Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 145 of 173
Found at i:43979066 original size:12 final size:13
Alignment explanation
Indices: 43979044--43979072 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
43979034 CATTCTCAAA
43979044 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
43979057 AAAA-AAAAAAAG
1 AAAAGAAAAAAAG
43979069 AAAA
1 AAAA
43979073 TTCTGCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:43979355 original size:87 final size:87
Alignment explanation
Indices: 43979209--43980059 Score: 1217
Period size: 87 Copynumber: 9.8 Consensus size: 87
43979199 ATCAGTGAAT
* * *
43979209 ATCGAAAACAAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGGTTAAAGATAGCAGATATTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
*
43979274 TCCTACGTTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * * * *
43979296 ATCGAAAACAAAACCTTGCCTCCATCGGTTGTAGTGGAACTGGTTAAAGATAGAAGATATTGCAT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
43979361 TCCTGCGTTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* *
43979383 ATCGAAAACAAAGCCTTGCCTCCATCGATTGCAGTGGAGCTGATTAAAGATA-ATAGATCTTGCC
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGA-AGATCTTGCC
*
43979447 -TCCTGCGTTAACAGCGAAGCAT
65 TTCCTGCGTTAACAGCGAAGCAG
* * * * * *
43979469 ACCGAAAACAAAGCCTTGCCTCCATTGATTACAGTGGAGCTGGTTAAAGATAGCAGATCTTACCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
* *
43979534 TCTTGCGTTAACAGCGAAGCAA
66 TCCTGCGTTAACAGCGAAGCAG
* * ** *
43979556 ACCGAAAACAAAGCCTTGCCTCTATCTATTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
* *
43979621 TACTGCGTTAACAACGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * *
43979643 ATCGAAAACAACGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
*
43979708 TCCTGCGTTAACAGCGAAACAG
66 TCCTGCGTTAACAGCGAAGCAG
43979730 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATA-ACAGATCTTGCC
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGA-AGATCTTGCC
* ** *
43979794 TTTCTGTTTTAATAGCGAAGCAG
65 TTCCTGCGTTAACAGCGAAGCAG
* * *
43979817 ACCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTAGAGCTGGTTAAAGATA-ACAGATCTTGCC
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGA-AGATCTTGCC
* **
43979881 TTTCTATGTTAACAGCGAAGCAG
65 TTCCTGCGTTAACAGCGAAGCAG
* *
43979904 ACCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATA-ACAGATCTTGCC
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGA-AGATCTTGCC
*
43979968 TTCCTGCGTTAATAGCGAAGCAG
65 TTCCTGCGTTAACAGCGAAGCAG
* *
43979991 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGTCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
43980056 TCCT
66 TCCT
43980060 AAGCACTAGC
Statistics
Matches: 695, Mismatches: 64, Indels: 10
0.90 0.08 0.01
Matches are distributed among these distances:
86 79 0.11
87 616 0.89
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (87 bp):
ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGAAGATCTTGCCT
TCCTGCGTTAACAGCGAAGCAG
Found at i:43981373 original size:16 final size:17
Alignment explanation
Indices: 43981352--43981384 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
43981342 TTGTTCATAC
43981352 TAAAAAGAAAA-GAAAA
1 TAAAAAGAAAAGGAAAA
43981368 TAAAAAGAAAAGGAAAA
1 TAAAAAGAAAAGGAAAA
43981385 GCCTTACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (17 bp):
TAAAAAGAAAAGGAAAA
Found at i:43982184 original size:20 final size:20
Alignment explanation
Indices: 43982159--43982198 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43982149 AATATTTTCT
*
43982159 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
43982179 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
43982199 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:43982201 original size:34 final size:35
Alignment explanation
Indices: 43982147--43982213 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43982137 CAAACAGCAG
* *
43982147 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
43982182 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
43982214 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:43982205 original size:14 final size:14
Alignment explanation
Indices: 43982182--43982221 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
43982172 ACAGAAAAGT
*
43982182 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
43982196 AAATCATTTTACGG
1 AAAACATTTTACAG
43982210 AAAACATTTTAC
1 AAAACATTTTAC
43982222 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:43982701 original size:3 final size:3
Alignment explanation
Indices: 43982689--43982767 Score: 77
Period size: 3 Copynumber: 25.7 Consensus size: 3
43982679 TAATGTGTGC
* * * *
43982689 TAT TATT TAT TAT TAT TAT TAT ATAT TAT TAT TAA CAC TAT TAT AAT
1 TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
43982736 TAT TAT TAG CAT TAT TAT TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
43982768 AATACCTTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
3 55 0.90
4 6 0.10
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:44000982 original size:29 final size:29
Alignment explanation
Indices: 44000932--44000993 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
44000922 AACGTAAAAA
* * *
44000932 ACTAAAACATAACATTTCAAACATAAGTG
1 ACTAAAACATAACATATCAAACAAAAATG
*
44000961 ACTAAAATATAACATGAT-AAACAAAAATG
1 ACTAAAACATAACAT-ATCAAACAAAAATG
44000990 ACTA
1 ACTA
44000994 TTTTAATGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (29 bp):
ACTAAAACATAACATATCAAACAAAAATG
Found at i:44003800 original size:6 final size:6
Alignment explanation
Indices: 44003789--44003817 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44003779 ATGTTTGGAC
44003789 GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
44003818 TACAAGGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:44006180 original size:34 final size:34
Alignment explanation
Indices: 44006137--44006204 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
44006127 TAAGGGTTTC
44006137 CTCTATTAAAATTTTGCCTTATTTGAGTATTTTT
1 CTCTATTAAAATTTTGCCTTATTTGAGTATTTTT
44006171 CTCTATTAAAATTTTGCCTTATTTGAGTATTTTT
1 CTCTATTAAAATTTTGCCTTATTTGAGTATTTTT
44006205 AATAGTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (34 bp):
CTCTATTAAAATTTTGCCTTATTTGAGTATTTTT
Found at i:44007428 original size:11 final size:11
Alignment explanation
Indices: 44007387--44007428 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
44007377 CCTTCAAAAA
44007387 TTCTCTTAAGT
1 TTCTCTTAAGT
*
44007398 TACTCTTAAGT
1 TTCTCTTAAGT
*
44007409 TCCTCTTAAGT
1 TTCTCTTAAGT
*
44007420 TTCTTTTAA
1 TTCTCTTAA
44007429 CTCCTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.52
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:44007610 original size:15 final size:15
Alignment explanation
Indices: 44007590--44007643 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
44007580 TTTTTAAATA
*
44007590 TTATTTAAGAATTTT
1 TTATTTATGAATTTT
*
44007605 TTATTTATGCATTTT
1 TTATTTATGAATTTT
*
44007620 TAGATATTTATTAATTTT
1 T---TATTTATGAATTTT
44007638 TTATTT
1 TTATTT
44007644 GTTATAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 19 0.59
18 13 0.41
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTTATGAATTTT
Found at i:44009748 original size:25 final size:25
Alignment explanation
Indices: 44009720--44009767 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
44009710 TATTTTGATA
*
44009720 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATATAATAAAATAGAAGT
44009745 TTATTTGATATAATAAAATAGAA
1 TTATTTGATATAATAAAATAGAA
44009768 ATTTTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (25 bp):
TTATTTGATATAATAAAATAGAAGT
Found at i:44009839 original size:23 final size:23
Alignment explanation
Indices: 44009813--44010271 Score: 382
Period size: 23 Copynumber: 20.1 Consensus size: 23
44009803 AATACCCTTA
44009813 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
44009836 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
44009858 ACTTAAAAACCCTAACC-GCCTT
1 AATTAAAAACCCTAACCTAATTT
*
44009880 AACTTAAAAAACCCTAACCTAATTA
1 AA-TT-AAAAACCCTAACCTAATTT
* *
44009905 AATTAAAACCCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
44009928 AATTAAAACCCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
44009951 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
**
44009973 ACA-TAAAAACCCTAACCCCA-TT
1 A-ATTAAAAACCCTAACCTAATTT
44009995 AACTTAAAAACCCTAACCTAA-TT
1 AA-TTAAAAACCCTAACCTAATTT
** * *
44010018 AACTTAAAAGTCCTAACCTGATTA
1 AA-TTAAAAACCCTAACCTAATTT
44010042 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
44010065 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
44010087 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
44010110 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * ***
44010132 ACTTAAAAACCATAA-CTCCCTT
1 AATTAAAAACCCTAACCTAATTT
* *
44010154 AACTTAAAAACTCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
44010178 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
44010201 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
44010223 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
44010246 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
44010269 AAT
1 AAT
44010272 AATTTTACTT
Statistics
Matches: 359, Mismatches: 44, Indels: 66
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.01
20 15 0.04
21 11 0.03
22 60 0.17
23 210 0.58
24 33 0.09
25 28 0.08
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:44009914 original size:46 final size:46
Alignment explanation
Indices: 44009810--44010270 Score: 397
Period size: 45 Copynumber: 10.1 Consensus size: 46
44009800 ATTAATACCC
*
44009810 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A
1 TTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA-CCTAA
* ***
44009857 --AACTTAAAAACCCTAACCGCCTTAACTTAAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTT-AAAAACCCTAACCTAA
* * *
44009902 TTAAATTAAAACCCCTAACCTAATTAAATTAAAACCCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* **
44009948 TTAAATTAAAAACCCTAAACCCT-A--AACATAAAAACCCTAACCCCA
1 TTAAATTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTAACCTAA
* ** *
44009993 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAGTCCTAACCTGA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
44010039 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA-CCTAA
* *
44010086 --AACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A
1 TTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA-CCTAA
* * ** *
44010131 --AACTTAAAAACCATAA-CTCCCTTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCT-AATTAACTTAAAAACCCTAACCTAA
44010175 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA-CCTAA
* *
44010222 --AACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACTAAA
1 TTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCTAACCT-AA
44010267 TTAA
1 TTAA
44010271 TAATTTTACT
Statistics
Matches: 347, Mismatches: 41, Indels: 52
0.79 0.09 0.12
Matches are distributed among these distances:
43 8 0.02
44 21 0.06
45 157 0.45
46 109 0.31
47 43 0.12
48 9 0.03
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.26
Consensus pattern (46 bp):
TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
Found at i:44010252 original size:91 final size:91
Alignment explanation
Indices: 44009810--44010270 Score: 482
Period size: 91 Copynumber: 5.0 Consensus size: 91
44009800 ATTAATACCC
*
44009810 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
**
44009875 -GCCTTAACTTAAAAAACCCTAACCTAA
66 TAACTTAA-TT-AAAAACCCTAACCTAA
* * * *
44009902 TTAAATTAAAACCCCTAACCTAATTAAATTAAAACCCCT-AA-CCTAATTAAATTAAAAACCCTA
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCT-
**
44009965 AACCCTAA---ACA-TAAAAACCCTAACCCCA
62 AA-CCTAACTTA-ATTAAAAACCCTAACCTAA
* ** *
44009993 TTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAGTCCT-AA-CCTGATTAAATTAAAAACCCT
1 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-A--AACTTAAAAACCCT
*
44010055 AACCTAATTTAATTAAAAACCCTAAACCCT-A
62 AACCTAACTTAATTAAAAACCCT-AA-CCTAA
* * *
44010086 --AACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCATAA-C
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
** *
44010148 TCCCTTAACTTAAAAACTCTAACCTAA
66 TAACTTAA-TTAAAAACCCTAACCTAA
44010175 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
* *
44010240 TAATTTAATTAAAAACCCTAAACTAAA
66 TAACTTAATTAAAAACCCTAACCT-AA
44010267 TTAA
1 TTAA
44010271 TAATTTTACT
Statistics
Matches: 313, Mismatches: 33, Indels: 46
0.80 0.08 0.12
Matches are distributed among these distances:
88 3 0.01
89 14 0.04
90 32 0.10
91 171 0.55
92 66 0.21
93 20 0.06
94 5 0.02
95 2 0.01
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.26
Consensus pattern (91 bp):
TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
TAACTTAATTAAAAACCCTAACCTAA
Found at i:44010271 original size:68 final size:67
Alignment explanation
Indices: 44009806--44010271 Score: 425
Period size: 68 Copynumber: 6.8 Consensus size: 67
44009796 AACTATTAAT
* * *
44009806 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAAC
1 ACCC-TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA--CTAATTAATTAAAAAC
44009868 CCTAA
63 CCTAA
* * * * *
44009873 CCGCCTTAACTTAAAAAACCCTAACCTAATTAAATTAAAACCCCTAACCTAATTAAATTAAAACC
1 AC-CCTAAACTT-AAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTAATT-AATTAAAAAC
44009938 CCT-A
63 CCTAA
* * * **
44009942 A-CCTAATTAAATTAAAAACCCTAAACCCTAA--ACA-TAAAAACCCTAACCCCATTAACTTAAA
1 ACCCT-A--AACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAAACTAATTAA-TTAAA
44010003 AACCCT-A
60 AACCCTAA
** * *
44010010 A-CCTAATTAACTTAAAAGTCCTAACCTGATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTAA-TTAATTAAAAA
44010074 CCCTAA
62 CCCTAA
* * *
44010080 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA--ACTTAAAAACC
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA--CTAATTAATTAAAAACC
*
44010143 ATAA
64 CTAA
* * * *
44010147 CTCCCTTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACC
1 -ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTAA-TTAATTAAAAACC
44010212 CTAA
64 CTAA
*
44010216 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACTAAATTAAT
1 ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACT-AATTAAT
44010272 AATTTTACTT
Statistics
Matches: 330, Mismatches: 44, Indels: 49
0.78 0.10 0.12
Matches are distributed among these distances:
66 8 0.02
67 28 0.08
68 174 0.53
69 84 0.25
70 28 0.08
71 8 0.02
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (67 bp):
ACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTAATTAATTAAAAACCCT
AA
Found at i:44010471 original size:115 final size:115
Alignment explanation
Indices: 44010265--44010624 Score: 621
Period size: 116 Copynumber: 3.1 Consensus size: 115
44010255 CCCTAAACTA
* **
44010265 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
*
44010330 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
* * *
44010381 ATTTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
44010446 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAA-TTTTACTAACCATTAATACAATTTATC
44010497 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
*
44010562 AATAATTTTATATAATTTGATAGTTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATA-ATTTTACTAACCATTAATACAATTTATC
44010613 AATTAATAATTT
1 AATTAATAATTT
44010625 CACAAACTTA
Statistics
Matches: 231, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
115 41 0.18
116 190 0.82
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:44010571 original size:61 final size:61
Alignment explanation
Indices: 44010383--44010571 Score: 171
Period size: 61 Copynumber: 3.2 Consensus size: 61
44010373 AATTTATCAT
44010383 TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAA
* * * * ** ** * * *
44010444 TTAATAATTTTATA-T-A-AT-TTGATA-ATTTTTACTAACCAT-TAAT-AC-AAT-TTATCAA
1 TTAATAATTTTACATTCACATAATGTTAGA-TTTGA--AAAAATGTTTTGACTAGTACTAACAA
* *
44010499 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAA
44010560 TTAATAATTTTA
1 TTAATAATTTTA
44010572 TATAATTTGA
Statistics
Matches: 92, Mismatches: 24, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
55 18 0.20
56 4 0.04
57 15 0.16
58 8 0.09
59 14 0.15
60 3 0.03
61 30 0.33
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (61 bp):
TTAATAATTTTACATTCACATAATGTTAGATTTGAAAAAATGTTTTGACTAGTACTAACAA
Found at i:44013111 original size:124 final size:124
Alignment explanation
Indices: 44012808--44013182 Score: 599
Period size: 124 Copynumber: 3.0 Consensus size: 124
44012798 CCCAAACATG
* *
44012808 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGC
*
44012873 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAA-TATTTCTTCCATGGC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAATTATTTCTTCCATGAC
* *
44012931 CGACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGC
* *
44012996 TAGAATCAATTTTATACTATTTGCTCAGAAACATCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAATTATTTCTTCCATGAC
* *
44013055 CTACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGC
* * *** *
44013120 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAA-AAAAAATTATTTCTTCCATGAC
44013180 CTA
1 CTA
44013183 AAAACCCTAA
Statistics
Matches: 232, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
123 103 0.44
124 108 0.47
125 21 0.09
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAATTATTTCTTCCATGAC
Found at i:44018042 original size:16 final size:19
Alignment explanation
Indices: 44018021--44018057 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
44018011 TTGTTTTAAG
44018021 AACAAGA-AG-AAAAA-AA
1 AACAAGACAGTAAAAAGAA
44018037 AACAAGACAGTAAAAAGAA
1 AACAAGACAGTAAAAAGAA
44018056 AA
1 AA
44018058 AACGGAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 5 0.28
19 4 0.22
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.03
Consensus pattern (19 bp):
AACAAGACAGTAAAAAGAA
Found at i:44019042 original size:44 final size:44
Alignment explanation
Indices: 44018940--44019231 Score: 352
Period size: 44 Copynumber: 6.5 Consensus size: 44
44018930 ACCGCTGATG
* *
44018940 CATGAAGACAAGATCTGCTATATTTGATCTACTTCACGTCCAATA
1 CATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACG-CCAATA
44018985 CATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATA
1 CATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATA
*
44019029 TATGAAGACAAGATTTGATCTGCTTTCTTTGATCTACTTCACGCCAATA
1 CATGAAGAC-A-A---GATCTGCTTTCTTTGATCTACTTCACGCCAATA
* * * * *
44019078 TATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
1 CATGAAGACAAGATCTGCTTTCTTTGATCTACTTC-ACGCCAATA
*** *
44019123 TGGGAAGACAAGATCT-ATTGTCTTTGATCTACTTCACGCCAATA
1 CATGAAGACAAGATCTGCTT-TCTTTGATCTACTTCACGCCAATA
* * * *
44019167 CATGAAGACAAGATATGTTTTCTTCGATCTACTTCATGCCAATA
1 CATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATA
*
44019211 CATGAAGACAAGATCTACTTT
1 CATGAAGACAAGATCTGCTTT
44019232 TTCAATCGAT
Statistics
Matches: 215, Mismatches: 24, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
44 97 0.45
45 73 0.34
46 1 0.00
47 1 0.00
48 1 0.00
49 42 0.20
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (44 bp):
CATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATA
Found at i:44019172 original size:89 final size:88
Alignment explanation
Indices: 44018943--44019227 Score: 345
Period size: 89 Copynumber: 3.2 Consensus size: 88
44018933 GCTGATGCAT
** * *
44018943 GAAGACAAGATCTGCTATATTTGATCTACTTCACGTCCAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTATTGTCTTTGATCTACTTCACG-CCAATACATGAAGACAAGATCTGCTTTCT
* * *
44019008 TTGATCTACTTCACGCCAATATAT
65 TCGATCTACTTCACACCAATATAG
* *
44019032 GAAGACAAGATTTGATCTGCTTTCTTTGATCTACTTCACGCCAATATATGAAGACAAGATCTGCT
1 GAAGACAAGATCT-AT-TG---TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
* * *
44019097 TTCTTCGATCTACTTCGCCACCAGTATGG
61 TTCTTCGATCTACTTC-ACACCAATATAG
* *
44019126 GAAGACAAGATCTATTGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATATGTTTTCTT
1 GAAGACAAGATCTATTGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
** * *
44019191 CGATCTACTTCATGCCAATACAT
66 CGATCTACTTCACACCAATATAG
44019214 GAAGACAAGATCTA
1 GAAGACAAGATCTA
44019228 CTTTTTCAAT
Statistics
Matches: 167, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
88 19 0.11
89 68 0.41
91 1 0.01
92 2 0.01
93 41 0.25
94 36 0.22
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (88 bp):
GAAGACAAGATCTATTGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACACCAATATAG
Found at i:44019425 original size:50 final size:50
Alignment explanation
Indices: 44019363--44020029 Score: 416
Period size: 50 Copynumber: 13.4 Consensus size: 50
44019353 GATCTGTAAT
* * * *
44019363 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * *** *** * * *
44019413 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCGTCGTTATGG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * * * * * *
44019463 CTTTAATCTTTTTAATTGTAATATTAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * * * * *** *
44019513 CTTCAATATGTTCCACTGCACT-GCTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATATC-AGGGAAACCAGATCCGCCGTTGTAG
* * * * *
44019563 CTTCAATCTTTTTAATTGCAGTATCAGGGAAACCAGATCCGTCGTTGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * * * *** * * *
44019613 CTTCAATCTGTTCCACTGCACT-GCTAAGGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATATC-AGGGAAACCAGATCCGCCGTTGTAG
* * * *
44019663 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * * * * * * * *
44019713 CTTCAATCTGTTCCATTGTACTGCTAAGGAGATA--AGATCCACCGTTGTGG
1 CTTCAATCTGTTCAACTGCAAT-ATCAGG-GAAACCAGATCCGCCGTTGTAG
* * * * *
44019763 CTTCAATATTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * * * * * *
44019813 CTTCAATCTGTTCCACTGTACTACTAAGGAGATA--AGATCCGCTGTTGTGG
1 CTTCAATCTGTTCAACTGCAATA-TCAGG-GAAACCAGATCCGCCGTTGTAG
* * *
44019863 CTTCAATCT-TTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
* * * * * * *
44019912 CTTCAATCTGTTCCACTGTACTGCTAAGGAGATA--AGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAAT-ATCAGG-GAAACCAGATCCGCCGTTGTAG
* * * * *
44019962 CTTCAATCTTTTAAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
*
44020012 CTTCAATCTGTTCCACTG
1 CTTCAATCTGTTCAACTG
44020030 TACTGCTAAG
Statistics
Matches: 443, Mismatches: 157, Indels: 34
0.70 0.25 0.05
Matches are distributed among these distances:
47 3 0.01
48 10 0.02
49 39 0.09
50 368 0.83
51 14 0.03
52 9 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATATCAGGGAAACCAGATCCGCCGTTGTAG
Found at i:44019511 original size:100 final size:100
Alignment explanation
Indices: 44019379--44020045 Score: 1020
Period size: 100 Copynumber: 6.7 Consensus size: 100
44019369 TTTGTTCAAC
* * * * *
44019379 TGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGG-G
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
* * *
44019442 AAGTAAGATCCGTCGTTATGGCTTTAATCTTTTTAAT
66 -A-TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
44019479 TGTAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATATGTTCCACTGCACTGCTAAGGA-
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
44019543 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 A-TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
44019579 TGCAGTATCAGGGAAACCAGATCCGTCGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGA-
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
* *
44019643 AGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAAT
66 A-TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
44019679 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCATTGTACTGCTAAGGAG
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
* *
44019744 ATAAGATCCACCGTTGTGGCTTCAATATTTTTAAT
66 ATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
44019779 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTACTAAGGAG
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
*
44019844 ATAAGATCCGCTGTTGTGGCTTCAATC-TTTTAAT
66 ATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
*
44019878 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAG
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
*
44019943 ATAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
66 ATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
44019978 TGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAG
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
44020043 ATA
66 ATA
44020046 GAATTACTGG
Statistics
Matches: 528, Mismatches: 35, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
99 97 0.18
100 426 0.81
101 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAG
ATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:44024173 original size:19 final size:19
Alignment explanation
Indices: 44024149--44024194 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
44024139 AACGATGTCT
* *
44024149 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
44024167 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
44024187 AATGCAAA
1 AATGCAAA
44024195 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:44024672 original size:17 final size:17
Alignment explanation
Indices: 44024638--44024673 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44024628 TTATATGATG
**
44024638 AAATGTCATGCAGTCAA
1 AAATGTCATGCAACCAA
44024655 AAATGTCATGCAACCAA
1 AAATGTCATGCAACCAA
44024672 AA
1 AA
44024674 CAAAACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.19
Consensus pattern (17 bp):
AAATGTCATGCAACCAA
Found at i:44030436 original size:44 final size:44
Alignment explanation
Indices: 44030355--44030441 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
44030345 TTTTAATCCA
* * * *
44030355 CTCCATTGCAACTTCAAGGAGATAGGATTGGTTTCTTCTATCTG
1 CTCCACTGCAACTTCAAGAAGATAGGATTGGTATCTTCGATCTG
44030399 CTCCACTGCAACTTCAAGAAGATCA-GACTT-GTATCTTCGATCT
1 CTCCACTGCAACTTCAAGAAGAT-AGGA-TTGGTATCTTCGATCT
44030442 ACTTTACCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (44 bp):
CTCCACTGCAACTTCAAGAAGATAGGATTGGTATCTTCGATCTG
Found at i:44030682 original size:44 final size:44
Alignment explanation
Indices: 44030634--44030814 Score: 116
Period size: 44 Copynumber: 4.1 Consensus size: 44
44030624 ACTACTGTTT
* *
44030634 AGGGAGATAAGATCTGTAATCTTCAATATATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* * * **
44030678 AGGGAGAT-AGA-AT-TATTGGCTTCAATGTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGTTGCC-C
* * **** * * * **
44030722 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTATTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
* * * *
44030766 AGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTGTCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
44030810 AGGGA
1 AGGGA
44030815 AGTAGAATTA
Statistics
Matches: 95, Mismatches: 36, Indels: 12
0.66 0.25 0.08
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 22 0.23
44 50 0.53
45 18 0.19
47 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGTTGCCC
Found at i:44031416 original size:132 final size:132
Alignment explanation
Indices: 44030544--44031417 Score: 1038
Period size: 132 Copynumber: 6.6 Consensus size: 132
44030534 ACACTACCGA
* * * * * *
44030544 CCAGGGAGATAGAATTACTGGCTCCAATATACTCCGCTGAAACCTCAGGGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCA
** * * * * * *
44030609 TCTTTAATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATCTTCAATATATTCCACTGTT
66 TCTTCGATCTGCTTCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
44030674 GC
131 GC
* * *
44030676 CCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCA
* * * * *
44030741 TCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCT
66 TCTTCGATCTGCTTCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
*
44030806 GT
131 GC
* **
44030808 CCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTACC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCC
* * * * *
44030872 GTCTTCGATCTGCTT---TACTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCA
65 ATCTTCGATCTGCTTCACTACTG-CT-T--AGGGAGACAAGATCTGAAATCTTCAATCTATTCCA
*
44030934 CTGCTAC
126 CTGCTGC
* *
44030941 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCA
* ** ** * * * * *
44031006 TCTTCGATCTGCTTCGCTGTTTATGCAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGC
66 TCTTCGATCTGCTTCACTACTGCT-TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC
44031071 TGC
130 TGC
* * * *
44031074 CTAGGGAGATAGAATTACTGGCTTCAATGTACTTCACTGTAACCACAGGGAGGTAAAATTCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCA
* * * * *
44031139 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATATGAAATCTTCAATCTATCCCACTACT
66 TCTTCGATCTGCTTCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
44031204 GC
131 GC
* * *
44031206 CCA-GGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCC
* * * * *
44031270 ATCTTTGATCTGCTTCACTACTGCTTGGGGAGAAAAGATATGAAATCTTCAATCTATTCTACTGC
65 ATCTTCGATCTGCTTCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGC
44031335 TGC
130 TGC
* * * * * * *
44031338 CCAAGGAGATAGAATTATTGGCTTCAATGTACCCCACTATCACTACAGAGAGGTAAAATCCGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCA
44031403 TCTTCGATCTGCTTC
66 TCTTCGATCTGCTTC
44031418 GCTGTCAATG
Statistics
Matches: 649, Mismatches: 82, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.01
130 2 0.00
131 6 0.01
132 404 0.62
133 229 0.35
134 1 0.00
135 1 0.00
136 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCA
TCTTCGATCTGCTTCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
GC
Found at i:44032369 original size:13 final size:13
Alignment explanation
Indices: 44032351--44032375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44032341 TAAATTACCA
44032351 AGGATAATAAAGC
1 AGGATAATAAAGC
44032364 AGGATAATAAAG
1 AGGATAATAAAG
44032376 AAATTGATTT
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:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (13 bp):
AGGATAATAAAGC
Found at i:44032764 original size:21 final size:22
Alignment explanation
Indices: 44032739--44032780 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44032729 TTAGCCTCTC
*
44032739 CATTTTC-TTTTTTAATTTTTT
1 CATTTTCATCTTTTAATTTTTT
*
44032760 CATTTTCATCTTTTCATTTTT
1 CATTTTCATCTTTTAATTTTT
44032781 CACATCACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (22 bp):
CATTTTCATCTTTTAATTTTTT
Found at i:44032781 original size:15 final size:15
Alignment explanation
Indices: 44032741--44032782 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
44032731 AGCCTCTCCA
* * *
44032741 TTTTCTTTTTTAATT
1 TTTTCATTTTTCATC
44032756 TTTTCA-TTTTCATC
1 TTTTCATTTTTCATC
44032770 TTTTCATTTTTCA
1 TTTTCATTTTTCA
44032783 CATCACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTCATTTTTCATC
Found at i:44035669 original size:19 final size:20
Alignment explanation
Indices: 44035645--44035684 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
44035635 AATGGTGTTT
* *
44035645 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
44035664 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
44035684 A
1 A
44035685 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:44035735 original size:13 final size:13
Alignment explanation
Indices: 44035717--44035742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44035707 TGTTCAATTT
44035717 TTTACTAGAAAAC
1 TTTACTAGAAAAC
44035730 TTTACTAGAAAAC
1 TTTACTAGAAAAC
44035743 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:44036154 original size:16 final size:16
Alignment explanation
Indices: 44036129--44036180 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
44036119 TTCTATAATG
*
44036129 AAATGCCATGCAGTCA
1 AAATGTCATGCAGTCA
44036145 AAATGTCATGCAGTCAA
1 AAATGTCATGCAGTC-A
*
44036162 AAATGTCATGCAGCCA
1 AAATGTCATGCAGTCA
44036178 AAA
1 AAA
44036181 CAAAACACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 18 0.55
17 15 0.45
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (16 bp):
AAATGTCATGCAGTCA
Found at i:44036166 original size:17 final size:17
Alignment explanation
Indices: 44036129--44036180 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
44036119 TTCTATAATG
*
44036129 AAATGCCATGCAGTC-A
1 AAATGTCATGCAGTCAA
44036145 AAATGTCATGCAGTCAA
1 AAATGTCATGCAGTCAA
*
44036162 AAATGTCATGCAGCCAA
1 AAATGTCATGCAGTCAA
44036179 AA
1 AA
44036181 CAAAACACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
16 14 0.42
17 19 0.58
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (17 bp):
AAATGTCATGCAGTCAA
Found at i:44036576 original size:6 final size:6
Alignment explanation
Indices: 44036565--44036591 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44036555 TGTAATGCAA
44036565 AAATGC AAATGC AAATGC AAATGC AAA
1 AAATGC AAATGC AAATGC AAATGC AAA
44036592 GTAGCCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AAATGC
Found at i:44038060 original size:3 final size:3
Alignment explanation
Indices: 44037994--44038041 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
44037984 ATATATATAG
* *
44037994 TAA TGA TAA TAG TAA TAA CT-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
44038039 TAA
1 TAA
44038042 ATATAGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44041838 original size:13 final size:13
Alignment explanation
Indices: 44041805--44041840 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
44041795 ATATATATTT
44041805 AAAAATT-ATATA
1 AAAAATTAATATA
44041817 AAAAA-TAATATA
1 AAAAATTAATATA
44041829 AAAAATTAATAT
1 AAAAATTAATAT
44041841 GGGTGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 15 0.68
13 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:44050686 original size:6 final size:6
Alignment explanation
Indices: 44050675--44050708 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
44050665 CTCTTTTCTT
44050675 CTCTAC CTCTAC CTCTAC CTCTAC CTCTAC CTCT
1 CTCTAC CTCTAC CTCTAC CTCTAC CTCTAC CTCT
44050709 TACACTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (6 bp):
CTCTAC
Found at i:44058287 original size:3 final size:3
Alignment explanation
Indices: 44058279--44058311 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
44058269 TTTCATCACC
44058279 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44058312 AATAAGAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44059155 original size:3 final size:3
Alignment explanation
Indices: 44059147--44059171 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44059137 AAACTACCTG
44059147 TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT T
44059172 CTGCAGCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:44068157 original size:6 final size:6
Alignment explanation
Indices: 44068146--44068170 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44068136 TTGTATTACA
44068146 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
44068171 CAAGTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:44078913 original size:10 final size:10
Alignment explanation
Indices: 44078898--44078930 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
44078888 GATCAATAAA
44078898 AAAAAGTGAG
1 AAAAAGTGAG
44078908 AAAAAGTGAG
1 AAAAAGTGAG
44078918 AAAAAGTGA-
1 AAAAAGTGAG
44078927 AAAA
1 AAAA
44078931 TTCTCGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (10 bp):
AAAAAGTGAG
Found at i:44079160 original size:51 final size:51
Alignment explanation
Indices: 44079047--44079224 Score: 148
Period size: 51 Copynumber: 3.5 Consensus size: 51
44079037 TGGTCACGTA
* * * ** * *
44079047 TGTAGTACTATGTGGAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTAATGG-ATGATAATGATCACATG
* * ** *
44079097 TGTTGTATTATGTGCAGGCTACTATGCGTACAT-GAT-AGTTTTGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTATGCGTA-ATGGATGA-TAATGATCACATG
* * * * *
44079148 TGTAGTACTATGTGAAGGCTACTACGTGTATTGGATGATAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTAATGGATGATAATGATCACATG
44079199 TGTAGTACTATGTGCAGGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
44079225 TGAACCGAAC
Statistics
Matches: 99, Mismatches: 23, Indels: 11
0.74 0.17 0.08
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 27 0.27
51 67 0.68
52 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTAATGGATGATAATGATCACATG
Found at i:44079167 original size:101 final size:102
Alignment explanation
Indices: 44079040--44079224 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
44079030 AAAGTGATGG
* * *
44079040 TCACGTATGTAGTACTATGTGGAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTTGT
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
*
44079103 ATTATGTGCAGGCTACTATGCGTACATGATAGTTTTGA
65 ACTATGTGCAGGCTACTATGCGTACATGATAGTTTTGA
* **
44079141 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGGATGATAATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGAAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
44079206 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
44079225 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 5 0.07
101 38 0.51
102 32 0.43
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGAAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACATGATAGTTTTGA
Found at i:44079296 original size:45 final size:45
Alignment explanation
Indices: 44079228--44079322 Score: 165
Period size: 45 Copynumber: 2.1 Consensus size: 45
44079218 TACTATGTGA
*
44079228 ACCGAACATCATTGATAAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATAAGTAAGGTGGTTGCTATGTGCTGAATCC
44079273 ACCGAACATCATTGATTAA-TAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGA-TAAGTAAGGTGGTTGCTATGTGCTGAATCC
44079318 ACCGA
1 ACCGA
44079323 GTATCTGTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 45 0.94
46 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATAAGTAAGGTGGTTGCTATGTGCTGAATCC
Found at i:44082441 original size:3 final size:3
Alignment explanation
Indices: 44082433--44082457 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44082423 TAAAAGGGGT
44082433 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
44082458 GAGATCTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44083539 original size:20 final size:20
Alignment explanation
Indices: 44083514--44083552 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44083504 TTAAATTTAA
*
44083514 TTTAATATCAACATAATAAC
1 TTTAATATCAAAATAATAAC
*
44083534 TTTAATATTAAAATAATAA
1 TTTAATATCAAAATAATAA
44083553 AATACTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAATATCAAAATAATAAC
Found at i:44085138 original size:14 final size:15
Alignment explanation
Indices: 44085105--44085136 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44085095 TATGCATGCA
*
44085105 AAATATAAAAGACAT
1 AAATAAAAAAGACAT
44085120 AAATAAAAAAGACAT
1 AAATAAAAAAGACAT
44085135 AA
1 AA
44085137 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAGACAT
Found at i:44088126 original size:22 final size:23
Alignment explanation
Indices: 44088065--44088116 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
44088055 AGTAAAAAAA
*
44088065 TTAAGAAAGAATTTGAGATA-TT
1 TTAAGAGAGAATTTGAGATATTT
44088087 TTAAGAGAGAATTTGAGATATTT
1 TTAAGAGAGAATTTGAGATATTT
44088110 TTAAGAG
1 TTAAGAG
44088117 TTGATTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (23 bp):
TTAAGAGAGAATTTGAGATATTT
Found at i:44088733 original size:27 final size:27
Alignment explanation
Indices: 44088688--44088759 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
44088678 GGGATTTTAT
*
44088688 ATATGTTATTATTAATTAGTTTCAAACTA
1 ATATGTT-TTATTATTTAGTTTCAAAC-A
*
44088717 A-ATGTTTTATTATTTAGTTTCACACA
1 ATATGTTTTATTATTTAGTTTCAAACA
*
44088743 ATATATTTTATTATTTA
1 ATATGTTTTATTATTTA
44088760 TTTATTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 31 0.79
28 5 0.13
29 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.53
Consensus pattern (27 bp):
ATATGTTTTATTATTTAGTTTCAAACA
Found at i:44089921 original size:21 final size:21
Alignment explanation
Indices: 44089895--44089947 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
44089885 TTTTTGATGA
44089895 AGGTATCGATACCTTAGGCCT
1 AGGTATCGATACCTTAGGCCT
* *
44089916 AGGTATTGATACC-TAGGCTT
1 AGGTATCGATACCTTAGGCCT
44089936 A--TATCGATACCT
1 AGGTATCGATACCT
44089948 ACCTCAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
20 7 0.25
21 12 0.43
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (21 bp):
AGGTATCGATACCTTAGGCCT
Found at i:44089946 original size:18 final size:19
Alignment explanation
Indices: 44089897--44089948 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
44089887 TTTGATGAAG
44089897 GTATCGATACCTTAGGCCTA
1 GTATCGATACC-TAGGCCTA
* *
44089917 GGTATTGATACCTAGGCTTA
1 -GTATCGATACCTAGGCCTA
44089937 -TATCGATACCTA
1 GTATCGATACCTA
44089949 CCTCAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.39
20 7 0.25
21 10 0.36
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (19 bp):
GTATCGATACCTAGGCCTA
Found at i:44090482 original size:24 final size:25
Alignment explanation
Indices: 44090446--44090492 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
44090436 TAAAATTTAC
44090446 TATTAATAATATA-AAATAAAATAA
1 TATTAATAATATAGAAATAAAATAA
** *
44090470 TATTAATTTTATAGACATAAAAT
1 TATTAATAATATAGAAATAAAAT
44090493 TTACATCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TATTAATAATATAGAAATAAAATAA
Found at i:44094432 original size:17 final size:19
Alignment explanation
Indices: 44094399--44094433 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
44094389 AATATTTGGA
44094399 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
44094418 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
44094434 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:44094989 original size:120 final size:120
Alignment explanation
Indices: 44094758--44094992 Score: 299
Period size: 120 Copynumber: 2.0 Consensus size: 120
44094748 GACACCTCTA
* *
44094758 GTCCCAAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAATTATATACATGTCAGGTTACC
1 GTCCCAAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAAATATATACAAGTCAGGTTACC
* * *
44094823 CGTCCGGACTAAACCTTTAAATTAACATCAAGTTGCTCATCCGAGCTAAAGTTGT
66 CATCCGGACTAAACCTTTAAACTAACATCAAGTTACTCATCCGAGCTAAAGTTGT
* * * * * *
44094878 GTCCTAAGTATTCTCAATTCATCAATTGGTCGTCCAAGTTGAAAATATATAGAAGTCAGGTTACC
1 GTCCCAAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAAATATATACAAGTCAGGTTACC
* * * * * * * *
44094943 CATCTGGGCTAAACTTTTGAACTAACATTAGGTTACTCGTCTGAGCTAAA
66 CATCCGGACTAAACCTTTAAACTAACATCAAGTTACTCATCCGAGCTAAA
44094993 CCTGTGTCAC
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (120 bp):
GTCCCAAGTATCCTCAATACATCAATTGATCGTCCAAGCTGAAAATATATACAAGTCAGGTTACC
CATCCGGACTAAACCTTTAAACTAACATCAAGTTACTCATCCGAGCTAAAGTTGT
Found at i:44105198 original size:50 final size:50
Alignment explanation
Indices: 44105074--44105178 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
44105064 TATAAAAAAT
*
44105074 TAATAATGTTAACAACATAATAATTAACTATTTAAAATTAAATAATTTAA
1 TAATAATGTTAACAACATAATAATTAACTAATTAAAATTAAATAATTTAA
*
44105124 TAATAATGTTAACAACATAATAATTAACTAATTAAAATTTAATAATTTAA
1 TAATAATGTTAACAACATAATAATTAACTAATTAAAATTAAATAATTTAA
44105174 TAATA
1 TAATA
44105179 TTTTCCTACC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (50 bp):
TAATAATGTTAACAACATAATAATTAACTAATTAAAATTAAATAATTTAA
Found at i:44105364 original size:28 final size:28
Alignment explanation
Indices: 44105297--44105373 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
44105287 AGAAAACAAT
* *
44105297 TAAAAAA--AAGAATTTAGAATTTAGAA
1 TAAAAAATCAAGAATTAAGAATTGAGAA
* *
44105323 TAAAAAATCGAGAATTAATAATTGAGAA
1 TAAAAAATCAAGAATTAAGAATTGAGAA
* * *
44105351 TAAAAATTTAAGAATTGAGAATT
1 TAAAAAATCAAGAATTAAGAATT
44105374 AAGTTGAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 7 0.17
28 33 0.82
ACGTcount: A:0.57, C:0.01, G:0.13, T:0.29
Consensus pattern (28 bp):
TAAAAAATCAAGAATTAAGAATTGAGAA
Found at i:44105466 original size:18 final size:18
Alignment explanation
Indices: 44105445--44105479 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44105435 TATAGTTGTA
*
44105445 GGAATTATGACCGTTGGG
1 GGAATTATGACCATTGGG
44105463 GGAATTATGACCATTGG
1 GGAATTATGACCATTGG
44105480 CTAGAAAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (18 bp):
GGAATTATGACCATTGGG
Found at i:44105760 original size:14 final size:14
Alignment explanation
Indices: 44105741--44105767 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44105731 ATTTTTATTA
44105741 TTTTTATAGTTTAG
1 TTTTTATAGTTTAG
44105755 TTTTTATAGTTTA
1 TTTTTATAGTTTA
44105768 ATTAACCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (14 bp):
TTTTTATAGTTTAG
Found at i:44119846 original size:30 final size:31
Alignment explanation
Indices: 44119812--44119879 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
44119802 AGTTTGCATA
* *
44119812 TATGAATTCGCTATGATCATGAAG-TTCTTT
1 TATGAATTCGCTATGATCATAAAGTTTCTTC
* *
44119842 TATGAATTTGCTATGTTCATAAAGTTTCTTC
1 TATGAATTCGCTATGATCATAAAGTTTCTTC
44119873 TATGAAT
1 TATGAAT
44119880 CCGTCTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.46
Consensus pattern (31 bp):
TATGAATTCGCTATGATCATAAAGTTTCTTC
Found at i:44119954 original size:45 final size:45
Alignment explanation
Indices: 44119900--44120008 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
44119890 GAATCTGTTT
* * * *
44119900 TATCCATGAAGT-TTCTTCTATGAATTTTCATGTATGAGTTTGCCA
1 TATCCATGAA-TCTTCTTCTATAAATCTGCATGTATGAGTCTGCCA
* * *
44119945 TATCTATGAATCATCTTCAATAAATCTGCATGTATGAGTCTGCCA
1 TATCCATGAATCTTCTTCTATAAATCTGCATGTATGAGTCTGCCA
44119990 TATCCATGAATCTTCTTCT
1 TATCCATGAATCTTCTTCT
44120009 TTTGCATGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (45 bp):
TATCCATGAATCTTCTTCTATAAATCTGCATGTATGAGTCTGCCA
Found at i:44124946 original size:18 final size:18
Alignment explanation
Indices: 44124925--44124960 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44124915 ATCACTAAAA
*
44124925 AATAATAAATCATTAATT
1 AATAATAAATAATTAATT
*
44124943 AATAATTAATAATTAATT
1 AATAATAAATAATTAATT
44124961 TTCATAAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAAATAATTAATT
Found at i:44125657 original size:22 final size:23
Alignment explanation
Indices: 44125606--44125658 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
44125596 TCATCAAATA
44125606 ATAAAAGTTGTTTTTATTATTAGT
1 ATAAAAGTTGTTTTTA-TATTAGT
* *
44125630 ATTAAATGTTGTTTTTA-ATTTGT
1 A-TAAAAGTTGTTTTTATATTAGT
44125653 ATAAAA
1 ATAAAA
44125659 CTATAACACT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 1 0.04
25 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
ATAAAAGTTGTTTTTATATTAGT
Found at i:44126258 original size:18 final size:17
Alignment explanation
Indices: 44126235--44126269 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
44126225 GAATAGATTT
44126235 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
44126253 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
44126270 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:44127543 original size:43 final size:43
Alignment explanation
Indices: 44127154--44127598 Score: 361
Period size: 43 Copynumber: 10.4 Consensus size: 43
44127144 GCGTCGGTAA
* **
44127154 CTTTAGCGGCGCTTTTTACA-ATAAACGCCGCTATAGACAATGGT
1 CTTTAGCGGCGC-TTTTGCATA-AAACGCCGCTATAGACCTTGGT
* ** * *
44127198 CTTTAGCGGCGCTTATAAAT-AAACGCTGCTATAGACCATGGT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGGT
* ***
44127240 CTTTAGCGGCGCTTTTGCAGAAAACGCCGCTATAGACCTACAT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGGT
* * * *
44127283 CTTTAGCTGCGCTTCTGCATCAAACGCCGCTATAGACCATGGT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGGT
* * *
44127326 CTTTAGCGGCGCTTTTGCATCAAACGCCGTTATAGACCGTT-AT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACC-TTGGT
* * * * *
44127369 CTTTCA-CGGTGCTTTTGCATCAAATGTCGCTATAGACCGTGGT
1 CTTT-AGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGGT
* *** *
44127412 CTTTCGCGGCGCTTAACCTTAAAACGCCGCTATAGACC-TGGTT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGG-T
* * * *
44127455 CTTTAGCAGCGCTTTTCCATAAAACGCCACGATAGACC-TGGTT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGG-T
* * **
44127498 CTTTAGCGGCACTTTTCCATAAAACGCCGCTATAGACCTTATT
1 CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGGT
** * *
44127541 CTTTTAGCGGCG--TTTAAAAAAAATGCCGCTAT--ACCTCATGGT
1 C-TTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCT--TGGT
*
44127583 TTTTAGCGGCGCTTTT
1 CTTTAGCGGCGCTTTT
44127599 ATAAAAACGC
Statistics
Matches: 326, Mismatches: 62, Indels: 27
0.79 0.15 0.07
Matches are distributed among these distances:
40 4 0.01
41 10 0.03
42 58 0.18
43 230 0.71
44 24 0.07
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTGCATAAAACGCCGCTATAGACCTTGGT
Found at i:44127696 original size:14 final size:14
Alignment explanation
Indices: 44127679--44127708 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44127669 AATCAGAAGA
44127679 AACCAAATCTAACC
1 AACCAAATCTAACC
44127693 AACCAAATCTAACC
1 AACCAAATCTAACC
44127707 AA
1 AA
44127709 ATCTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCAAATCTAACC
Found at i:44127965 original size:21 final size:21
Alignment explanation
Indices: 44127917--44127972 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
44127907 TTAAGCTGTT
** *
44127917 CTGCTTCCCTCGCTGTAGCCT
1 CTGCTTCCCTCGCTACAGCCA
* *
44127938 CTACTTCCCTCGTTACAGCCA
1 CTGCTTCCCTCGCTACAGCCA
*
44127959 CTGCTTCTCTCGCT
1 CTGCTTCCCTCGCT
44127973 GTCGCATCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.09, C:0.43, G:0.14, T:0.34
Consensus pattern (21 bp):
CTGCTTCCCTCGCTACAGCCA
Found at i:44128069 original size:21 final size:21
Alignment explanation
Indices: 44128027--44128070 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44128017 TTAAACCTCA
** *
44128027 GCTTCTCTCGCTGTTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
44128048 GCTTCTCTCGCTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
44128069 GC
1 GC
44128071 CTTAAGTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.41, G:0.20, T:0.36
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:44128111 original size:87 final size:87
Alignment explanation
Indices: 44127959--44128138 Score: 247
Period size: 87 Copynumber: 2.1 Consensus size: 87
44127949 GTTACAGCCA
* * * *
44127959 CTGCTTCTCTCGCTGTCGCATCTTCTTTAAGCTGCTGCTGGAGTTGTTCATACTTTCATTAAACC
1 CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGCTGCTGCTGGAGTTCTTCATACTTTCATTAAACC
*
44128024 TCAGCTTCTCTCGCTGTTGCCT
66 TCAGCTTCTCTCGATGTTGCCT
* * *
44128046 CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAA
1 CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCATTAAA
44128109 CCTCAGCTTCTCTCGATGTTGCCT
64 CCTCAGCTTCTCTCGATGTTGCCT
*
44128133 CCGCTT
1 CTGCTT
44128139 TAAGTTATGT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
86 1 0.01
87 77 0.94
88 4 0.05
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.40
Consensus pattern (87 bp):
CTGCTTCTCTCGCTGCCGCATCTGCCTTAAGCTGCTGCTGGAGTTCTTCATACTTTCATTAAACC
TCAGCTTCTCTCGATGTTGCCT
Found at i:44134172 original size:27 final size:27
Alignment explanation
Indices: 44134157--44134212 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
44134147 ATAATGTAAT
*
44134157 TTTTAAAAATTGTTAATACAATTAAAA
1 TTTTAAAAATTGTTAAAACAATTAAAA
*
44134184 TTTTAAAAATTGTTAATACAATTAAAA
1 TTTTAAAAATTGTTAAAACAATTAAAA
44134211 TT
1 TT
44134213 ATCTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
TTTTAAAAATTGTTAAAACAATTAAAA
Found at i:44134652 original size:19 final size:20
Alignment explanation
Indices: 44134628--44134668 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
44134618 TATTAATATT
*
44134628 AAAAATGATATAAACTT-TA
1 AAAAATGATAAAAACTTATA
*
44134647 AAAAATTATAAAAACTTATA
1 AAAAATGATAAAAACTTATA
44134667 AA
1 AA
44134669 TATTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATGATAAAAACTTATA
Found at i:44134673 original size:19 final size:20
Alignment explanation
Indices: 44134651--44134689 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
44134641 ACTTTAAAAA
*
44134651 ATTATAAAAA-CTTATAAAT
1 ATTATAAAAATCTAATAAAT
44134670 ATTATAAAAATCTAATAAAT
1 ATTATAAAAATCTAATAAAT
44134690 TATAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTATAAAAATCTAATAAAT
Found at i:44134699 original size:8 final size:8
Alignment explanation
Indices: 44134591--44134699 Score: 55
Period size: 8 Copynumber: 12.9 Consensus size: 8
44134581 AAGTATTAGA
*
44134591 AAAATTAG
1 AAAATTAT
44134599 AAAATTAT
1 AAAATTAT
*
44134607 AAAAGTA-
1 AAAATTAT
44134614 AAAA-TATT
1 AAAATTA-T
*
44134622 AATATTA-
1 AAAATTAT
44134629 AAAATGATAT
1 AAAAT--TAT
* *
44134639 AAACTTTAA
1 AAA-ATTAT
44134648 AAAATTAT
1 AAAATTAT
44134656 AAAAACTTAT
1 -AAAA-TTAT
44134666 AAATATTAT
1 AAA-ATTAT
44134675 AAAAATCTA-
1 -AAAAT-TAT
44134684 ATAAATTAT
1 A-AAATTAT
44134693 AAAATTA
1 AAAATTA
44134700 ACAAACCTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
6 2 0.03
7 8 0.10
8 28 0.35
9 27 0.34
10 13 0.16
11 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:44135516 original size:16 final size:16
Alignment explanation
Indices: 44135495--44135525 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44135485 TTAAATGGAG
44135495 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
44135511 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
44135526 GAGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:44137086 original size:23 final size:23
Alignment explanation
Indices: 44137043--44137087 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44137033 TGCTTTTGTA
*
44137043 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
44137066 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
44137088 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:44138465 original size:113 final size:113
Alignment explanation
Indices: 44138200--44138546 Score: 514
Period size: 113 Copynumber: 3.1 Consensus size: 113
44138190 GCTTAACGCC
* * * *
44138200 AAACGCCGCTGGAGAACGGAGTATTAGCAGCGTTTGGGCAACAACCGCCACTAGTGTTCCCAAAT
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGATTGGGCAA-AACCGCCACTAATGTTCCCAAAT
* * *
44138265 ATATGAAAATGGCGTCATTCTGTGTTACTCTATTTGCGACGCTTTTTGTA
65 ATATGAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCGGCGCTTTTTGTA
*
44138315 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGATTGGGCAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGATTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * *
44138380 TATGAAAACGGCGTTGTTCTGTGTTACTCCATTGCGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
* * * * *
44138428 AAACGCCACTGAAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAAAGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGATTGGGCAAAACCGCCACTAATGTTCCCAAATA
* *
44138493 TATGAAAACGTCGTCGTTCTGTGTCACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
44138541 AAACGC
1 AAACGC
44138547 TGCTAATGCT
Statistics
Matches: 210, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
113 123 0.59
114 50 0.24
115 37 0.18
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGATTGGGCAAAACCGCCACTAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
Found at i:44140469 original size:44 final size:44
Alignment explanation
Indices: 44140411--44140528 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 44
44140401 GGAGATTTTG
* *
44140411 TGTAAGACTA-TGTCTGGGACGTTGGCATTGTT-TTGAGATTTACG
1 TGTAAGACCACTGTCTGGGACGTTGGCATTGTTATT-AGA-TTACA
* * *
44140455 TGTAATACC-CTGTCTGGGATAG-TGGCATTGTTATTTGATTACA
1 TGTAAGACCACTGTCTGGGA-CGTTGGCATTGTTATTAGATTACA
*
44140498 TGTAAGACCAC-GTCTGGGACTTTGGCATTGT
1 TGTAAGACCACTGTCTGGGACGTTGGCATTGT
44140529 ACGAGCTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
43 29 0.48
44 29 0.48
45 3 0.05
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.37
Consensus pattern (44 bp):
TGTAAGACCACTGTCTGGGACGTTGGCATTGTTATTAGATTACA
Found at i:44149796 original size:15 final size:14
Alignment explanation
Indices: 44149772--44149809 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
44149762 GTTTGCCAGT
44149772 AAAATG-TTTTTCGG
1 AAAATGATTTTT-GG
44149786 AAAATGATTTTTGG
1 AAAATGATTTTTGG
44149800 AAAATGATTT
1 AAAATGATTT
44149810 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (14 bp):
AAAATGATTTTTGG
Found at i:44149823 original size:19 final size:19
Alignment explanation
Indices: 44149801--44149838 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44149791 GATTTTTGGA
44149801 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
44149820 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
44149839 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:44149940 original size:18 final size:18
Alignment explanation
Indices: 44149914--44149956 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
44149904 AAAAGCTGTT
*
44149914 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
*
44149932 TTTATATATATTAATAAG
1 TTTATATATATTAATAAA
44149950 TTTATAT
1 TTTATAT
44149957 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:44149961 original size:16 final size:16
Alignment explanation
Indices: 44149919--44149961 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
44149909 CTGTTTTTAC
*
44149919 ATATATTAATAAATTT
1 ATATTTTAATAAATTT
*
44149935 ATATATATTAATAAGTTT
1 ATAT-T-TTAATAAATTT
44149953 ATATTTTAA
1 ATATTTTAA
44149962 ATTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTTTAATAAATTT
Found at i:44151169 original size:32 final size:32
Alignment explanation
Indices: 44151123--44151183 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
44151113 TGTCAATCAT
44151123 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
44151155 TTCAATATCTAACAAGCTTAAAGCATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
44151184 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:44151208 original size:27 final size:27
Alignment explanation
Indices: 44151156--44151210 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
44151146 CATAATAAAT
*
44151156 TCAATATCTAACAAGCTTAAAGCATAA
1 TCAATATCTAACAAGATTAAAGCATAA
*
44151183 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATTAAAG-CATAA
44151210 T
1 T
44151211 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAGCATAA
Found at i:44154209 original size:16 final size:16
Alignment explanation
Indices: 44154185--44154219 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
44154175 AAAACTTTCT
44154185 TCACAACAACTACACA
1 TCACAACAACTACACA
*
44154201 TCACCACAACTACACA
1 TCACAACAACTACACA
44154217 TCA
1 TCA
44154220 AGATTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (16 bp):
TCACAACAACTACACA
Found at i:44155302 original size:28 final size:28
Alignment explanation
Indices: 44155260--44155314 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
44155250 ATATTATAAT
* *
44155260 AAAAATCCTAATTATTTTTAAAGTATTA
1 AAAAATCATAATTATTATTAAAGTATTA
*
44155288 AAAAATCATATTTATTATTAAAGTATT
1 AAAAATCATAATTATTATTAAAGTATT
44155315 TATACAATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (28 bp):
AAAAATCATAATTATTATTAAAGTATTA
Found at i:44166367 original size:19 final size:20
Alignment explanation
Indices: 44166333--44166371 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
44166323 ATTGTTAAAA
*
44166333 TTAAAAATCATTAAAATTAT
1 TTAAAAATCATAAAAATTAT
44166353 TTAAAAAT-ATAAAAATTAT
1 TTAAAAATCATAAAAATTAT
44166372 AAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATCATAAAAATTAT
Found at i:44166405 original size:29 final size:29
Alignment explanation
Indices: 44166322--44166405 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 29
44166312 TTATAACAGC
*
44166322 TATTGTTAAAA-TTAAAAATCATTAAA-AT
1 TATT-TTAAAATTTAAAAATAATTAAATAT
* * * *
44166350 TATTTAAAAATATAAAAATTATAAAATAT
1 TATTTTAAAATTTAAAAATAATTAAATAT
44166379 T-TTTTAAAATTTAGAAAATAATTAAAT
1 TATTTTAAAATTTA-AAAATAATTAAAT
44166406 GTTGATGTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
27 5 0.11
28 26 0.58
29 14 0.31
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (29 bp):
TATTTTAAAATTTAAAAATAATTAAATAT
Found at i:44175118 original size:25 final size:25
Alignment explanation
Indices: 44175064--44175118 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
44175054 AAAAACTAAC
**
44175064 AAAAA-TTAAAATAAATATTTTCCA
1 AAAAATTTAAAATAAATATTTTAAA
* *
44175088 ACAAATTTAAAATAAATTTTTTAAA
1 AAAAATTTAAAATAAATATTTTAAA
44175113 AAAAAT
1 AAAAAT
44175119 CTTTATACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAATTTAAAATAAATATTTTAAA
Found at i:44175242 original size:22 final size:22
Alignment explanation
Indices: 44175217--44175259 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44175207 GAAATGTTAG
*
44175217 CAAAACAGTGGGAAAACAACAA
1 CAAAACAGTGGAAAAACAACAA
*
44175239 CAAAATAGTGGAAAAACAACA
1 CAAAACAGTGGAAAAACAACA
44175260 GTTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.07
Consensus pattern (22 bp):
CAAAACAGTGGAAAAACAACAA
Found at i:44178765 original size:18 final size:19
Alignment explanation
Indices: 44178739--44178774 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44178729 ACCCAAAAAT
44178739 AGTAAAAATT-TATTTTTA
1 AGTAAAAATTCTATTTTTA
*
44178757 AGTATAAATTCTATTTTT
1 AGTAAAAATTCTATTTTT
44178775 TGAGAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
AGTAAAAATTCTATTTTTA
Found at i:44181189 original size:5 final size:5
Alignment explanation
Indices: 44181172--44181211 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
44181162 TGCCTAAGAT
* *
44181172 TTGAA TTGGA TTGAA TTGAA TATGAA TTGTA TTGAA TTGA
1 TTGAA TTGAA TTGAA TTGAA T-TGAA TTGAA TTGAA TTGA
44181212 GCTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (5 bp):
TTGAA
Found at i:44189429 original size:31 final size:32
Alignment explanation
Indices: 44189373--44189433 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
44189363 TATAAAATGA
*
44189373 TCACACAACTATTTGACTTTTTTCTTTTTTGG
1 TCACACAACTATTTGACATTTTTCTTTTTTGG
*
44189405 TCACCCAACTATTTGA-ATTTTTCTTTTTT
1 TCACACAACTATTTGACATTTTTCTTTTTT
44189434 AGTTATCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (32 bp):
TCACACAACTATTTGACATTTTTCTTTTTTGG
Found at i:44194183 original size:2 final size:2
Alignment explanation
Indices: 44194176--44194210 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
44194166 GACTCCGCCG
*
44194176 TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
44194211 GTGTCGCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:44208884 original size:30 final size:30
Alignment explanation
Indices: 44208850--44208912 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
44208840 GTAAGGAAAG
*
44208850 TAGTGGAGGATGATAATCGATGGGCTGAGA
1 TAGTGGAGGATGATAATCGATAGGCTGAGA
44208880 TAGTGGAGGATGATAATCGATAGGCTGAGA
1 TAGTGGAGGATGATAATCGATAGGCTGAGA
44208910 TAG
1 TAG
44208913 GGCATCTGCA
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:0.32, C:0.06, G:0.38, T:0.24
Consensus pattern (30 bp):
TAGTGGAGGATGATAATCGATAGGCTGAGA
Found at i:44213487 original size:106 final size:106
Alignment explanation
Indices: 44213299--44213522 Score: 423
Period size: 106 Copynumber: 2.1 Consensus size: 106
44213289 TTCTCCGAAA
44213299 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
1 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
44213364 AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
66 AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
44213405 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
1 TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
*
44213470 AACCTAACCTAATAAGTAAGTAAATATATTTCAGAATTTAT
66 AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
44213511 TA-GAGCTTGATA
1 TAGGA-CTTGATA
44213523 GACTTACCTT
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 2 0.02
106 114 0.98
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (106 bp):
TAGGACTTGATACTCATGGTTTGCATAATTCAACAATTTAATCCTAGCACATTAGCATCTCAAAT
AACCTAACCTAAGAAGTAAGTAAATATATTTCAGAATTTAT
Found at i:44214310 original size:7 final size:6
Alignment explanation
Indices: 44214294--44214345 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
44214284 ATTTTCCTGC
* *
44214294 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
44214344 AA
1 AA
44214346 TAGAAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 7 0.17
8 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:44214329 original size:25 final size:26
Alignment explanation
Indices: 44214299--44214360 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
44214289 CCTGCAAAAA
44214299 TAAAAATGAAAATAA-AATAA-AATAG
1 TAAAAAT-AAAATAATAATAATAATAG
44214324 TAAAAAT-AAATAATAATAATAATAG
1 TAAAAATAAAATAATAATAATAATAG
44214349 -AAAAATTAAAAT
1 TAAAAA-TAAAAT
44214361 GTTTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 6 0.18
24 10 0.30
25 13 0.39
26 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (26 bp):
TAAAAATAAAATAATAATAATAATAG
Found at i:44223469 original size:24 final size:24
Alignment explanation
Indices: 44223424--44223470 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44223414 TATATATACC
44223424 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
44223448 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
44223471 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:44224200 original size:7 final size:7
Alignment explanation
Indices: 44224190--44224279 Score: 105
Period size: 7 Copynumber: 12.7 Consensus size: 7
44224180 TTATTATATA
44224190 ATATAAT
1 ATATAAT
44224197 ATATAAT
1 ATATAAT
44224204 ATATAAT
1 ATATAAT
44224211 ATATAAT
1 ATATAAT
44224218 ATATAAT
1 ATATAAT
44224225 ATATAAT
1 ATATAAT
44224232 ATAT-AT
1 ATATAAT
44224238 ACT-TAA-
1 A-TATAAT
* *
44224244 AAATTAAG
1 ATA-TAAT
44224252 ATATAAT
1 ATATAAT
44224259 ATTATAAT
1 A-TATAAT
44224267 ATTATAAT
1 A-TATAAT
44224275 ATATA
1 ATATA
44224280 TTTTAACTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
6 5 0.07
7 52 0.70
8 17 0.23
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:44236766 original size:43 final size:45
Alignment explanation
Indices: 44236689--44236851 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 45
44236679 TAGCCCAGCT
* * * *
44236689 ATGGTCTTACATG-AAT--CATATATTGATGCTAATGTCCCATAC
1 ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
* *
44236731 ATGGTCTTACACGAAATCACATA-A-CGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
* * * * * *
44236774 ATGGTCTTACATGTAATCACATATATCGATG-CTATATCCCATAT
1 ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
*
44236818 ATGGTCTTACAC-AAAGTCTCATACATCGATGCCA
1 ATGGTCTTACACGAAA-TCACATACATCGATGCCA
44236852 TAGCTCAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
42 12 0.12
43 41 0.42
44 34 0.35
45 10 0.10
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (45 bp):
ATGGTCTTACACGAAATCACATACATCGATGCCAATGTCCCATAC
Found at i:44236828 original size:87 final size:87
Alignment explanation
Indices: 44236689--44236851 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 87
44236679 TAGCCCAGCT
* *
44236689 ATGGTCTTACATGAATCATATATTGATGCTAATGTCCCATACATGGTCTTACACGAAA-TCACAT
1 ATGGTCTTACATGAATCATATATCGATGCTAATATCCCATACATGGTCTTACAC-AAAGTCACAT
44236753 A-A-CGATGCCAATGTCCTAGAC
65 ACATCGATGCCAATGTCCTAGAC
* *
44236774 ATGGTCTTACATGTAATCACATATATCGATGCT-ATATCCCATATATGGTCTTACACAAAGTCTC
1 ATGGTCTTACATG-AAT--CATATATCGATGCTAATATCCCATACATGGTCTTACACAAAGTCAC
44236838 ATACATCGATGCCA
63 ATACATCGATGCCA
44236852 TAGCTCAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
85 13 0.19
86 6 0.09
87 27 0.40
88 14 0.21
89 8 0.12
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (87 bp):
ATGGTCTTACATGAATCATATATCGATGCTAATATCCCATACATGGTCTTACACAAAGTCACATA
CATCGATGCCAATGTCCTAGAC
Found at i:44236880 original size:88 final size:87
Alignment explanation
Indices: 44236668--44236870 Score: 224
Period size: 87 Copynumber: 2.3 Consensus size: 87
44236658 GTTATCGCAT
* * * *
44236668 ATCGATGTCAATAGCCCAGCTATGGTCTTACATGAAT--CATATATTGATGCTAATGTCCCATAC
1 ATCGATG-CCATAGCTCAGCTATGGTCTTACATGAATCACATATATCGATGCTAATATCCCATAC
44236731 ATGGTCTTACACGAAATCACATA
65 ATGGTCTTACACGAAATCACATA
44236754 A-CGATGCCA-ATG-TCCTAGAC-ATGGTCTTACATGTAATCACATATATCGATGCT-ATATCCC
1 ATCGATGCCATA-GCT-C-AG-CTATGGTCTTACATG-AATCACATATATCGATGCTAATATCCC
* *
44236814 ATATATGGTCTTACAC-AAAGTCTCATA
61 ATACATGGTCTTACACGAAA-TCACATA
44236841 CATCGATGCCATAGCTCAGCTATGGTCTTA
1 -ATCGATGCCATAGCTCAGCTATGGTCTTA
44236871 TACGAAATCA
Statistics
Matches: 98, Mismatches: 6, Indels: 24
0.77 0.05 0.19
Matches are distributed among these distances:
83 1 0.01
84 4 0.04
85 20 0.20
86 8 0.08
87 28 0.29
88 25 0.26
89 10 0.10
90 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (87 bp):
ATCGATGCCATAGCTCAGCTATGGTCTTACATGAATCACATATATCGATGCTAATATCCCATACA
TGGTCTTACACGAAATCACATA
Found at i:44238987 original size:15 final size:16
Alignment explanation
Indices: 44238967--44239004 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
44238957 TTTTAAACCT
44238967 ATAATTTAA-TAAAAA
1 ATAATTTAACTAAAAA
*
44238982 ATAA-TTAACTCAAAA
1 ATAATTTAACTAAAAA
44238997 ATAATTTA
1 ATAATTTA
44239005 TGCTTATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTTAACTAAAAA
Found at i:44240583 original size:126 final size:125
Alignment explanation
Indices: 44240379--44240908 Score: 715
Period size: 126 Copynumber: 4.2 Consensus size: 125
44240369 TGAAGTGGCA
* *
44240379 CCCACGTGTACGCGCTTTTGCTACAGTAGATCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
1 CCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
**
44240444 CAAATAGTTTAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAGCTTGTGAAATCGCG
66 CAAATAGTTTAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCG
* * *
44240504 TCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGA
1 CCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGA
* ** *
44240569 ACAAATAGTTTAAAAAAACGCTTCAAGCAGGACGCTTTATGAGAAGAATTTATGAAATCGCG
65 GCAAATAGTTT-AAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCG
* * *
44240631 CCCACATGAACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAG
1 CCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
* * * * *
44240696 CAAATAGTGTAAAACAATGCTGCAAGCAGGATGCTATT-TAAGAAGAATTTGTGAAATCGCG
66 CAAATAGTTTAAAA-AACGCTTCAAGCAGGATACT-TTATGAGAAGAATTTGTGAAATCGCG
* * * * * *
44240757 CCCTCGTGGACGCGTTTTTGCTACAATAGGTCTTGGAAAAATAATTTTGACTTGACGTTTCTGAG
1 CCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
* * * * * *
44240822 CAAATAGTAT-AAAATCTCTTCTAGTAGGATATTTTATGAGAAGAATTTGTGAAATCGCG
66 CAAATAGTTTAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCG
*
44240881 CCCACGTGGA-GCGATTTTGCTACAGTAG
1 CCCACGTGGACGCGCTTTTGCTACAGTAG
44240909 CATGTTTGGG
Statistics
Matches: 354, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
123 18 0.05
124 43 0.12
125 40 0.11
126 174 0.49
127 79 0.22
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (125 bp):
CCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAG
CAAATAGTTTAAAAAACGCTTCAAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCG
Found at i:44244166 original size:22 final size:22
Alignment explanation
Indices: 44244073--44244824 Score: 351
Period size: 21 Copynumber: 34.0 Consensus size: 22
44244063 TCAAATTATA
*
44244073 TTTAAGTTAAGGG-CTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
44244094 TTTAAGTTAAGTG-TT-GGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
44244114 TTTTATTTAATGG-TTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
44244135 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * **
44244157 TTTAATTTAA-GGATTA-CATT
1 TTTAAGTTAAGGGTTTAGGGTT
44244177 TATTAAGTTAAGGGTTTAGGGTT
1 T-TTAAGTTAAGGGTTTAGGGTT
* *
44244200 TTTAATTTAAGTG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
44244221 TTTAATTTAA-GGATTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
44244242 TTTAAGGTTTTAGGGTTTAAGGTT
1 TTTAA-G-TTAAGGGTTTAGGGTT
*
44244266 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
44244288 TTTAAGTTAAGAGTTTA-AGAT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
44244309 TTTAGGATTTTATGGTTTAGGGTT
1 TTTA--AGTTAAGGGTTTAGGGTT
* * * *
44244333 ATTAATTTAAGGATTTAGTG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
44244354 TTTAAGTTAATGGTTTAGGGTTTT
1 TTTAAGTTAAGGGTTTAGGG--TT
* *
44244378 AGGGTTTAGAGTTTAGGGTTTAAGGTT
1 ----TTTA-AGTTAAGGGTTTAGGGTT
*
44244405 TTTAAGTTAAAGGTTTAGGG--
1 TTTAAGTTAAGGGTTTAGGGTT
* *
44244425 TTTAGGGTTAAGGTTTGTA-GG--
1 TTTA-AGTTAAGGGTT-TAGGGTT
* *
44244446 -TTAAGGGTTTATGTGTTTAGGGTT
1 TTTAA--G-TTAAGGGTTTAGGGTT
* *
44244470 TTAAAGTTTTAGGGTTTAGGG--
1 TTTAAG-TTAAGGGTTTAGGGTT
* *
44244491 -TTAAGGTT-TGTAGGTTAAGGGTT
1 TTTAA-GTTAAG--GGTTTAGGGTT
* ** *
44244514 TATGTGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
44244536 TTTAGGGTTTAGGGTTTA-GGAT
1 TTTA-AGTTAAGGGTTTAGGGTT
* *
44244558 TTAAAGTTTTCAA--GTTAAGGGTTTAT
1 TTTAAG--TT-AAGGGTTTAGGG--T-T
* * * *
44244584 GGTTTATAGTTTTATGATTTAGGATT
1 --TTTA-AG-TTAAGGGTTTAGGGTT
*
44244610 TTTAAGTTAAGGGTTTAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
44244631 TTTAAGTTAAGGG-TTAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
44244652 TTTAAATTAAGGATTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
**
44244674 TTTAAGGTTTAA-GGTTTAAAGTT
1 TTTAA-G-TTAAGGGTTTAGGGTT
*
44244697 TTTAAGTTAAAGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
44244718 TTTAAGTTAAGGGTTT-GGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
44244739 TGTAGGTTAAGAGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
44244761 TTTAAATTAAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
44244783 TTTAATTTAAGGG-TTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
44244803 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
44244825 AGGGTTAGGG
Statistics
Matches: 549, Mismatches: 122, Indels: 119
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.00
20 52 0.09
21 185 0.34
22 175 0.32
23 65 0.12
24 32 0.06
25 3 0.01
26 2 0.00
27 4 0.01
28 10 0.02
29 20 0.04
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:44244166 original size:43 final size:43
Alignment explanation
Indices: 44244090--44244824 Score: 300
Period size: 43 Copynumber: 16.6 Consensus size: 43
44244080 TAAGGGCTAG
* * *
44244090 GGTTTTTAAGTTAAGTG-TT-GGGTTTTTTATTTAATGG-TTAC
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGTTTAA
* *
44244131 GGTTTTAAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGATTACA
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGTTTA-A
*
44244175 --TTTATTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GTGTTAG
1 GGTTT-TTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGT-TTAA
* * * *
44244217 GGTTTTTAATTTAA-GGATTAAGGTTTTTAAGGTTTTAGGGTTTAA
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA---TTTAAGGTTTAA
* *
44244262 GGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGAGTTTAA
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAG-GTTTAA
* * * * *
44244306 -GATTTTAGGATTTTATGGTTTAGGGTTATTAATTTAAGGATTT-A
1 GGTTTTTA--AGTTAAGGGTTTAGGGTTTTTAATTTAAGG-TTTAA
* *
44244350 -GTGTTTTAAGTTAATGGTTTAGGGTTTTAGGGTTTAGAGTTTAGGGTTTAA
1 GGT-TTTTAAGTTAAGGGTTTAGGG--TT----TTTA-A-TTTAAGGTTTAA
* ** *
44244401 GGTTTTTAAGTTAAAGGTTTAGGG--TTTAGGGTTAAGGTTTGTA
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTA-ATTTAAGGTTT-AA
* * * *
44244444 GG---TTAAGGGTTTATGTGTTTAGGGTTTTAAAGTTTTAGGGTTT-A
1 GGTTTTTAA--G-TTAAGGGTTTAGGGTTTTTAA--TTTAAGGTTTAA
* * * * * *
44244488 GG--GTTAAGGTT-TGTAGGTTAAGGGTTTAT-GTGTTAAGGGTTTAT
1 GGTTTTTAA-GTTAAG--GGTTTAGGGTTTTTAAT-TTAA-GGTTTAA
* * * * *
44244532 GGTTTTTAGGGTTTAGGGTTTAGGATTTAAAGTTTTCAAGTTAAGGGTTTAT
1 GGTTTTTA-AGTTAAGGGTTTAGG-------GTTTTTAATTTAA-GGTTTAA
* * * * * *
44244584 GGTTTAT-AGTTTTATGATTTAGGATTTTTAAGTTAAGGGTTTAA
1 GGTTTTTAAG-TTAAGGGTTTAGGGTTTTTAATTTAA-GGTTTAA
* * *
44244628 GG-TTTTAAGTTAAGGG-TTAGGTTTTTTAAATTAAGGATTTAT
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGG-TTTAA
* ** *
44244670 GGGTTTTAAGGTTTAA-GGTTTAAAGTTTTTAAGTTAAAGGTTT-A
1 GGTTTTTAA-G-TTAAGGGTTTAGGGTTTTTAA-TTTAAGGTTTAA
* * ** *
44244714 GGGTTTTAAGTTAAGGGTTT-GGGTTTGTAGGTTAAGAGTTTAT
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAG-GTTTAA
* * * *
44244757 GGTTTTTAAATTAAAGGTTTATGGTTTTTAATTTAAGGGTT-A
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGTTTAA
*
44244799 GGGTTTTAAGTTAAGGGTTTAGGGTT
1 GGTTTTTAAGTTAAGGGTTTAGGGTT
44244825 AGGGTTAGGG
Statistics
Matches: 535, Mismatches: 93, Indels: 131
0.70 0.12 0.17
Matches are distributed among these distances:
40 4 0.01
41 22 0.04
42 94 0.18
43 147 0.27
44 75 0.14
45 87 0.16
46 35 0.07
47 1 0.00
49 3 0.01
50 5 0.01
51 38 0.07
52 24 0.04
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (43 bp):
GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGTTTAA
Found at i:44244262 original size:15 final size:15
Alignment explanation
Indices: 44244242--44244553 Score: 63
Period size: 15 Copynumber: 21.3 Consensus size: 15
44244232 GATTAAGGTT
44244242 TTTAAGGTTTTAGGG
1 TTTAAGGTTTTAGGG
*
44244257 TTTAAGGTTTTTA--A
1 TTTAAGG-TTTTAGGG
*
44244271 TTTAAGGGTTTAGGG
1 TTTAAGGTTTTAGGG
* *
44244286 TTTTTAA-G-TTAAGAG
1 --TTTAAGGTTTTAGGG
* *
44244301 TTTAAGATTTTAGGAT
1 TTTAAGGTTTTAGG-G
*
44244317 TTTATGG-TTTAGGG
1 TTTAAGGTTTTAGGG
* *
44244331 TTATTAA--TTTAAGGA
1 -T-TTAAGGTTTTAGGG
*
44244346 TTT-AGTGTTTTA-AG
1 TTTAAG-GTTTTAGGG
44244360 -TTAATGG-TTTAGGG
1 TTTAA-GGTTTTAGGG
* * *
44244374 TTTTAGGGTTTAGAG
1 TTTAAGGTTTTAGGG
* * *
44244389 TTTAGGGTTTAAGGTT
1 TTTAAGGTTTTAGG-G
* *
44244405 TTTAA-G-TTAAAGG
1 TTTAAGGTTTTAGGG
*
44244418 TTT-AGGGTTTAGGG
1 TTTAAGGTTTTAGGG
44244432 -TTAAGGTTTGTA-GG
1 TTTAAGGTTT-TAGGG
* *
44244446 -TTAAGGGTTTATGTG
1 TTTAAGGTTTTA-GGG
* **
44244461 TTTAGGGTTTTAAAG
1 TTTAAGGTTTTAGGG
* *
44244476 TTTTAGGGTTTAGGG
1 TTTAAGGTTTTAGGG
44244491 -TTAAGGTTTGTA-GG
1 TTTAAGGTTT-TAGGG
* *
44244505 -TTAAGGGTTTA-TG
1 TTTAAGGTTTTAGGG
* *
44244518 TGTTAAGGGTTTATGGT
1 T-TTAAGGTTTTA-GGG
* *
44244535 TTTTAGGGTTTAGGG
1 TTTAAGGTTTTAGGG
44244550 TTTA
1 TTTA
44244554 GGATTTAAAG
Statistics
Matches: 212, Mismatches: 53, Indels: 64
0.64 0.16 0.19
Matches are distributed among these distances:
12 2 0.01
13 28 0.13
14 55 0.26
15 84 0.40
16 37 0.17
17 6 0.03
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
TTTAAGGTTTTAGGG
Found at i:44244357 original size:88 final size:85
Alignment explanation
Indices: 44244141--44244377 Score: 230
Period size: 88 Copynumber: 2.7 Consensus size: 85
44244131 GGTTTTAAAG
*
44244141 TTAAGGGTTTAGGGTTTTTAATTTAAGGA-TTACAT-TTATTAAGTTAAGGGTTTAGGGTTTTTA
1 TTAA-GGTTTAGGGTTTTTAATTTAAGGATTTA-GTGTT-TTAAGTTAAGGGTTTAGGGTTTTTA
* * * *
44244204 ATTTAAGTGTTAGGGTTTTTAAT
63 AGTTAAGAGTTAGAGATTTTAAT
* * * * *
44244227 TTAAGGATTAAGGTTTTTAAGGTTTTAGGGTTTAAG-GTTTTTAATTTAAGGGTTTAGGGTTTTT
1 TTAAGGTTTAGGGTTTTTAA--TTTAAGGATTT-AGTG-TTTTAAGTTAAGGGTTTAGGGTTTTT
44244291 AAGTTAAGAGTTTA-AGATTTTAGGATT
62 AAGTTAAGAG-TTAGAGATTTTA--A-T
* * *
44244318 TTATGGTTTAGGGTTATTAATTTAAGGATTTAGTGTTTTAAGTTAATGGTTTAGGGTTTT
1 TTAAGGTTTAGGGTTTTTAATTTAAGGATTTAGTGTTTTAAGTTAAGGGTTTAGGGTTTT
44244378 AGGGTTTAGA
Statistics
Matches: 122, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
85 14 0.11
86 4 0.03
87 6 0.05
88 64 0.52
89 16 0.13
90 1 0.01
91 17 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (85 bp):
TTAAGGTTTAGGGTTTTTAATTTAAGGATTTAGTGTTTTAAGTTAAGGGTTTAGGGTTTTTAAGT
TAAGAGTTAGAGATTTTAAT
Found at i:44244370 original size:29 final size:29
Alignment explanation
Indices: 44244338--44244402 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
44244328 GGGTTATTAA
* *
44244338 TTTAAGGATTTAGTGTTTTA-AGTTAATGG
1 TTTAAGGATTTAG-GGTTTAGAGTTAAGGG
* * *
44244367 TTTAGGGTTTTAGGGTTTAGAGTTTAGGG
1 TTTAAGGATTTAGGGTTTAGAGTTAAGGG
44244396 TTTAAGG
1 TTTAAGG
44244403 TTTTTAAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
TTTAAGGATTTAGGGTTTAGAGTTAAGGG
Found at i:44244385 original size:7 final size:7
Alignment explanation
Indices: 44244365--44244560 Score: 110
Period size: 7 Copynumber: 26.9 Consensus size: 7
44244355 TTAAGTTAAT
44244365 GGTTTAG
1 GGTTTAG
44244372 GGTTTTAG
1 GG-TTTAG
44244380 GGTTTAG
1 GGTTTAG
*
44244387 AGTTTAG
1 GGTTTAG
44244394 GGTTTAAG
1 GGTTT-AG
*
44244402 GTTTTTA-
1 G-GTTTAG
* * *
44244409 AGTTAAA
1 GGTTTAG
44244416 GGTTTAG
1 GGTTTAG
44244423 GGTTTAG
1 GGTTTAG
*
44244430 GGTTAAG
1 GGTTTAG
*
44244437 GTTTGTA-
1 GGTT-TAG
*
44244444 GGTTAAG
1 GGTTTAG
44244451 GGTTTATG
1 GGTTTA-G
*
44244459 TGTTTAG
1 GGTTTAG
*
44244466 GGTTTTAAA
1 GG-TTT-AG
*
44244475 GTTTTAG
1 GGTTTAG
44244482 GGTTTAG
1 GGTTTAG
*
44244489 GGTTAAG
1 GGTTTAG
*
44244496 GTTTGTA-
1 GGTT-TAG
*
44244503 GGTTAAG
1 GGTTTAG
44244510 GGTTTATG
1 GGTTTA-G
* *
44244518 TGTTAAG
1 GGTTTAG
44244525 GGTTTATG
1 GGTTTA-G
*
44244533 GTTTTTAG
1 G-GTTTAG
44244541 GGTTTAG
1 GGTTTAG
44244548 GGTTTAG
1 GGTTTAG
*
44244555 GATTTA
1 GGTTTA
44244561 AAGTTTTCAA
Statistics
Matches: 141, Mismatches: 34, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
6 5 0.04
7 93 0.66
8 34 0.24
9 9 0.06
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:44244486 original size:59 final size:58
Alignment explanation
Indices: 44244411--44244551 Score: 228
Period size: 59 Copynumber: 2.4 Consensus size: 58
44244401 GGTTTTTAAG
* *
44244411 TTAAAGGTTTAGGGTTTAGGGTTAAGGTTTGTAGGTTAAGGGTTTATGTGTTTAGGGTT
1 TTAAAGTTTTAGGGTTTAGGGTTAAGGTTTGTAGGTTAAGGGTTTATGTGTTAAGGG-T
44244470 TTAAAGTTTTAGGGTTTAGGGTTAAGGTTTGTAGGTTAAGGGTTTATGTGTTAAGGGT
1 TTAAAGTTTTAGGGTTTAGGGTTAAGGTTTGTAGGTTAAGGGTTTATGTGTTAAGGGT
**
44244528 TTATGGTTTTTAGGGTTTAGGGTT
1 TTAAAG-TTTTAGGGTTTAGGGTT
44244552 TAGGATTTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
58 5 0.06
59 72 0.94
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (58 bp):
TTAAAGTTTTAGGGTTTAGGGTTAAGGTTTGTAGGTTAAGGGTTTATGTGTTAAGGGT
Found at i:44244544 original size:16 final size:16
Alignment explanation
Indices: 44244505--44244552 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
44244495 GGTTTGTAGG
*
44244505 TTAAGGGTTTAT-GTG
1 TTAAGGGTTTATGGTT
44244520 TTAAGGGTTTATGGTT
1 TTAAGGGTTTATGGTT
* *
44244536 TTTAGGGTTTAGGGTT
1 TTAAGGGTTTATGGTT
44244552 T
1 T
44244553 AGGATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (16 bp):
TTAAGGGTTTATGGTT
Found at i:44244678 original size:64 final size:63
Alignment explanation
Indices: 44244609--44244824 Score: 233
Period size: 64 Copynumber: 3.4 Consensus size: 63
44244599 GATTTAGGAT
* *
44244609 TTTTAAGTTAAGGGTTTAAGGTTTTAAGTT-AAGGGTTAGGTTTTTTAAATTAAGGATTTATGGG
1 TTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAAGGTTTAGG-TTTTTAAATTAAGG-GTTATGGG
* * *
44244673 TTTTAAGGTTTAA-GGTTTAAAGTTTTTAAGTTAAAGGTTTAGGGTTTTAAGTTAAGGGTT-TGG
1 TTTTAA-G-TTAAGGGTTT-AAGGTTTTAAGTTAAAGGTTTAGGTTTTTAAATTAAGGGTTATGG
44244736 G
63 G
* * * * *
44244737 TTTGTAGGTTAAGAGTTTATGGTTTTTAAATTAAAGGTTTATGGTTTTTAATTTAAGGGTTA-GG
1 TTT-TAAGTTAAGGGTTTAAGG-TTTTAAGTTAAAGGTTTA-GGTTTTTAAATTAAGGGTTATGG
44244801 G
63 G
*
44244802 TTTTAAGTTAAGGGTTTAGGGTT
1 TTTTAAGTTAAGGGTTTAAGGTT
44244825 AGGGTTAGGG
Statistics
Matches: 128, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
63 8 0.06
64 50 0.39
65 33 0.26
66 28 0.22
67 9 0.07
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.46
Consensus pattern (63 bp):
TTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAAGGTTTAGGTTTTTAAATTAAGGGTTATGGG
Found at i:44244699 original size:87 final size:86
Alignment explanation
Indices: 44244608--44244824 Score: 276
Period size: 87 Copynumber: 2.5 Consensus size: 86
44244598 TGATTTAGGA
* * *
44244608 TTTTTAAGTTAAGGGTTTAAGGTTTTAAGTTAAGGGTTAGGTTTTTTAAATTAAG-GATTTATGG
1 TTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAAGGGTTAGGGTTTGTAAATTAAGAG-TTTATGG
* *
44244672 GTTTTAAGGTTTAAGGTTTAAAG
65 GTTTTAA-ATTAAAGGTTTAAAG
* * ** *
44244695 TTTTTAAGTTAAAGGTTTAGGGTTTTAAGTTAAGGGTTTGGGTTTGTAGGTTAAGAGTTTATGGT
1 TTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAAGGGTTAGGGTTTGTAAATTAAGAGTTTATGGG
**
44244760 TTTTAAATTAAAGGTTTATGG
66 TTTTAAATTAAAGGTTTAAAG
*
44244781 TTTTTAATTTAAGGG-TTAGGGTTTTAAGTTAAGGGTTTAGGGTT
1 TTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAAGGG-TTAGGGTT
44244825 AGGGTTAGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
85 20 0.18
86 31 0.27
87 61 0.54
88 1 0.01
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (86 bp):
TTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAAGGGTTAGGGTTTGTAAATTAAGAGTTTATGGG
TTTTAAATTAAAGGTTTAAAG
Found at i:44244846 original size:34 final size:33
Alignment explanation
Indices: 44244792--44244858 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
44244782 TTTTAATTTA
*
44244792 AGGGTTAGGGTTTTAAGTTAAGGGTTTAGGGTT
1 AGGGTTAGGGTTTTAAGTTAAGGGTTTAAGGTT
*
44244825 AGGGTTAGGGTTTTTAGGTTAAGGGTTTAAGGTT
1 AGGGTTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
44244859 TGTCAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 10 0.32
34 21 0.68
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (33 bp):
AGGGTTAGGGTTTTAAGTTAAGGGTTTAAGGTT
Found at i:44245429 original size:18 final size:18
Alignment explanation
Indices: 44245403--44245444 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44245393 GACTCGGAAA
* *
44245403 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
44245421 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
44245439 AGGAAA
1 AGGAAA
44245445 AGCACTTGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.29, T:0.17
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:44246223 original size:20 final size:20
Alignment explanation
Indices: 44246198--44246235 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44246188 TTGTTTTTTA
44246198 AAAATCTAA-ATAATAATTGT
1 AAAATCTAATATAA-AATTGT
44246218 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
44246236 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Done.