Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006705.1 Hibiscus syriacus cultivar Beakdansim tig00016701_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: 196558
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:5921 original size:20 final size:21
Alignment explanation
Indices: 5880--5924 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
5870 GTGAAAAATA
5880 TATCTAAAATATTATTATTTTT
1 TATCTAAAATATTA-TATTTTT
5902 TATCTAAAATATTA-ATTTTT
1 TATCTAAAATATTATATTTTT
5922 TAT
1 TAT
5925 TATTTCTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
TATCTAAAATATTATATTTTT
Found at i:6408 original size:23 final size:23
Alignment explanation
Indices: 6364--6408 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6354 AACAAATTAG
* **
6364 GTAGCTCTTATATAATGTAATAT
1 GTAGCGCTTATATAATAAAATAT
6387 GTAGCGCTTATATAATAAAATA
1 GTAGCGCTTATATAATAAAATA
6409 GGTTAATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAT
Found at i:6465 original size:23 final size:23
Alignment explanation
Indices: 6439--6488 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
6429 ATCAAACACA
* *
6439 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
** *
6462 ATAATGTAATAGATAGTGCTTAT
1 ATAACATAATAGATAGCGCTTAT
6485 ATAA
1 ATAA
6489 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:6485 original size:87 final size:87
Alignment explanation
Indices: 6351--6573 Score: 367
Period size: 87 Copynumber: 2.6 Consensus size: 87
6341 TATCAAGTAA
* * **
6351 AATAACAAATTAGGTAGCTCTTATATAATGTAATATG-TAGCGCTTATATAATAAAATAGGTTAA
1 AATAACATATTAGGTAGCGCTTATATAATGTAATA-GATAGCGCTTATATAATAAAATAAATTAA
6415 TTACTCGAAACATTATCAAACAC
65 TTACTCGAAACATTATCAAACAC
*
6438 AATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGTGCTTATATAATAAAATAAATTAAT
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTTATATAATAAAATAAATTAAT
* *
6503 TACTGGAAACATTATCAAGCAC
66 TACTCGAAACATTATCAAACAC
6525 AATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTTATAT
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTTATAT
6574 TGACCTATTT
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 1 0.01
87 126 0.99
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (87 bp):
AATAACATATTAGGTAGCGCTTATATAATGTAATAGATAGCGCTTATATAATAAAATAAATTAAT
TACTCGAAACATTATCAAACAC
Found at i:6552 original size:23 final size:23
Alignment explanation
Indices: 6526--6573 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6516 ATCAAGCACA
* *
6526 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
6549 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
6572 AT
1 AT
6574 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:7454 original size:199 final size:198
Alignment explanation
Indices: 6591--7487 Score: 1046
Period size: 197 Copynumber: 4.5 Consensus size: 198
6581 TTTTCTAACT
* * *
6591 AAACCGATATATTTATACC-GTTAACATTGCAAATGTACCTATTACATTATAATTATCGGTTTCG
1 AAACCGGTATATTTATACCGGTT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * *
6655 ATGTTTTTGGGATCGATACAATTT--TAAATGTATCGAGACTTTATGCGTGTACCTCGTTGGACA
65 ATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACA
*
6718 TTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATGCATTAT-TTAGACATATTTT
129 TTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTT-GACATATTTT
*
6782 CTCATA
193 ATCATA
* * * *
6788 AAACTGGTATATTTCTACCAGG-TGCATTGTAAATTTACCTATTACATTTTAATTATCGGTTTCG
1 AAACCGGTATATTTATACC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * * *
6852 ATATTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTATGCGTGCACCTCATTTGACAT
65 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACAT
* * ** *** **
6917 TCACTCTGGACAAAATGTATTAACAC-TTTTTAAATTTGTGTCGATACATTATGTTGACATATTT
130 TCATTCT-GA-AAAAAGTATCGACACAAACTTAAA-ACGTGTCGATACATTATGTTGACATATTT
6981 TATCATA
192 TATCATA
* * * *
6988 AAACCGATATATTTATACTGGTTACATTGTAAATTTACTTATTACATTATAATTATCAGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
7053 TGTTTTTGTGATAGATACAATGT--TAAATGTATCGACACTTTACGCGTGCACCTCGTTGGACAT
66 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACAT
*
7116 TCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAT-ACATATTTTC
130 TCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGT-TGACATATTTTA
7180 TCATA
194 TCATA
* * * * **
7185 AAACCGGTATATTTCTACCGGATACATTGTAAATTTACCTATTACATTTTAATTATTGGTTTATA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* ** *
7250 TGTTTTTGAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCATTTCGTTTGACATT
66 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATT
*** ** * * *
7315 CATTCTGGACAAAATA-TATCGACAC-TTTTTAAATTTGTGTTGATACATTATGTTGACCTATTC
131 CATTCT-GA-AAAA-AGTATCGACACAAACTTAAA-ACGTGTCGATACATTATGTTGACATATTT
7378 TATCAT-
192 TATCATA
* * * * *
7384 AAACCGGTATATTTATACCGGTTACAATATAACTTTACCTATAACATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
7449 TGTTTTTGGGGTCGATACTTTTAGA-AAATGTATCGACAC
66 TGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
7488 ATATGTTTAT
Statistics
Matches: 590, Mismatches: 90, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
196 5 0.01
197 185 0.31
198 93 0.16
199 151 0.26
200 151 0.26
201 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATT
CATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTTGACATATTTTATC
ATA
Found at i:7480 original size:397 final size:395
Alignment explanation
Indices: 6568--7487 Score: 1353
Period size: 397 Copynumber: 2.3 Consensus size: 395
6558 TAGATAGCGC
* * * *
6568 TTATATTGACCTATTTTCTAAC-TAAACCGATATATTTATACC-GTTAACATTGCAAATGTACCT
1 TTATGTTGACCTA--TTCTATCATAAACCGATATATTTATACCGGTT-ACATTGTAAATTTACCT
*
6631 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCGAGACTT
63 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-ATTTTAAATGTATCGACACTT
* *
6696 TATGCGTGTACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGA
127 TACGCGTGCACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGA
* * * *
6761 TGCATTATTTAGACATATTTTCTCATAAAACTGGTATATTTCTACCAGGTGCATTGTAAATTTAC
192 TACATTATGTAGACATATTTTCTCATAAAACCGGTATATTTCTACCAGGTACATTGTAAATTTAC
* *
6826 CTATTACATTTTAATTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCAACA
257 CTATTACATTTTAATTATCGGTTTAGATATTTTTGAGATCGATACTTTTAATAAATGTATCAACA
* *
6891 CTTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATGTATTAACACTTTTTAAATTTGT
322 CTTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATATATCAACACTTTTTAAATTTGT
6956 GTCGATACA
387 GTCGATACA
* * * *
6965 TTATGTTGACATATTTTATCATAAAACCGATATATTTATACTGGTTACATTGTAAATTTACTTAT
1 TTATGTTGACCTATTCTATCAT-AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
7030 TACATTATAATTATCAGTTTCGATGTTTTTGTGATAGATACAATGTTAAATGTATCGACACTTTA
65 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-ATTTTAAATGTATCGACACTTTA
7095 CGCGTGCACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATA
129 CGCGTGCACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATA
*
7160 CATTATGTATACATATTTTCTCATAAAACCGGTATATTTCTACC-GGATACATTGTAAATTTACC
194 CATTATGTAGACATATTTTCTCATAAAACCGGTATATTTCTACCAGG-TACATTGTAAATTTACC
* * * *
7224 TATTACATTTTAATTATTGGTTTATATGTTTTTGAGATCGATACTTTTAATAAATGTATCGACAC
258 TATTACATTTTAATTATCGGTTTAGATATTTTTGAGATCGATACTTTTAATAAATGTATCAACAC
** * * *
7289 TTTATGCGTGCATTTCGTTTGACATTCATTCTGGACAAAATATATCGACACTTTTTAAATTTGTG
323 TTTATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATATATCAACACTTTTTAAATTTGTG
*
7354 TTGATACA
388 TCGATACA
* * * * *
7362 TTATGTTGACCTATTCTATCATAAACCGGTATATTTATACCGGTTACAATATAACTTTACCTATA
1 TTATGTTGACCTATTCTATCATAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATT
* *
7427 ACATTATAATTATTGGTTTCGATGTTTTTGGGGTCGATAC-TTTTAGAAAATGTATCGACAC
66 ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACATTTT---AAATGTATCGACAC
7488 ATATGTTTAT
Statistics
Matches: 467, Mismatches: 49, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
394 3 0.01
395 5 0.01
396 74 0.16
397 382 0.82
398 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (395 bp):
TTATGTTGACCTATTCTATCATAAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACATTTTAAATGTATCGACACTTTACG
CGTGCACCTCGTTGGACATTCATTCTGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACA
TTATGTAGACATATTTTCTCATAAAACCGGTATATTTCTACCAGGTACATTGTAAATTTACCTAT
TACATTTTAATTATCGGTTTAGATATTTTTGAGATCGATACTTTTAATAAATGTATCAACACTTT
ATGCGTGCACCTCATTTGACATTCACTCTGGACAAAATATATCAACACTTTTTAAATTTGTGTCG
ATACA
Found at i:7760 original size:21 final size:21
Alignment explanation
Indices: 7731--7786 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
7721 CAGTAAAAAT
* *
7731 TACCAAAAACATTATTATTTC
1 TACCTAAAACATCATTATTTC
7752 TACCTAAAACATCATTATTTC
1 TACCTAAAACATCATTATTTC
7773 TACCTAAAACATCA
1 TACCTAAAACATCA
7787 ATGTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (21 bp):
TACCTAAAACATCATTATTTC
Found at i:8064 original size:124 final size:125
Alignment explanation
Indices: 7839--8100 Score: 404
Period size: 124 Copynumber: 2.1 Consensus size: 125
7829 CCGTAAAAAA
* *
7839 AATAACAAAACCGGTAGCGCTTTTACCTGTTTTGTTAAGAAACCCGGTAAAATTCCAAAATAATA
1 AATAACAAAACCGATAGCGCTTTTACCTGTTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATA
* *
7904 ATAAAACCGGTAGAAATAATGATGTTTTCAGTAATTTTTACC-AGTTTTGTTGTGCACAAC
66 ATAAAACCGATAGAAATAATGATGTTTTCAGTAATTTTTACCGA-TTTTGTTATGCACAAC
* *
7964 AATAACAAAACTGATAGCGCTTTTA-CTGATTTTGTTAAGAAACCTGGT-AAATGCCAAAATAAT
1 AATAACAAAACCGATAGCGCTTTTACCTG-TTTTGTTAAGAAACCCGGTAAAATGCCAAAATAAT
* *
8027 AATAAAATCGATAGAAATAATGATGTTTTCAGTAATTTTTACCGATTTTGTTATGTACAAC
65 AATAAAACCGATAGAAATAATGATGTTTTCAGTAATTTTTACCGATTTTGTTATGCACAAC
*
8088 AATAATAAAACCG
1 AATAACAAAACCG
8101 GTACGGCCTT
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
124 83 0.66
125 42 0.34
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (125 bp):
AATAACAAAACCGATAGCGCTTTTACCTGTTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATA
ATAAAACCGATAGAAATAATGATGTTTTCAGTAATTTTTACCGATTTTGTTATGCACAAC
Found at i:9059 original size:30 final size:32
Alignment explanation
Indices: 9013--9072 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
9003 ATGTTAGATA
* *
9013 AAAATGTAAGAAATAAATAAATTAATTAAATT
1 AAAATGTAAGAAATAAACAAATTAAATAAATT
9045 AAAATG-AAG-AATAAACAAATTAAATAAA
1 AAAATGTAAGAAATAAACAAATTAAATAAA
9073 AGATAAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 17 0.65
31 3 0.12
32 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (32 bp):
AAAATGTAAGAAATAAACAAATTAAATAAATT
Found at i:9080 original size:26 final size:25
Alignment explanation
Indices: 9036--9093 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
9026 TAAATAAATT
*
9036 AATTAAATTAAAATGAAGAATAAACA
1 AATTAAATAAAAATGAAG-ATAAACA
*
9062 AATTAAATAAAAGAT-AAGATAAAGA
1 AATTAAATAAAA-ATGAAGATAAACA
*
9087 AAGTAAA
1 AATTAAA
9094 GATAAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 12 0.43
26 14 0.50
27 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (25 bp):
AATTAAATAAAAATGAAGATAAACA
Found at i:9149 original size:19 final size:18
Alignment explanation
Indices: 9114--9153 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9104 TAAGTAAAAT
9114 AAATAAAAAAATAAAGAA
1 AAATAAAAAAATAAAGAA
9132 AAATAAAGAAAA-AGAAGAA
1 AAATAAA-AAAATA-AAGAA
9151 AAA
1 AAA
9154 ATATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAATAAAAAAATAAAGAA
Found at i:9153 original size:9 final size:10
Alignment explanation
Indices: 9066--9153 Score: 54
Period size: 10 Copynumber: 8.3 Consensus size: 10
9056 TAAACAAATT
9066 AAATAAAAGATA
1 AAAT-AAAGA-A
*
9078 AGATAAAG-A
1 AAATAAAGAA
*
9087 AAGTAAAGATA
1 AAATAAAGA-A
*
9098 AAATAGTAAGTA
1 AAATA--AAGAA
*
9110 AAATAAATAAAA
1 AAAT-AA-AGAA
9122 AAATAAAGAA
1 AAATAAAGAA
9132 AAATAAAGAA
1 AAATAAAGAA
*
9142 AAA-GAAGAA
1 AAATAAAGAA
9151 AAA
1 AAA
9154 ATATATAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
9 15 0.25
10 16 0.26
11 12 0.20
12 14 0.23
13 4 0.07
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (10 bp):
AAATAAAGAA
Found at i:9181 original size:46 final size:46
Alignment explanation
Indices: 9112--9206 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
9102 AGTAAGTAAA
*
9112 ATAAATAAAAAAATAAAGAAAAATAA-AGA-AAAAGAAGAAAAAATAT
1 ATAAATAAAAAAACAAAGAAAAATAATA-ATAAAA-AAGAAAAAATAT
* *
9158 ATAAATAAAACAAACAAA-TAAAATAATAATAAAAAAGTAAAAATAT
1 ATAAATAAAA-AAACAAAGAAAAATAATAATAAAAAAGAAAAAATAT
9204 ATA
1 ATA
9207 TATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
46 32 0.74
47 11 0.26
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (46 bp):
ATAAATAAAAAAACAAAGAAAAATAATAATAAAAAAGAAAAAATAT
Found at i:9246 original size:41 final size:38
Alignment explanation
Indices: 9180--9271 Score: 130
Period size: 41 Copynumber: 2.3 Consensus size: 38
9170 AACAAATAAA
**
9180 ATAATAATAAAAAAGTAAAAATATATATATATATATAT
1 ATAATAATAAAAAAAAAAAAATATATATATATATATAT
9218 ATAATAAATAAAAAAAAAAAATAGTATATATATATATATAT
1 ATAAT-AATAAAAAAAAAAAA-A-TATATATATATATATAT
9259 ATAATTAATAAAA
1 ATAA-TAATAAAA
9272 CTGATAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
38 5 0.10
39 13 0.27
40 1 0.02
41 28 0.58
42 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (38 bp):
ATAATAATAAAAAAAAAAAAATATATATATATATATAT
Found at i:9335 original size:27 final size:25
Alignment explanation
Indices: 9279--9336 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
9269 AAACTGATAA
* *
9279 TAAAAAAAATAATATATATATAATC
1 TAAAAAAAATAAAATATATATAAAC
* *
9304 TAAAAAAATTAAAATATATACTAAAG
1 TAAAAAAAATAAAATATATA-TAAAC
9330 TAAAAAA
1 TAAAAAA
9337 GAAAATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (25 bp):
TAAAAAAAATAAAATATATATAAAC
Found at i:9341 original size:24 final size:23
Alignment explanation
Indices: 9282--9359 Score: 59
Period size: 25 Copynumber: 3.3 Consensus size: 23
9272 CTGATAATAA
* * * *
9282 AAAAAATAATATATATATAATCT
1 AAAAAAGAAAATATATAAAATGT
*
9305 AAAAAAATTAAAATATATACTAAA-GT
1 -AAAAAA-GAAAATATATA--AAATGT
*
9331 AAAAAAGAAAATGTATAAAATGT
1 AAAAAAGAAAATATATAAAATGT
9354 AAAAAA
1 AAAAAA
9360 AATATTACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 3 0.07
23 8 0.18
24 15 0.33
25 16 0.36
26 1 0.02
27 2 0.04
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (23 bp):
AAAAAAGAAAATATATAAAATGT
Found at i:10529 original size:39 final size:36
Alignment explanation
Indices: 10461--10550 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 36
10451 CGAGGGTTTG
* *
10461 GTGT-TTCAAGAGAAATATTTTCAAAGGGTTTTTGTGT
1 GTGTGTTCAAGAGAAACAATTTCAAAGGGTTTTT-T-T
* *
10498 GTGTGTCTCAAGAGAAACAATTTCGAGGGGTTTTTTT
1 GTGTGT-TCAAGAGAAACAATTTCAAAGGGTTTTTTT
10535 GTGT-TTCAAGAGAAAC
1 GTGTGTTCAAGAGAAAC
10551 TGTCTCAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 11 0.23
36 1 0.02
37 9 0.19
38 2 0.04
39 24 0.51
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (36 bp):
GTGTGTTCAAGAGAAACAATTTCAAAGGGTTTTTTT
Found at i:10585 original size:36 final size:36
Alignment explanation
Indices: 10536--10732 Score: 205
Period size: 36 Copynumber: 5.6 Consensus size: 36
10526 GGTTTTTTTG
* *
10536 TGTTTCAAGAGAAACTGTCTCAATA-AGGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGA-GACAAAATT
** * *
10572 TGTTTCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
10608 TGTTTCAA-GGAAAATATATTC-A-A-AG----ATTT
1 TGTTTCAAGGGAAACTGT-CTCAAGAGAGACAAAATT
10637 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
10673 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATT
10710 TGTTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAGGGAAACTGTCTCAA
10733 AACTCATTTT
Statistics
Matches: 135, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
29 13 0.10
30 8 0.06
31 1 0.01
32 2 0.01
33 2 0.01
35 7 0.05
36 75 0.56
37 27 0.20
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:10750 original size:101 final size:101
Alignment explanation
Indices: 10536--10719 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
10526 GGTTTTTTTG
* * *
10536 TGTTTCAAGAGAAACTGTCTCAATAAGGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAAGGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGA
* **
10601 CGAAATTTGTTTCAAGGAAAATATATTCAAAGATTT
66 CGAAATTTGTTTCAAGGAAAATATACTCAAAGATCA
**
10637 TGTTTCAAGGGAAACTGTCTCAAG-AGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAAG-GACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAG
10701 AC-AAGATTTTGTTTCAAGG
65 ACGAA-A-TTTGTTTCAAGG
10720 GAAACTGTCT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 59 0.79
102 12 0.16
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (101 bp):
TGTTTCAAGGGAAACTGTCTCAAGAAGGACAAAATTTGTTTCAAAAGAAACTGTCTCAAGAGAGA
CGAAATTTGTTTCAAGGAAAATATACTCAAAGATCA
Found at i:10884 original size:37 final size:37
Alignment explanation
Indices: 10808--10884 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
10798 GTTTCAATAA
* * ** *
10808 AAACTATCTCAAGGGAGACAAAATTTTGTTCCAAGGG
1 AAACTATCTCAAGAGAGACAAAAATTAATTCCAAAGG
* *
10845 AAACTATCTCAAGAGAGATAAAAATTAATTTCAAAGG
1 AAACTATCTCAAGAGAGACAAAAATTAATTCCAAAGG
10882 AAA
1 AAA
10885 TGTTTTCAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (37 bp):
AAACTATCTCAAGAGAGACAAAAATTAATTCCAAAGG
Found at i:10892 original size:103 final size:102
Alignment explanation
Indices: 10770--11010 Score: 356
Period size: 103 Copynumber: 2.4 Consensus size: 102
10760 ATATTTTGTG
* * *
10770 TTTCAAGGGAAACGTTTTCAAGGTTTATGTTTCAATAAAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
* *
10835 GTTCCAAGGGAAACTATCTCAAGAGAGATAAAAATTAA
66 GTTCCAAGGGAAACTACCCCAAGAGAGAT-AAAATTAA
* * * * *
10873 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGGGACAAAGTTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
* * *
10938 GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
66 GTTCCAAGGGAAACTACCCCAAGAGAGATAAAATTAA
10975 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
11011 GGAGACAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 42 0.34
103 82 0.66
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTT
GTTCCAAGGGAAACTACCCCAAGAGAGATAAAATTAA
Found at i:11010 original size:87 final size:87
Alignment explanation
Indices: 10919--11097 Score: 286
Period size: 87 Copynumber: 2.1 Consensus size: 87
10909 AGAAACTGTC
* * * * *
10919 TCAAGGGGGACAAAGTTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
10984 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* * *
11006 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
11071 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
11093 TCAAG
1 TCAAG
11098 AGAAACTGTC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTT
Found at i:11197 original size:189 final size:190
Alignment explanation
Indices: 10816--11202 Score: 487
Period size: 189 Copynumber: 2.0 Consensus size: 190
10806 AAAAACTATC
* *
10816 TCAAGGGAGACAAAATTTTGTTCCAAGGGAAACTATCTCAAGAGAGATAAAAATTAATTTCAAAG
1 TCAAGGGAGACAAAATTTCGTTCCAAAGGAAACTATCTCAAGAGAGATAAAAATTAATTTCAAAG
* * * * *
10881 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGGGACAAAGTTTTGTTTCAAG
66 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAA
* * * * * *
10946 GGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTT
131 AGAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGGAAAAGTATTCAATATTTATGTT
* ** * *
11006 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAATCGAGAT-AAAATTCATTTCAAGG
1 TCAAGGGAGACAAAATTTCGTTCCAAAGGAAACTATCTCAAGAGAGATAAAAATTAATTTCAAAG
11070 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAA
66 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAA
** * * * *
11135 AGAAAATGTCTCAAGGGAGACGAAA-TTAGTTTCAA-TGAAACCAG-ATTCAAATATTT-TGTT
131 AGAAAATACCCCAAGCGAGACAAAATTTA-TTTCAAGGGAAA--AGTATTC-AATATTTATGTT
11195 TCAAGGGA
1 TCAAGGGA
11203 AACTTGAAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
188 7 0.04
189 112 0.66
190 50 0.30
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (190 bp):
TCAAGGGAGACAAAATTTCGTTCCAAAGGAAACTATCTCAAGAGAGATAAAAATTAATTTCAAAG
GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAA
AGAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGGAAAAGTATTCAATATTTATGTT
Found at i:11541 original size:107 final size:106
Alignment explanation
Indices: 11403--11678 Score: 385
Period size: 107 Copynumber: 2.6 Consensus size: 106
11393 CTGGAACTAA
* * * *
11403 GAAATTGTTTGTTGACAGCCAGCC-GCTCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
1 GAAATTGCTTGTTGACAACCAACCATC-CCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
11467 CAATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAATTGG
65 CAATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAATTGG
* *
11509 GAAATTGCTTGTTTACAACCCAACCATCCCTTCGTTGTGAAGTTG-GACTTGTGTTTTCTCGAGT
1 GAAATTGCTTGTTGACAA-CCAACCATCCCTTCGTTGTGAAGTTGAG-CTTGTGTTGTCTCGAGT
* *
11573 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
64 CCAATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAATTGG
* ** * * *
11616 GAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCTCGAGT
1 GAAATTGCTTGTTGACAACCAACCATCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
11679 GGCACGATAT
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
106 54 0.36
107 95 0.63
108 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (106 bp):
GAAATTGCTTGTTGACAACCAACCATCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
AATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAATTGG
Found at i:13457 original size:10 final size:9
Alignment explanation
Indices: 13444--13505 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
13434 TTTTCTTCAA
*
13444 TTTTCCTTT
1 TTTTTCTTT
13453 TTTTTCTTT
1 TTTTTCTTT
*
13462 TTTATTCTCT
1 TTT-TTCTTT
**
13472 TTGCT-TTT
1 TTTTTCTTT
*
13480 TTTTTCTCT
1 TTTTTCTTT
13489 TTTTTCTTT
1 TTTTTCTTT
13498 TTTGTTCT
1 TTT-TTCT
13506 GATTGAATCT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 5 0.12
9 25 0.61
10 11 0.27
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:13459 original size:27 final size:27
Alignment explanation
Indices: 13429--13492 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
13419 GCATATTGTC
* *
13429 TTCTTTTTTCTTCAATTTTCCTTTTTT
1 TTCTTTTTTATTCAATTTGCCTTTTTT
** *
13456 TTCTTTTTTATTCTCTTTGCTTTTTTT
1 TTCTTTTTTATTCAATTTGCCTTTTTT
13483 TTCTCTTTTT
1 TTCT-TTTTT
13493 TCTTTTTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (27 bp):
TTCTTTTTTATTCAATTTGCCTTTTTT
Found at i:13497 original size:19 final size:19
Alignment explanation
Indices: 13452--13505 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
13442 AATTTTCCTT
13452 TTTTTTCTTTTTTATTCTC
1 TTTTTTCTTTTTTATTCTC
* *
13471 --TTTGCTTTTTTTTTCTC
1 TTTTTTCTTTTTTATTCTC
*
13488 TTTTTTCTTTTTTGTTCT
1 TTTTTTCTTTTTTATTCT
13506 GATTGAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 15 0.52
19 14 0.48
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTTTCTTTTTTATTCTC
Found at i:16701 original size:9 final size:9
Alignment explanation
Indices: 16631--16708 Score: 51
Period size: 9 Copynumber: 8.9 Consensus size: 9
16621 ATAGTACGTA
16631 AAATAAATAT
1 AAATAAA-AT
16641 AAA-AAAAT
1 AAATAAAAT
*
16649 AAA-GAAAT
1 AAATAAAAT
*
16657 AAAGAAAA-
1 AAATAAAAT
*
16665 AGAAGAAAA-
1 A-AATAAAAT
16674 AAATATAAAT
1 AAATA-AAAT
16684 AAA-ACAAAT
1 AAATA-AAAT
16693 AAATAAAAT
1 AAATAAAAT
16702 -AATAAAA
1 AAATAAAA
16709 AAGTAAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
8 23 0.39
9 29 0.49
10 7 0.12
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.15
Consensus pattern (9 bp):
AAATAAAAT
Found at i:16709 original size:9 final size:9
Alignment explanation
Indices: 16632--16722 Score: 50
Period size: 9 Copynumber: 10.4 Consensus size: 9
16622 TAGTACGTAA
*
16632 AATAAATAT
1 AATAAAAAT
16641 AA-AAAAAT
1 AATAAAAAT
*
16649 AA-AGAAAT
1 AATAAAAAT
* *
16657 AAAGAAAAAG
1 -AATAAAAAT
*
16667 AAGAAAAA-
1 AATAAAAAT
*
16675 AATATAAAT
1 AATAAAAAT
16684 AA-AACAAAT
1 AATAA-AAAT
16693 AA-ATAAAAT
1 AATA-AAAAT
16702 AATAAAAA-
1 AATAAAAAT
*
16710 AGTAAAAAT
1 AATAAAAAT
16719 AATA
1 AATA
16723 TATATATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
8 26 0.39
9 34 0.52
10 6 0.09
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.16
Consensus pattern (9 bp):
AATAAAAAT
Found at i:16709 original size:44 final size:43
Alignment explanation
Indices: 16630--16761 Score: 112
Period size: 43 Copynumber: 3.0 Consensus size: 43
16620 AATAGTACGT
* *
16630 AAAATA-AATATAAAAAAATAAA-GAAATAAAGAAAAAGAAG-AAA
1 AAAATATAA-ATAAAAAAATAAATAAAAT-AATAAAAA-AAGTAAA
16673 AAAATATAAATAAAACAAATAAATAAAATAAT-AAAAAAGTAAA
1 AAAATATAAATAAAA-AAATAAATAAAATAATAAAAAAAGTAAA
* * *
16716 AATAATATATATATATATATATAAATAAAA-AATAAAAAATAGTAAA
1 AA-AATATA-A-ATAAAAAAATAAATAAAATAATAAAAAA-AGTAAA
16762 TATATATATA
Statistics
Matches: 75, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.04
43 21 0.28
44 20 0.27
45 21 0.28
46 10 0.13
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (43 bp):
AAAATATAAATAAAAAAATAAATAAAATAATAAAAAAAGTAAA
Found at i:16725 original size:2 final size:2
Alignment explanation
Indices: 16720--16841 Score: 71
Period size: 2 Copynumber: 63.5 Consensus size: 2
16710 AGTAAAAATA
* * * * * *
16720 AT AT AT AT AT AT AT AT AT AA AT A- AA AA AT A- AA AA AT AGT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
16761 AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T A- AT A- AA ACT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T -AT
* *
16802 A- AT A- AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16841 A
1 A
16842 ATCTAAAAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
1 8 0.08
2 85 0.88
3 3 0.03
4 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (2 bp):
AT
Found at i:16754 original size:37 final size:37
Alignment explanation
Indices: 16702--16775 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
16692 TAAATAAAAT
*
16702 AATAAAAAAGTAAAAATAATATATATATATATATATA
1 AATAAAAAAGTAAAAATAATAAATATATATATATATA
*
16739 AATAAAAAA-TAAAAAATAGTAAATATATATATATATA
1 AATAAAAAAGT-AAAAATAATAAATATATATATATATA
16776 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (37 bp):
AATAAAAAAGTAAAAATAATAAATATATATATATATA
Found at i:17664 original size:2 final size:2
Alignment explanation
Indices: 17657--17714 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
17647 ATCATATAAG
17657 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
17699 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
17715 GCATGTATGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17890 original size:2 final size:2
Alignment explanation
Indices: 17883--17914 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17873 TCTAATCATA
17883 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
17915 TATTTTTTGT
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):
AT
Found at i:24397 original size:12 final size:12
Alignment explanation
Indices: 24379--24411 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24369 ATTTTATAAT
24379 CCCATGTATTAG
1 CCCATGTATTAG
*
24391 TCCATGTATTAG
1 CCCATGTATTAG
24403 CCCATGTAT
1 CCCATGTAT
24412 AGTACTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (12 bp):
CCCATGTATTAG
Found at i:24558 original size:38 final size:38
Alignment explanation
Indices: 24515--24627 Score: 129
Period size: 38 Copynumber: 3.0 Consensus size: 38
24505 CTCGTATAAA
*
24515 CTGTGTCCCGAAGGACCTATCATCCC-ACAAGATGTCAT
1 CTGTGTCCCGAAGGACCTATCATCCCGA-AAGATGTAAT
* * *
24553 TTGTGTCCCGTAGGACCTATCATCCCGAAGGATGTAAT
1 CTGTGTCCCGAAGGACCTATCATCCCGAAAGATGTAAT
* * * * *
24591 CTGTGTCCCGGAGGACTTGTTATCCCGAAGGATGTAA
1 CTGTGTCCCGAAGGACCTATCATCCCGAAAGATGTAA
24628 CCCTCGACTC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 64 0.98
39 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (38 bp):
CTGTGTCCCGAAGGACCTATCATCCCGAAAGATGTAAT
Found at i:25698 original size:9 final size:9
Alignment explanation
Indices: 25676--25747 Score: 72
Period size: 9 Copynumber: 8.0 Consensus size: 9
25666 CTTAAATTTT
*
25676 AAATACCAG
1 AAATTCCAG
*
25685 AAATTCTAG
1 AAATTCCAG
*
25694 TAATTCCAG
1 AAATTCCAG
**
25703 AAATTATAG
1 AAATTCCAG
25712 AAATTCCAG
1 AAATTCCAG
* *
25721 AAATTCTAT
1 AAATTCCAG
*
25730 AAATTCAAG
1 AAATTCCAG
25739 AAATTCCAG
1 AAATTCCAG
25748 TAATGGAATT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (9 bp):
AAATTCCAG
Found at i:25704 original size:18 final size:18
Alignment explanation
Indices: 25681--25751 Score: 90
Period size: 18 Copynumber: 3.9 Consensus size: 18
25671 ATTTTAAATA
25681 CCAGAAATTCTAGTAATT
1 CCAGAAATTCTAGTAATT
* *
25699 CCAGAAATTATAGAAATT
1 CCAGAAATTCTAGTAATT
25717 CCAGAAATTCTA-TAAATT
1 CCAGAAATTCTAGT-AATT
* *
25735 CAAGAAATTCCAGTAAT
1 CCAGAAATTCTAGTAAT
25752 GGAATTATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 44 0.98
19 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (18 bp):
CCAGAAATTCTAGTAATT
Found at i:26994 original size:30 final size:30
Alignment explanation
Indices: 26958--27022 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
26948 ATTTTGGTCC
*
26958 CTAAACTTT-TCAAAGTTTATACTTTAGTCA
1 CTAAACTTTATCAAA-TTTATAATTTAGTCA
*
26988 CTAAACTTTATCAAATTTATAATTTGGTCA
1 CTAAACTTTATCAAATTTATAATTTAGTCA
27018 CTAAA
1 CTAAA
27023 TAAATCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (30 bp):
CTAAACTTTATCAAATTTATAATTTAGTCA
Found at i:28995 original size:51 final size:51
Alignment explanation
Indices: 28755--28995 Score: 209
Period size: 51 Copynumber: 4.7 Consensus size: 51
28745 AAGATTGCTC
* **
28755 TTGAAGAGGAAATTGCTGGAATTGAAGTTGTAAACACTGTGGACACTGGTA
1 TTGAAGAGGAAAATATTGGAATTGAAGTTGTAAACACTGTGGACACTGGTA
* * * * *
28806 TTGAAGA-GAAAATTATTGAAATTGAAGCTGTAAAGACTGTGGACACACTGATC
1 TTGAAGAGGAAAA-TATTGGAATTGAAGTTGTAAACACTGTGG--ACACTGGTA
* ** * * * * *
28859 TTGAAGAGGAAAATAATAAAATTGAAGTTTTAAAC-CGTGTAGAAATTGGTT
1 TTGAAGAGGAAAATATTGGAATTGAAGTTGTAAACAC-TGTGGACACTGGTA
* ***
28910 TTGAAGAGGAAAATATTAGAATTGAAGCCCTAAACACTGTGGACACTGGTA
1 TTGAAGAGGAAAATATTGGAATTGAAGTTGTAAACACTGTGGACACTGGTA
* * *
28961 TTGAAGAGAAAAATGTTGGGAA-TGATGTTGTAAAC
1 TTGAAGAGGAAAATATT-GGAATTGAAGTTGTAAAC
28996 TATGTGGTCT
Statistics
Matches: 149, Mismatches: 34, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
50 4 0.03
51 100 0.67
52 5 0.03
53 35 0.23
54 5 0.03
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (51 bp):
TTGAAGAGGAAAATATTGGAATTGAAGTTGTAAACACTGTGGACACTGGTA
Found at i:33800 original size:21 final size:21
Alignment explanation
Indices: 33776--33823 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
33766 TTTTAAGCTC
33776 GAGTCTTGAGATTGCATAAAT
1 GAGTCTTGAGATTGCATAAAT
33797 GAGTCTTGAGATTGCATAAAT
1 GAGTCTTGAGATTGCATAAAT
33818 GAGTCT
1 GAGTCT
33824 CAAGACTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (21 bp):
GAGTCTTGAGATTGCATAAAT
Found at i:36587 original size:22 final size:20
Alignment explanation
Indices: 36562--36601 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
36552 GTTTTGGTAT
36562 ATATAGTTTTCTATTCTTTTTA
1 ATATAGTTTTC-ATT-TTTTTA
*
36584 ATATATTTTTCATTTTTT
1 ATATAGTTTTCATTTTTT
36602 CTAAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
ATATAGTTTTCATTTTTTTA
Found at i:36878 original size:19 final size:20
Alignment explanation
Indices: 36850--36894 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
36840 ACATGATCTG
*
36850 AAATAATATTTT-TATTAA-A
1 AAATATTATTTTAT-TTAATA
36869 AAATATTATTTTATTTAATA
1 AAATATTATTTTATTTAATA
36889 AAATAT
1 AAATAT
36895 GAATTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATTATTTTATTTAATA
Found at i:48560 original size:7 final size:7
Alignment explanation
Indices: 48548--48572 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48538 GCATCAACTG
48548 CAAAGAC
1 CAAAGAC
48555 CAAAGAC
1 CAAAGAC
48562 CAAAGAC
1 CAAAGAC
48569 CAAA
1 CAAA
48573 ACTTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.12, T:0.00
Consensus pattern (7 bp):
CAAAGAC
Found at i:49256 original size:23 final size:23
Alignment explanation
Indices: 49192--49279 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
49182 TTTTTTTCTT
* * *
49192 AACAAACATGTTCGCAAACACTA
1 AACAAACATGTTCACGAACGCTA
* * * **
49215 AACGAATATATTCGTGAACGCTA
1 AACAAACATGTTCACGAACGCTA
*
49238 AACAAACATGTTCACGAACGTTA
1 AACAAACATGTTCACGAACGCTA
** *
49261 AATGAATATGTTCACGAAC
1 AACAAACATGTTCACGAAC
49280 ATTTAAATGA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (23 bp):
AACAAACATGTTCACGAACGCTA
Found at i:49290 original size:24 final size:23
Alignment explanation
Indices: 49242--49303 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
49232 ACGCTAAACA
49242 AACATGTTCACGAACGTTAAATG
1 AACATGTTCACGAACGTTAAATG
* *
49265 AATATGTTCACGAACATTTAAATG
1 AACATGTTCACGAAC-GTTAAATG
*
49289 AACATATTCAC-AACG
1 AACATGTTCACGAACG
49304 AATACGTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (23 bp):
AACATGTTCACGAACGTTAAATG
Found at i:50374 original size:29 final size:29
Alignment explanation
Indices: 50332--50422 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
50322 TTCTACAGCA
50332 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
50361 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
*
50390 ACCTTGGAGGTCGCCATGGCATCCGAGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
50419 ACCT
1 ACCT
50423 GTGTGGTGTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.15, C:0.32, G:0.35, T:0.18
Consensus pattern (29 bp):
ACCTTGGAGGTCGCCATGGCATCCGGGCG
Found at i:50540 original size:46 final size:46
Alignment explanation
Indices: 50482--50574 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
50472 GTATTGGAGC
* *
50482 ATGCATGGGGGAGTTGTGGGATGCATGTTGTGCATGGGACGTGGGA
1 ATGCATGAGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
*
50528 ATGCATGAGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTTGGA
1 ATGCATGAGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
50574 A
1 A
50575 CTGTGCATGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.19, C:0.10, G:0.45, T:0.26
Consensus pattern (46 bp):
ATGCATGAGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
Found at i:51145 original size:21 final size:21
Alignment explanation
Indices: 51120--51163 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
51110 AATCTAGTTA
51120 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
51141 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
51162 AT
1 AT
51164 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:51173 original size:28 final size:29
Alignment explanation
Indices: 51114--51199 Score: 106
Period size: 28 Copynumber: 3.0 Consensus size: 29
51104 AACTAAAATC
* *
51114 TAGTTAATTAGTTT--GTTAGTATAAATTAT
1 TAGTTTATTAGTTTAAGTTA-TATATA-TAT
*
51143 TAGTTTGTTAGTTTAAGTTATAT-TATAT
1 TAGTTTATTAGTTTAAGTTATATATATAT
51171 TAGTTTATTAGTTTAAGTTATATATATAT
1 TAGTTTATTAGTTTAAGTTATATATATAT
51200 ATAAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 25 0.50
29 18 0.36
30 3 0.06
31 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.55
Consensus pattern (29 bp):
TAGTTTATTAGTTTAAGTTATATATATAT
Found at i:51228 original size:46 final size:42
Alignment explanation
Indices: 51162--51270 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 42
51152 AGTTTAAGTT
51162 ATATTATATTAGTTTATTAGTTTAAGTTATATATATATATAAAAAA
1 ATATTA-ATTAGTTTATTAGTTTAAGTTAT-TA-A-ATATAAAAAA
* *
51208 TTAGTTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAA
1 ATA-TTAATTAGTTTATTAGTTTAAGTTATTAAATATAAAAAA
* *
51251 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTATTAGT
51271 GTCTTTAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 15 0.26
43 12 0.21
44 1 0.02
45 2 0.04
46 24 0.42
47 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (42 bp):
ATATTAATTAGTTTATTAGTTTAAGTTATTAAATATAAAAAA
Found at i:51748 original size:20 final size:21
Alignment explanation
Indices: 51704--51748 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
51694 AAATATTGTG
**
51704 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
51725 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
51745 TTTA
1 TTTA
51749 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:51957 original size:20 final size:21
Alignment explanation
Indices: 51918--51962 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
51908 AATCATTATT
*
51918 ATTAGTAATAAATACTAAATG
1 ATTAGTAATAAATACTAAATC
51939 ATTAGT-ATCAAAT-CTAAATC
1 ATTAGTAAT-AAATACTAAATC
51959 ATTA
1 ATTA
51963 AATATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (21 bp):
ATTAGTAATAAATACTAAATC
Found at i:54978 original size:26 final size:26
Alignment explanation
Indices: 54951--55291 Score: 246
Period size: 26 Copynumber: 13.6 Consensus size: 26
54941 GATGATTTAG
* *
54951 TAATGATTTGATAATAATCATTACAG
1 TAATGATTTGATAATAATCATTATAA
54977 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
55003 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
55029 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
55052 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
*
55075 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
55101 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
55127 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * * * *
55153 AAATAATTTAATAAT-GT-TTTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
55176 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
55199 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
55225 TAATGATTTTATAATAATTATT-TAG
1 TAATGATTTGATAATAATCATTATAA
* * *
55250 TAATTATTT-ATAATAATGATTTAATAC
1 TAATGATTTGATAATAATCA-TT-ATAA
*
55277 TAATGATTTAATAAT
1 TAATGATTTGATAAT
55292 TATTACTAAT
Statistics
Matches: 250, Mismatches: 45, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
21 5 0.02
22 7 0.03
23 24 0.10
24 23 0.09
25 27 0.11
26 147 0.59
27 12 0.05
28 5 0.02
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:55113 original size:124 final size:124
Alignment explanation
Indices: 54893--55291 Score: 669
Period size: 124 Copynumber: 3.2 Consensus size: 124
54883 ATGTATTTAT
54893 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
54958 TTGATAATAATCATTACAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
55017 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
55082 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
55141 TAATCATTATAAAAATAATTTAATAATGTTTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * *
55206 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTAATTATTTA-TAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
*
55263 TAATGATT-TAATACTAATGATTTAATAAT
1 TAATCATTATAA-A--AATGATTTAATAAT
55292 TATTACTAAT
Statistics
Matches: 262, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
121 3 0.01
122 11 0.04
123 11 0.04
124 237 0.90
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:55263 original size:38 final size:37
Alignment explanation
Indices: 54988--55304 Score: 147
Period size: 38 Copynumber: 8.5 Consensus size: 37
54978 AATGATTTGA
* * *
54988 TAATAATCATTATAATAATGATTTAGTAATAATCATT
1 TAATAATTATTATAATAATGATTTAATAATAATGATT
* * *
55025 ATAAAAATGATT-TAATAATGATTTAAATATTTAATGA-T
1 -TAATAATTATTATAATAATGATTT-AATA-ATAATGATT
* * * * *
55063 T--TGATGATT-TAGTAATGATTTGATAATAATCATT
1 TAATAATTATTATAATAATGATTTAATAATAATGATT
* * *
55097 ATAGTAATGATTTGATAATAATCA-TT-ATAATAATGATTT
1 -TAATAATTA-TT-ATAATAATGATTTAATAATAATGA-TT
* * * *
55136 AGTAATAATCATTATAAAAAT-AATT--TAATAATGTTT
1 --TAATAATTATTATAATAATGATTTAATAATAATGATT
* * * * * *
55172 TAAATATTTAATGAT-TTGATGATTTAGTAATGAT--TT
1 T-AATAATT-ATTATAATAATGATTTAATAATAATGATT
* * *
55208 GATAATAATCATTATAATAATGATTTTATAATAATTATT
1 --TAATAATTATTATAATAATGATTTAATAATAATGATT
* *
55247 TAGTAATTATTTATAATAATGATTTAATACTAATGATT
1 TAATAATTA-TTATAATAATGATTTAATAATAATGATT
55285 TAATAATTATTACTAATAAT
1 TAATAATTATTA-TAATAAT
55305 TATAAAATAC
Statistics
Matches: 213, Mismatches: 42, Indels: 48
0.70 0.14 0.16
Matches are distributed among these distances:
33 5 0.02
34 5 0.02
35 25 0.12
36 15 0.07
37 56 0.26
38 80 0.38
39 13 0.06
40 14 0.07
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (37 bp):
TAATAATTATTATAATAATGATTTAATAATAATGATT
Found at i:55314 original size:38 final size:38
Alignment explanation
Indices: 55199--55317 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
55189 GATGATTTAG
* * *** *
55199 TAATGATTTGATAATAATCATTATAATAATGATTTTATAA
1 TAATGATTTAATAATTAT--TTATAATAATGATAAAATAC
* * **
55239 TAATTATTTAGTAATTATTTATAATAATGATTTAATAC
1 TAATGATTTAATAATTATTTATAATAATGATAAAATAC
*
55277 TAATGATTTAATAATTA-TTACTAATAATTATAAAATAC
1 TAATGATTTAATAATTATTTA-TAATAATGATAAAATAC
55315 TAA
1 TAA
55318 CAAATGAGTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.04
38 50 0.75
40 14 0.21
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (38 bp):
TAATGATTTAATAATTATTTATAATAATGATAAAATAC
Found at i:56027 original size:29 final size:29
Alignment explanation
Indices: 55994--56126 Score: 214
Period size: 29 Copynumber: 4.6 Consensus size: 29
55984 TCGTGAGCTA
**
55994 GGACTACATGGCGACCTACTTGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
56023 GGACTACATGGCGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
56052 GGACTACATGGCGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
*
56081 GGACTACATGGCGACCTACAAGGTCGCCCA
1 GGACTACATGGCGACCTACAAGGTCG-CCG
*
56111 GG-CTGCATGGCGACCT
1 GGACTACATGGCGACCT
56127 CTCCATTGGC
Statistics
Matches: 99, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 95 0.96
30 4 0.04
ACGTcount: A:0.22, C:0.32, G:0.31, T:0.16
Consensus pattern (29 bp):
GGACTACATGGCGACCTACAAGGTCGCCG
Found at i:56177 original size:28 final size:28
Alignment explanation
Indices: 56145--56201 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
56135 GCTCGTATGA
*
56145 CTCGTCTAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
56173 CTCGTATAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
56201 C
1 C
56202 ATTGGCTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (28 bp):
CTCGTATAAGACTGCATGGCGACCTCTC
Found at i:56233 original size:20 final size:20
Alignment explanation
Indices: 56204--56242 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56194 ACCTCTCCAT
56204 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
56224 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
56243 GTCACCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:56256 original size:21 final size:21
Alignment explanation
Indices: 56230--56276 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
56220 TATATGGCTT
56230 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
56251 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
56272 GTATG
1 GTATG
56277 TCGCCTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:56262 original size:9 final size:9
Alignment explanation
Indices: 56204--56243 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
56194 ACCTCTCCAT
56204 TGGCTCGTA
1 TGGCTCGTA
56213 TGGCTCGTATA
1 TGGCTCG--TA
*
56224 TGGCTTGTA
1 TGGCTCGTA
56233 TGGCTCGTA
1 TGGCTCGTA
56242 TG
1 TG
56244 TCACCCCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:58926 original size:10 final size:10
Alignment explanation
Indices: 58911--58935 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58901 TTTCACGTAT
58911 TCTTCGAAAA
1 TCTTCGAAAA
58921 TCTTCGAAAA
1 TCTTCGAAAA
58931 TCTTC
1 TCTTC
58936 AAACTTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (10 bp):
TCTTCGAAAA
Found at i:61213 original size:21 final size:21
Alignment explanation
Indices: 61189--61236 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
61179 TTTTAAGCTC
61189 GAGTCTTGAGATTGCATAAAT
1 GAGTCTTGAGATTGCATAAAT
61210 GAGTCTTGAGATTGCATAAAT
1 GAGTCTTGAGATTGCATAAAT
61231 GAGTCT
1 GAGTCT
61237 CAAGACTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (21 bp):
GAGTCTTGAGATTGCATAAAT
Found at i:64010 original size:22 final size:20
Alignment explanation
Indices: 63985--64024 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
63975 GTTTTGGTAT
63985 ATATAGTTTTCTATTCTTTTTA
1 ATATAGTTTTC-ATT-TTTTTA
*
64007 ATATATTTTTCATTTTTT
1 ATATAGTTTTCATTTTTT
64025 CTAAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
ATATAGTTTTCATTTTTTTA
Found at i:68324 original size:20 final size:21
Alignment explanation
Indices: 68280--68324 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
68270 AAATATTGTG
**
68280 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
68301 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
68321 TTTA
1 TTTA
68325 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:68614 original size:26 final size:25
Alignment explanation
Indices: 68585--68643 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
68575 AAATCATCTT
*
68585 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
68611 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
68637 ATTATTA
1 ATTATTA
68644 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:71556 original size:26 final size:26
Alignment explanation
Indices: 71529--71869 Score: 255
Period size: 26 Copynumber: 13.6 Consensus size: 26
71519 GATGATTTAG
* *
71529 TAATGATTTGATAATAATCATTACAG
1 TAATGATTTGATAATAATCATTATAA
71555 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
71581 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
71607 AAATGATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
71630 TATTTA-ATGAT-TTGATGATT-TGA
1 TAATGATTTGATAATAATCATTATAA
*
71653 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
71679 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
71705 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * * *
71731 AAATGATTTAATAAT-GT-TTTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
71754 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
71777 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
71803 TAATGATTTTATAATAATTATT-TAG
1 TAATGATTTGATAATAATCATTATAA
* * *
71828 TAATTATTT-ATAATAATGATTTAATAC
1 TAATGATTTGATAATAATCA-TT-ATAA
*
71855 TAATGATTTAATAAT
1 TAATGATTTGATAAT
71870 TATTACTAAT
Statistics
Matches: 249, Mismatches: 46, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
21 5 0.02
22 7 0.03
23 24 0.10
24 23 0.09
25 27 0.11
26 146 0.59
27 12 0.05
28 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:71691 original size:124 final size:124
Alignment explanation
Indices: 71471--71869 Score: 662
Period size: 124 Copynumber: 3.2 Consensus size: 124
71461 ATGTATTTAT
71471 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
71536 TTGATAATAATCATTACAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
71595 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTT-GATAATGA
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAG-TAATGA
71659 TTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
65 TTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
*
71719 TAATCATTATAAAAATGATTTAATAATGTTTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * *
71784 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTAATTATTTA-TAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
*
71841 TAATGATT-TAATACTAATGATTTAATAAT
1 TAATCATTATAA-A--AATGATTTAATAAT
71870 TATTACTAAT
Statistics
Matches: 262, Mismatches: 8, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
121 3 0.01
122 11 0.04
123 12 0.05
124 235 0.90
125 1 0.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.45
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:71892 original size:38 final size:38
Alignment explanation
Indices: 71777--71895 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
71767 GATGATTTAG
* * *** *
71777 TAATGATTTGATAATAATCATTATAATAATGATTTTATAA
1 TAATGATTTAATAATTAT--TTATAATAATGATAAAATAC
* * **
71817 TAATTATTTAGTAATTATTTATAATAATGATTTAATAC
1 TAATGATTTAATAATTATTTATAATAATGATAAAATAC
*
71855 TAATGATTTAATAATTA-TTACTAATAATTATAAAATAC
1 TAATGATTTAATAATTATTTA-TAATAATGATAAAATAC
71893 TAA
1 TAA
71896 CAAATGAGTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.04
38 50 0.75
40 14 0.21
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (38 bp):
TAATGATTTAATAATTATTTATAATAATGATAAAATAC
Found at i:72622 original size:17 final size:17
Alignment explanation
Indices: 72597--72679 Score: 51
Period size: 17 Copynumber: 5.5 Consensus size: 17
72587 ACATGGCGAC
*
72597 CTACTTGGTCGCCGGGA
1 CTACATGGTCGCCGGGA
*
72614 CTACATGGT-GAC----
1 CTACATGGTCGCCGGGA
*
72626 CTACAAGGTCGCCGGGA
1 CTACATGGTCGCCGGGA
*
72643 CTACATGG-CGAC----
1 CTACATGGTCGCCGGGA
*
72655 CTACAAGGTCGCCGGGA
1 CTACATGGTCGCCGGGA
72672 CTACATGG
1 CTACATGG
72680 CGACCTACAA
Statistics
Matches: 47, Mismatches: 9, Indels: 20
0.62 0.12 0.26
Matches are distributed among these distances:
12 15 0.32
13 5 0.11
16 5 0.11
17 22 0.47
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (17 bp):
CTACATGGTCGCCGGGA
Found at i:72626 original size:29 final size:29
Alignment explanation
Indices: 72581--72714 Score: 207
Period size: 29 Copynumber: 4.6 Consensus size: 29
72571 AGGACTACAT
**
72581 GGGACTACATGGCGACCTACTTGGTCGCC
1 GGGACTACATGGCGACCTACAAGGTCGCC
*
72610 GGGACTACATGGTGACCTACAAGGTCGCC
1 GGGACTACATGGCGACCTACAAGGTCGCC
72639 GGGACTACATGGCGACCTACAAGGTCGCC
1 GGGACTACATGGCGACCTACAAGGTCGCC
72668 GGGACTACATGGCGACCTACAAGGTCGCCC
1 GGGACTACATGGCGACCTACAAGGTCG-CC
* *
72698 AGG-CTGCATGGCGACCT
1 GGGACTACATGGCGACCT
72715 CTCCATTGGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 94 0.96
30 4 0.04
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (29 bp):
GGGACTACATGGCGACCTACAAGGTCGCC
Found at i:72765 original size:28 final size:28
Alignment explanation
Indices: 72733--72789 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
72723 GCTCGTATGA
*
72733 CTCGTCTAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
72761 CTCGTATAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
72789 C
1 C
72790 ATTGGCTCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (28 bp):
CTCGTATAAGACTGCATGGCGACCTCTC
Found at i:72821 original size:20 final size:20
Alignment explanation
Indices: 72792--72830 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
72782 ACCTCTCCAT
72792 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
72812 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
72831 GTCACCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:72844 original size:21 final size:21
Alignment explanation
Indices: 72818--72864 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
72808 TATATGGCTT
72818 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
72839 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
72860 GTATG
1 GTATG
72865 TCGCCTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:72850 original size:9 final size:9
Alignment explanation
Indices: 72792--72831 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
72782 ACCTCTCCAT
72792 TGGCTCGTA
1 TGGCTCGTA
72801 TGGCTCGTATA
1 TGGCTCG--TA
*
72812 TGGCTTGTA
1 TGGCTCGTA
72821 TGGCTCGTA
1 TGGCTCGTA
72830 TG
1 TG
72832 TCACCCCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:79278 original size:23 final size:23
Alignment explanation
Indices: 79214--79278 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
79204 ATTATATGGT
* *
79214 ACTTCGATGTATTTCTACGCGGC
1 ACTTCGGTGCATTTCTACGCGGC
* * *
79237 ACTACGGTGCAATTCTACGTGGC
1 ACTTCGGTGCATTTCTACGCGGC
*
79260 ACTTCGGTGCATTTATACG
1 ACTTCGGTGCATTTCTACG
79279 AGCTGTGTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (23 bp):
ACTTCGGTGCATTTCTACGCGGC
Found at i:84945 original size:44 final size:44
Alignment explanation
Indices: 84892--85315 Score: 501
Period size: 44 Copynumber: 9.6 Consensus size: 44
84882 CTGTTTTCAT
*
84892 CAGGCTCCTCTGTTATGTGCAAGGGTAAGTCCTTACCGTTACCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
* * ** * *
84936 CAAGCTCCTCTGCTATGTACAAGGGTAAGTCCTTGTCATTATCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
*
84980 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTATCGTTACCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
* * *
85024 AAGGCTCCTCTGTTATGTGCAAGGGTAAGTCCTTACCGTTACAG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
* **
85068 CATGCTCCTCTATTATGTGCAAGGGTAAGTCCTTACCGTTACCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
* * * * *
85112 TAGGCTCCTTTTCTATGTGCAAGGATAAGTCCTTACCGTTTCC-
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
*
85155 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCATTTACCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACC-GTTACCG
* * * *
85200 CAGGCTCCTTTGCTATGTGCAAGGGTAAGACTTTACCGTTTCC-
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
** * * * ****
85243 CAGGCTTTTTTGCTATGTGCAAGGGTAAGACCTTACCATTTTTA
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
* *
85287 CATGCTCCTCTGCTTTGTGCATAGGGTAA
1 CAGGCTCCTCTGCTATGTGCA-AGGGTAA
85316 ATATGTTTTA
Statistics
Matches: 327, Mismatches: 49, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
43 70 0.21
44 216 0.66
45 41 0.13
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (44 bp):
CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTACCG
Found at i:95743 original size:21 final size:21
Alignment explanation
Indices: 95700--95792 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
95690 TTTTCCCAAT
** *
95700 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
95720 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
** *
95741 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
95761 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
95782 TCGCAATGCGA
1 TCGCAATGCGA
95793 TACTTACTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.47
21 32 0.53
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:95745 original size:41 final size:41
Alignment explanation
Indices: 95700--95792 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
95690 TTTTCCCAAT
95700 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
95741 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
95782 TCGCAATGCGA
1 TCGCAATGCGA
95793 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:95805 original size:41 final size:41
Alignment explanation
Indices: 95719--95853 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
95709 GAATAAGTAA
** *
95719 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
*
95760 ATCGCAATGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
95801 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
95842 TTCGCAACGCGA
1 ATCGCAACGCGA
95854 TTTACATAGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:95827 original size:21 final size:20
Alignment explanation
Indices: 95700--95828 Score: 66
Period size: 20 Copynumber: 6.3 Consensus size: 20
95690 TTTTCCCAAT
*
95700 TCGCAATGCG-AATAAGTAAA
1 TCGCAATGCGAAATAA-AAAA
* * **
95720 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAAAT-AAAAAA
*
95741 TCGCAATGCG-AATAAGTAAA
1 TCGCAATGCGAAATAA-AAAA
* **
95761 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAAAT-AAAAAA
* * **
95782 TCGCAATGCGATACT-TACTA
1 TCGCAATGCGA-AATAAAAAA
95802 TCGCAATGCGATAATAAAAAA
1 TCGCAATGCGA-AATAAAAAA
95823 TCGCAA
1 TCGCAA
95829 CGAGATACTT
Statistics
Matches: 80, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
20 40 0.50
21 38 0.47
22 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAAATAAAAAA
Found at i:96428 original size:19 final size:19
Alignment explanation
Indices: 96368--96448 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
96358 TTCGAGAATG
96368 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
96388 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
96404 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
96421 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
96440 AAAATCGCA
1 AAAATCGCA
96449 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:96466 original size:19 final size:19
Alignment explanation
Indices: 96444--96608 Score: 152
Period size: 19 Copynumber: 9.1 Consensus size: 19
96434 GAAACCAAAA
*
96444 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
96463 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
96482 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
96496 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
96515 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
96531 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
96548 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
96567 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
96587 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
96607 TC
1 TC
96609 AACCAAAAGA
Statistics
Matches: 123, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
14 20 0.16
15 1 0.01
16 4 0.03
17 4 0.03
18 1 0.01
19 60 0.49
20 32 0.26
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:96508 original size:33 final size:33
Alignment explanation
Indices: 96466--96559 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
96456 TTTCATTTCG
96466 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
96499 CGTTGCGATTTTCATTTCGCGTTGCGATTGTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* * **
96532 GGTCGCGATAGTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
96560 AGTCATTTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:96527 original size:52 final size:51
Alignment explanation
Indices: 96444--96601 Score: 167
Period size: 52 Copynumber: 3.0 Consensus size: 51
96434 GAAACCAAAA
* *
96444 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATTTCGCGTTGCGATT
* * * *
96495 CTCTCGTTGCGATTTTCATTTCGCGTTGCGATTGTC-TGGTCGCGATAGTC-ATT
1 -TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCAT-TTCGCG-TTG-CGATT
** *
96548 TCGCGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATTATCTCGTTGCGATT
1 TCGCGTTGCGATTTTCATTT-CGCGTTGCGATTCTCATT-TCGCGTTGCGATT
96601 T
1 T
96602 TCATTTCAAC
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
51 1 0.01
52 55 0.63
53 25 0.29
54 6 0.07
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (51 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATTTCGCGTTGCGATT
Found at i:98273 original size:12 final size:12
Alignment explanation
Indices: 98256--98280 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98246 TCTTCGGGGA
98256 CTTTTTCTTCTT
1 CTTTTTCTTCTT
98268 CTTTTTCTTCTT
1 CTTTTTCTTCTT
98280 C
1 C
98281 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:98489 original size:24 final size:24
Alignment explanation
Indices: 98455--98508 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
98445 CTGAAACATA
* *
98455 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
98479 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
98503 ATCAAA
1 ATCAAA
98509 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:99592 original size:20 final size:20
Alignment explanation
Indices: 99567--99624 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
99557 ATTCATTTGA
99567 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
99587 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
99607 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
99625 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:99667 original size:14 final size:14
Alignment explanation
Indices: 99648--99704 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
99638 GAAAATCGCA
99648 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
*
99662 TTGCGATTTTCATTTCCA
1 TTGCGATTTTC---T-CG
99680 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
99694 TTGCGATTTTC
1 TTGCGATTTTC
99705 ATTTCGCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.62
15 1 0.03
17 1 0.03
18 12 0.32
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:99716 original size:19 final size:19
Alignment explanation
Indices: 99643--99757 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
99633 GAAATGAAAA
99643 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
99659 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
99676 TC-CATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
99691 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
99708 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
99727 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
99746 TCGCGTTGCGAT
1 TCGCATTGCGAT
99758 AGTCTGTTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 19
0.80 0.02 0.18
Matches are distributed among these distances:
14 22 0.26
15 2 0.02
16 3 0.03
17 5 0.06
18 11 0.13
19 43 0.50
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:99746 original size:38 final size:33
Alignment explanation
Indices: 99643--99757 Score: 160
Period size: 32 Copynumber: 3.4 Consensus size: 33
99633 GAAATGAAAA
99643 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
99676 TC-CATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
*
99708 TCGCATTGCGATTTTCATTTCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
*
99746 TCGCGTTGCGAT
1 TCGCATTGCGAT
99758 AGTCTGTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
32 32 0.43
33 15 0.20
36 3 0.04
38 24 0.32
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:101779 original size:20 final size:19
Alignment explanation
Indices: 101744--101810 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
101734 GAAACTTAAA
101744 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
101763 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
101783 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
101802 ATCGCAACG
1 ATCGCAACG
101811 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:101818 original size:14 final size:14
Alignment explanation
Indices: 101799--101855 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
101789 ATGCGAAATG
101799 AAAATCGCAACGAC
1 AAAATCGCAACGAC
101813 AAAATCGCAACG-C
1 AAAATCGCAACGAC
101826 GAAATGAATCGCAACGAC
1 --AA--AATCGCAACGAC
101844 AAAATCGCAACG
1 AAAATCGCAACG
101856 CGAAACACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.03
14 22 0.58
15 2 0.05
16 2 0.05
17 10 0.26
18 1 0.03
ACGTcount: A:0.47, C:0.26, G:0.18, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:101839 original size:31 final size:32
Alignment explanation
Indices: 101783--101860 Score: 131
Period size: 31 Copynumber: 2.4 Consensus size: 32
101773 GGAAATGGCT
*
101783 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
101816 ATCGCAACGCGAAATG-AATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
101847 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
101861 CACAAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 29 0.66
33 15 0.34
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:101889 original size:19 final size:17
Alignment explanation
Indices: 101867--101962 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
101857 GAAACACAAA
101867 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
101886 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
101902 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
101918 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
101934 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
101951 TCGCATTGCGAT
1 TCGC-TTGCGAT
101963 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:101908 original size:14 final size:14
Alignment explanation
Indices: 101889--101946 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
101879 TTTCATTTCG
101889 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
101903 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
101919 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
101935 CGTTGCGATTTT
1 CGTTGCGATTTT
101947 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:101953 original size:33 final size:33
Alignment explanation
Indices: 101872--101962 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
101862 ACAAATCGCA
101872 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
101905 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
101937 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
101963 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:101981 original size:20 final size:19
Alignment explanation
Indices: 101947--102000 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
101937 TTGCGATTTT
*
101947 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
101966 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
101986 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
102001 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:101999 original size:19 final size:19
Alignment explanation
Indices: 101935--102000 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
101925 GCGATTTTGT
**
101935 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
101954 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
101974 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
101993 TGTTGCGA
1 CGTTGCGA
102001 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:102495 original size:18 final size:18
Alignment explanation
Indices: 102469--102513 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
102459 GTCGATCAGA
* *
102469 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
102487 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
102505 TGATGGCTC
1 TGATGGCTC
102514 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:104157 original size:22 final size:22
Alignment explanation
Indices: 104132--104175 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
104122 GATTTAGATA
104132 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
104154 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
104176 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:104388 original size:20 final size:20
Alignment explanation
Indices: 104365--104416 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
104355 GATTATGTAA
*
104365 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
104385 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
104405 ATCTCGTTGCGA
1 ATCGCGTTGCGA
104417 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:104450 original size:20 final size:20
Alignment explanation
Indices: 104345--104454 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
104335 CGCTTTGAAA
104345 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
104365 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
104385 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * ** * *
104405 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTAAGT
104426 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
104446 ATCGCATTG
1 ATCGCATTG
104455 TGATTTTCCC
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
18 3 0.04
19 1 0.01
20 54 0.76
21 13 0.18
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:104477 original size:41 final size:41
Alignment explanation
Indices: 104386--104520 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
104376 AAAGTCAGTA
* * * ** *
104386 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
104426 ATCGCATTGCGATAGTAAGTATCGCATTGTGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
104468 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
104509 TCGCGTTGCGAT
1 TCGCGTTGCGAT
104521 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:104480 original size:21 final size:21
Alignment explanation
Indices: 104447--104539 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
104437 ATAGTAAGTA
*
104447 TCGCATTGTGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
104468 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
104488 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
104509 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
104529 TCGCATTGCGA
1 TCGCATTGCGA
104540 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.56
21 25 0.44
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:104491 original size:20 final size:20
Alignment explanation
Indices: 104466--104539 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
104456 GATTTTCCCA
*
104466 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
104486 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
*
104507 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
104527 ATTCGCATTGCGA
1 ATTCGCATTGCGA
104540 ATTGGGAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:104521 original size:41 final size:41
Alignment explanation
Indices: 104447--104539 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
104437 ATAGTAAGTA
*
104447 TCGCATTGTGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
104488 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
104529 TCGCATTGCGA
1 TCGCATTGCGA
104540 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:106244 original size:56 final size:59
Alignment explanation
Indices: 106176--106297 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 59
106166 TTAGGTAACC
* *
106176 AACTTGGTTTTAAAG-TACAATTTGGTACTTAAA-CT-TTTTA-TCCAATTAGGTATTTG
1 AACTTGGTTTTAAAGCT-CAATTTGGTACCTAAAGCTATTTTAGTCCAATTAGGTACTTG
* * *
106232 AACTTGTTTTTAAGGCTCAATTTGGTACCTAAAGTTTATTTTAGTCCAATTAGGTACTTG
1 AACTTGGTTTTAAAGCTCAATTTGGTACCTAAAG-CTATTTTAGTCCAATTAGGTACTTG
106292 AACTTG
1 AACTTG
106298 ACTTATTGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
56 28 0.50
57 1 0.02
58 1 0.02
59 5 0.09
60 21 0.38
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (59 bp):
AACTTGGTTTTAAAGCTCAATTTGGTACCTAAAGCTATTTTAGTCCAATTAGGTACTTG
Found at i:107401 original size:24 final size:24
Alignment explanation
Indices: 107374--107429 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
107364 ATAAGATCTT
107374 ATTATACAATGTAAAATTCTTTTA
1 ATTATACAATGTAAAATTCTTTTA
107398 ATTATACAATGTAAAATTCTTTTA
1 ATTATACAATGTAAAATTCTTTTA
*
107422 ATTTTACA
1 ATTATACA
107430 TAGATTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
ATTATACAATGTAAAATTCTTTTA
Found at i:108832 original size:51 final size:52
Alignment explanation
Indices: 108746--108849 Score: 151
Period size: 52 Copynumber: 2.0 Consensus size: 52
108736 AGTTTTATAT
* *
108746 TATCCCATCATTTGATGGAAGAAAATTAATACTTTTT-AACCCA-TCAAGTGA
1 TATCCCATCATTTGATGAAAGAAAAATAATACTTTTTGAACCCACT-AAGTGA
108797 TATCCCATCATTTTGATGAAAGAAAAATAAT-CTTTTTGAACCCACTAAGTGA
1 TATCCCATCA-TTTGATGAAAGAAAAATAATACTTTTTGAACCCACTAAGTGA
108849 T
1 T
108850 CTCATTAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
51 16 0.33
52 31 0.65
53 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.34
Consensus pattern (52 bp):
TATCCCATCATTTGATGAAAGAAAAATAATACTTTTTGAACCCACTAAGTGA
Found at i:111201 original size:2 final size:2
Alignment explanation
Indices: 111194--111227 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
111184 TACAAACAAT
111194 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
111228 ATTCAACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:114596 original size:18 final size:18
Alignment explanation
Indices: 114573--114608 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
114563 ATAGATGTAT
114573 TAATACTGCTCATTAATA
1 TAATACTGCTCATTAATA
114591 TAATACTGCTCATTAATA
1 TAATACTGCTCATTAATA
114609 AAGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
TAATACTGCTCATTAATA
Found at i:117217 original size:18 final size:18
Alignment explanation
Indices: 117194--117239 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
117184 ATAAAGACTT
117194 CCACGGTGGGATCGAGTC
1 CCACGGTGGGATCGAGTC
117212 CCACGGTGGGATCGAGTC
1 CCACGGTGGGATCGAGTC
**
117230 ATACGGTGGG
1 CCACGGTGGG
117240 CAATTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (18 bp):
CCACGGTGGGATCGAGTC
Found at i:124541 original size:8 final size:8
Alignment explanation
Indices: 124521--124550 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
124511 TTCTACCTAG
124521 TTTTAAA-
1 TTTTAAAT
124528 TTTTAAAT
1 TTTTAAAT
124536 TTTTAAAT
1 TTTTAAAT
124544 TTTTAAA
1 TTTTAAA
124551 CTCCAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTTAAAT
Found at i:124815 original size:16 final size:16
Alignment explanation
Indices: 124784--124815 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
124774 TTTCAAGCTC
*
124784 GACTCGAACTCGAAAA
1 GACTCGAACTCAAAAA
124800 GACTCGAACTCAAAAA
1 GACTCGAACTCAAAAA
124816 AAATTCAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (16 bp):
GACTCGAACTCAAAAA
Found at i:124842 original size:11 final size:11
Alignment explanation
Indices: 124828--124888 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
124818 ATTCAAGAGT
124828 TCGATTGAAGC
1 TCGATTGAAGC
124839 TCGATTTTG-AGC
1 TCGA--TTGAAGC
*
124851 TCGATTCAAGC
1 TCGATTGAAGC
124862 TCGATTTTG-AGC
1 TCGA--TTGAAGC
*
124874 TCGATTCAAGC
1 TCGATTGAAGC
124885 TCGA
1 TCGA
124889 ACTCGAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
10 4 0.10
11 18 0.44
12 14 0.34
13 5 0.12
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (11 bp):
TCGATTGAAGC
Found at i:124853 original size:12 final size:12
Alignment explanation
Indices: 124836--124879 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
124826 GTTCGATTGA
124836 AGCTCGATTTTG
1 AGCTCGATTTTG
**
124848 AGCTCGA-TTCA
1 AGCTCGATTTTG
124859 AGCTCGATTTTG
1 AGCTCGATTTTG
124871 AGCTCGATT
1 AGCTCGATT
124880 CAAGCTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (12 bp):
AGCTCGATTTTG
Found at i:124854 original size:23 final size:23
Alignment explanation
Indices: 124828--124888 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
124818 ATTCAAGAGT
*
124828 TCGATTGAAGCTCGATTTTGAGC
1 TCGATTCAAGCTCGATTTTGAGC
124851 TCGATTCAAGCTCGATTTTGAGC
1 TCGATTCAAGCTCGATTTTGAGC
124874 TCGATTCAAGCTCGA
1 TCGATTCAAGCTCGA
124889 ACTCGAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (23 bp):
TCGATTCAAGCTCGATTTTGAGC
Done.