAAATTGCACATACGTGCCCTTGTTTGTACTTCAATACCCC
* *
16752588 TAAATTGCACATACGGGCCCCTGTTTGTACT
1 TAAATTGCACATACGTGCCCTTGTTTGTACT
16752619 CTGGTAGCCC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (41 bp):
TAAATTGCACATACGTGCCCTTGTTTGTACTTCAATACCCC
Found at i:16757346 original size:47 final size:47
Alignment explanation
Indices: 16756992--16757326 Score: 598
Period size: 47 Copynumber: 7.1 Consensus size: 47
16756982 GATTCTATGA
*
16756992 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
16757039 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
16757086 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
16757133 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
16757180 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
16757227 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
16757274 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
16757321 GATGAA
1 GATGAA
16757327 CGTGGAAGTG
Statistics
Matches: 279, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 279 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:16757359 original size:47 final size:47
Alignment explanation
Indices: 16756992--16757366 Score: 343
Period size: 47 Copynumber: 8.0 Consensus size: 47
16756982 GATTCTATGA
* * * *
16756992 GATGAATGTGAACATGCATATGTGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
16757039 GATGAATGTGAACATGCAAATATGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
16757086 GATGAATGTGAACATGCATATGTGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
16757133 GATGAATGTGAACATGCATATGTGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
16757180 GATGAATGTGAACATGCAAATATGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * * *
16757227 GATGAATGTGAACATGCAAATATGTGATAAGGC-CGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAA-GCTAGAATGGCCAATGT
* * *
16757274 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGCTAGAATGGCCAATGT
* * * *
16757321 GATGAACGTGGAA-GTGTATATATGTGGCGAAGCT-GAATGGCTAATG
1 GATGAACGT-GAACATGCATATATGT-GAGAAGCTAGAATGGCCAATG
16757367 CGAAATGTGT
Statistics
Matches: 309, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 300 0.97
48 8 0.03
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
GATGAACGTGAACATGCATATATGTGAGAAGCTAGAATGGCCAATGT
Found at i:16766067 original size:43 final size:42
Alignment explanation
Indices: 16766005--16766168 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
16765995 AGATATGATT
**
16766005 TCGTGTAAGACCACATCTGGGACGTTGGCATCGATTTGAGATA
1 TCGTGTAAGACCATGTCTGGGACG-TGGCATCGATTTGAGATA
** * *
16766048 TCGTGTAAGACTGTGTCTGGGACACTGGCATCGATTTGAAATA
1 TCGTGTAAGACCATGTCTGGGAC-GTGGCATCGATTTGAGATA
* * *
16766091 TCGTGTAAGACCATGTCTGGAGCAC-TGGCATCAATTAGAGATT
1 TCGTGTAAGACCATGTCTGG-G-ACGTGGCATCGATTTGAGATA
* * *
16766134 TCATGTAAGACCCTGTCTAGGACAGTGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGAC-GTGGCATCGAT
16766169 ATGTGATTAC
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 94 0.94
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACGTGGCATCGATTTGAGATA
Found at i:16766151 original size:86 final size:85
Alignment explanation
Indices: 16766005--16766168 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
16765995 AGATATGATT
* * * ** *
16766005 TCGTGTAAGACCACATCTGGGACGTTGGCATCGATTTGAGATATCGTGTAAGACTGTGTCTGGGA
1 TCGTGTAAGACCACATCTGGGACG-TGGCATCAATTAGAGATATCATGTAAGACCCTGTCTAGGA
16766070 CACTGGCATCGATTTGAAATA
65 CACTGGCATCGATTTGAAATA
** *
16766091 TCGTGTAAGACCATGTCTGGAGCAC-TGGCATCAATTAGAGATTTCATGTAAGACCCTGTCTAGG
1 TCGTGTAAGACCACATCTGG-G-ACGTGGCATCAATTAGAGATATCATGTAAGACCCTGTCTAGG
*
16766155 ACAGTGGCATCGAT
64 ACACTGGCATCGAT
16766169 ATGTGATTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
86 63 0.95
87 1 0.02
88 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCACATCTGGGACGTGGCATCAATTAGAGATATCATGTAAGACCCTGTCTAGGAC
ACTGGCATCGATTTGAAATA
Found at i:16766182 original size:43 final size:41
Alignment explanation
Indices: 16766051--16766189 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 41
16766041 TGAGATATCG
** * *
16766051 TGTAAGACTGTGTCTGGGACACTGGCATCGATT-TGAAATATCG
1 TGTAAGACCATGTCT-GGACACTGGCATCGATTGTG-ATTA-CA
* * *
16766094 TGTAAGACCATGTCTGGAGCACTGGCATCAATTAGAGATTTCA
1 TGTAAGACCATGTCTGGA-CACTGGCATCGATT-GTGATTACA
* *
16766137 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCT-GGACACTGGCATCGAT-TGTGATTACA
*
16766180 TGTCAGACCA
1 TGTAAGACCA
16766190 CGTTTGGGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
42 3 0.04
43 67 0.87
44 6 0.08
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGACACTGGCATCGATTGTGATTACA
Found at i:16766211 original size:20 final size:20
Alignment explanation
Indices: 16766186--16766226 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16766176 TACATGTCAG
*
16766186 ACCACGTTTGGGATGTTGGC
1 ACCACGTCTGGGATGTTGGC
16766206 ACCACGTCTGGGATGTTGGC
1 ACCACGTCTGGGATGTTGGC
16766226 A
1 A
16766227 TTGTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.27
Consensus pattern (20 bp):
ACCACGTCTGGGATGTTGGC
Found at i:16783769 original size:43 final size:43
Alignment explanation
Indices: 16783722--16783808 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
16783712 AGTAAATTAA
*
16783722 ATCTGTTTAATATTCATGCTATTCAAATTAATCCAAAATTCAT
1 ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
16783765 ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
1 ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
16783808 A
1 A
16783809 CTTTTATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (43 bp):
ATCTGTTTAATATTCATGCTATTCAAATCAATCCAAAATTCAT
Found at i:16784744 original size:17 final size:17
Alignment explanation
Indices: 16784698--16784764 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
16784688 ACCGTCGCAT
*
16784698 CCTATTGCTATCGCAAG
1 CCTATTGCCATCGCAAG
*
16784715 CTTCA-TGCCATCGCAAG
1 CCT-ATTGCCATCGCAAG
* *
16784732 CCTATTGCTATCGCAAT
1 CCTATTGCCATCGCAAG
*
16784749 CCTATTTCCATCGCAA
1 CCTATTGCCATCGCAA
16784765 ACACCTTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
16 1 0.02
17 39 0.95
18 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (17 bp):
CCTATTGCCATCGCAAG
Found at i:16784760 original size:34 final size:34
Alignment explanation
Indices: 16784698--16784764 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
16784688 ACCGTCGCAT
*
16784698 CCTATTGCTATCGCAAGCTTCATGCCATCGCAAG
1 CCTATTGCTATCGCAAGCCTCATGCCATCGCAAG
* *
16784732 CCTATTGCTATCGCAATCCT-ATTTCCATCGCAA
1 CCTATTGCTATCGCAAGCCTCA-TGCCATCGCAA
16784765 ACACCTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (34 bp):
CCTATTGCTATCGCAAGCCTCATGCCATCGCAAG
Found at i:16785405 original size:27 final size:27
Alignment explanation
Indices: 16785367--16785418 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
16785357 ATGGTTTTAA
* *
16785367 TTTGTCTGATATAGTTTCATGCCTAAC
1 TTTGCCTGATATAGTTTCATACCTAAC
16785394 TTTGCCTGATATAGTTTCATACCTA
1 TTTGCCTGATATAGTTTCATACCTA
16785419 TCTCATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (27 bp):
TTTGCCTGATATAGTTTCATACCTAAC
Found at i:16788340 original size:47 final size:46
Alignment explanation
Indices: 16788282--16788458 Score: 205
Period size: 47 Copynumber: 3.8 Consensus size: 46
16788272 ACAACTCTTA
* * *
16788282 GCCGATGCATGTCCCAGACACGTCTTAGACTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCGAG
* * * *
16788329 GCCGATGCATGTCCCAAACATGTATTACACTAGCACTCATCTCTAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCGAG
* *
16788375 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCACTCAT-CTCGAG
*
16788423 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCAC
16788459 ACAAGGAATC
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
46 26 0.23
47 61 0.54
48 24 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCGAG
Found at i:16794294 original size:24 final size:24
Alignment explanation
Indices: 16794266--16794344 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
16794256 CACTTAGTAC
16794266 TACACACGTGACCTCATCATCTGA
1 TACACACGTGACCTCATCATCTGA
16794290 T--ACACGTAGTAGCCTGCA-C-T-TAGTA
1 TACACACGT-G-A-CCT-CATCATCT-G-A
16794315 CTACACACGTGACCTCATCATCTGA
1 -TACACACGTGACCTCATCATCTGA
16794340 TACAC
1 TACAC
16794345 GTAGTAGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 24
0.64 0.00 0.36
Matches are distributed among these distances:
22 6 0.14
23 2 0.05
24 11 0.26
25 10 0.23
26 6 0.14
27 2 0.05
28 6 0.14
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (24 bp):
TACACACGTGACCTCATCATCTGA
Found at i:16794296 original size:22 final size:22
Alignment explanation
Indices: 16794269--16794346 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
16794259 TTAGTACTAC
16794269 ACACGTGACCTCATCATCTGAT
1 ACACGTGACCTCATCATCTGAT
* *
16794291 ACACGTAGTAGCCTGCACTTAGTACT-AC
1 ACACGT-G-A-CCT-CA-TCA-T-CTGAT
16794319 ACACGTGACCTCATCATCTGAT
1 ACACGTGACCTCATCATCTGAT
16794341 ACACGT
1 ACACGT
16794347 AGTAGCCTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 3 0.07
24 3 0.07
25 6 0.14
26 3 0.07
27 3 0.07
28 8 0.18
29 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (22 bp):
ACACGTGACCTCATCATCTGAT
Found at i:16794313 original size:50 final size:49
Alignment explanation
Indices: 16794185--16794476 Score: 329
Period size: 50 Copynumber: 5.9 Consensus size: 49
16794175 AACCAAAGCT
* * * * *
16794185 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-TCAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
* * *
16794233 AATCCGGTACACGTAATAGCCTGCACTTAGTACTACACACGTGACCTCATC
1 -ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTCATC
16794284 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTCATC
*
16794334 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTC--A-TC
* * * * * * *
16794385 AT-TGAGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTTAAC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
* *
16794434 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
16794477 TATTCACAAT
Statistics
Matches: 212, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.01
49 38 0.18
50 127 0.60
51 44 0.21
52 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTCATC
Found at i:16794443 original size:101 final size:99
Alignment explanation
Indices: 16794185--16794476 Score: 381
Period size: 101 Copynumber: 2.9 Consensus size: 99
16794175 AACCAAAGCT
* * *
16794185 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-TCAACAATCCGGTACACGTAA
1 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAAC-ATCTGATACACGTAG
**
16794249 TAGCCTGCACTTAGTACTACACACGTGACCTCATC
65 TAGCCTGCACTTAGTACTACACACGTGACCGAATC
* * * * *
16794284 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATCTGATACACGTAG
1 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACATCTGATACACGTAG
* *
16794349 TAGCCTGCACTTAGTACTACACATGTGATCGAAGTC
65 TAGCCTGCACTTAGTACTACACACGTGACCGAA-TC
* * *
16794385 AT-TGAGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGATACACGTA
1 ATCTGA-TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACA-TCTGATACACGTA
*
16794449 GTAGCCTACACTTAGTACTACACACGTG
64 GTAGCCTGCACTTAGTACTACACACGTG
16794477 TATTCACAAT
Statistics
Matches: 166, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
99 39 0.23
100 49 0.30
101 78 0.47
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACATCTGATACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCGAATC
Found at i:16794461 original size:151 final size:149
Alignment explanation
Indices: 16794185--16794476 Score: 392
Period size: 151 Copynumber: 1.9 Consensus size: 149
16794175 AACCAAAGCT
* *
16794185 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCCGGTACACGTAAT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCCGGTACACATAAT
* * * * *
16794250 AGCCTGCACTTAGTACTACACACGTGACCTCATCATCTGATACACGTAGTAGCCTGCACTTAGTA
66 AGCCTACACTTAGTACTACACACGCGACCTCAACATATGATACACGTAGTAGCCTACACTTAGTA
16794315 CTACACACGTGACCTCATC
131 CTACACACGTGACCTCATC
* * * *
16794334 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTC-AT-TGAGTACGCA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATC-AA--CAATCCG-GTACACA
* * *
16794397 TAGTAGCCTACACTTAGTACTACACATGCGA-CTTAACAGTATGATACACGTAGTAGCCTACACT
62 TAATAGCCTACACTTAGTACTACACACGCGACCTCAACA-TATGATACACGTAGTAGCCTACACT
16794461 TAGTACTACACACGTG
126 TAGTACTACACACGTG
16794477 TATTCACAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
149 42 0.34
150 8 0.06
151 73 0.59
152 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (149 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCCGGTACACATAAT
AGCCTACACTTAGTACTACACACGCGACCTCAACATATGATACACGTAGTAGCCTACACTTAGTA
CTACACACGTGACCTCATC
Found at i:16800499 original size:43 final size:42
Alignment explanation
Indices: 16800436--16800563 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 42
16800426 ATAGGATTTC
* * *
16800436 TGATATGTGTTCTCGCGTAAGACCACGTCTGGGAAATTGGTA
1 TGATATGTGTTTTCGTGTAAGACCACGTCTGGGAAATTGGCA
* *
16800478 TCGATATGTGTTTTTGTGTAAGACC-CTATCTGGGACAA-TGGCA
1 T-GATATGTGTTTTCGTGTAAGACCAC-GTCTGGGA-AATTGGCA
* * * *
16800521 TGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
1 TGATATGTGTTTTCGTGTAAGACCACGTCTGGGAAATTGGCA
16800563 T
1 T
16800564 TGTACGATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 34 0.49
43 33 0.47
44 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATATGTGTTTTCGTGTAAGACCACGTCTGGGAAATTGGCA
Found at i:16806283 original size:39 final size:39
Alignment explanation
Indices: 16806229--16806411 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
16806219 GAATGTTCGA
16806229 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16806268 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
16806307 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16806346 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
16806385 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
16806412 CTTTGTGCGG
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 125 0.93
40 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:16809453 original size:29 final size:28
Alignment explanation
Indices: 16809421--16809523 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
16809411 GTGACGAGAT
* *
16809421 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
16809450 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
16809479 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
16809508 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16809524 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:16817251 original size:29 final size:28
Alignment explanation
Indices: 16817219--16817321 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
16817209 GTGACGAGAT
* *
16817219 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
16817248 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
16817277 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
16817306 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16817322 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:16828689 original size:24 final size:24
Alignment explanation
Indices: 16828662--16828710 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
16828652 AATTCAATGC
16828662 TCCTAATGCTTTAATTTCATGTTT
1 TCCTAATGCTTTAATTTCATGTTT
16828686 TCCTAATGCTTTAATTTCATGTTT
1 TCCTAATGCTTTAATTTCATGTTT
16828710 T
1 T
16828711 ACACTTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (24 bp):
TCCTAATGCTTTAATTTCATGTTT
Found at i:16828888 original size:13 final size:13
Alignment explanation
Indices: 16828870--16828896 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16828860 GATGTAATAG
16828870 CACACGGGCGTGT
1 CACACGGGCGTGT
16828883 CACACGGGCGTGT
1 CACACGGGCGTGT
16828896 C
1 C
16828897 CCTGCTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:16833152 original size:13 final size:13
Alignment explanation
Indices: 16833134--16833158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16833124 AACAACGCCA
16833134 GACACGGCCGTGC
1 GACACGGCCGTGC
16833147 GACACGGCCGTG
1 GACACGGCCGTG
16833159 TGCACCCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Done.