Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 73
Found at i:3620798 original size:22 final size:22
Alignment explanation
Indices: 3620770--3620841 Score: 99
Period size: 22 Copynumber: 3.3 Consensus size: 22
3620760 TCCCATAAAT
3620770 GAAGTGCCTTAGCACTGGTACG
1 GAAGTGCCTTAGCACTGGTACG
*
3620792 GAAGTGCCTTATCACTGGTACG
1 GAAGTGCCTTAGCACTGGTACG
* * * *
3620814 TAAATGCCTTAGCACTGATATG
1 GAAGTGCCTTAGCACTGGTACG
3620836 GAAGTG
1 GAAGTG
3620842 TGTTAGTACT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (22 bp):
GAAGTGCCTTAGCACTGGTACG
Found at i:3621470 original size:20 final size:19
Alignment explanation
Indices: 3621417--3621470 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
3621407 CCTATCCTTG
*
3621417 GTATTGATACTAAATAACAT
1 GTATTGATACT-AAGAACAT
3621437 G-ATTGATACCCTAAGAACAGT
1 GTATTGATA--CTAAGAACA-T
3621458 GTATTGATACTAA
1 GTATTGATACTAA
3621471 TAACCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 7 0.24
20 11 0.38
21 4 0.14
22 7 0.24
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (19 bp):
GTATTGATACTAAGAACAT
Found at i:3628911 original size:25 final size:25
Alignment explanation
Indices: 3628877--3628926 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
3628867 ATGAGCTTTA
* *
3628877 GAAGTTCTTATCAAGCG-AATTGATC
1 GAAGTGCTTATAAAG-GAAATTGATC
3628902 GAAGTGCTTATAAAGGAAATTGATC
1 GAAGTGCTTATAAAGGAAATTGATC
3628927 TTGAGTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (25 bp):
GAAGTGCTTATAAAGGAAATTGATC
Found at i:3633355 original size:177 final size:176
Alignment explanation
Indices: 3633065--3633398 Score: 487
Period size: 177 Copynumber: 1.9 Consensus size: 176
3633055 TTTAATATAT
* * *
3633065 AAAAAAAGAGATTAGAAAATGTATTTTCTTCTATTTCCTATCCTATTTCCTTCATTTTCCAAGTA
1 AAAAAAAGAGACTAGAAAACGTATATTCTTCTATTTCCTATCCTATTTCCTTCATTTTCCAAGTA
*
3633130 ACCAAACATTCATTTTGTAATTTCTCAAAAATGTAAGACAAACCCATATATCTA-AAGATGGAGT
66 ACCAAACATTCATTTTGTAATTTCTCAAAAAAGTAAGACAAACCCATATATCTAGAA-ATGGAGT
* * *
3633194 TT-TTTTATTTAAATAGAAAAAAAATCAAAGCTTTAACATGATCAAAGA
130 TTCCTTT-CTAAAATAG-AAAAAAATCAAAGCTTTAACATGATCAAAGA
* **
3633242 AAAAAAAGAGACTAGAAAACGTATATTCTTCTATTTTCTATCCTATTTCCTTCATTTTCCGTGTA
1 AAAAAAAGAGACTAGAAAACGTATATTCTTCTATTTCCTATCCTATTTCCTTCATTTTCCAAGTA
* *
3633307 ACCAAACATTGCATTTTGTAATTTCT-AAACAAAGTAA-ACAACCCCATATGTCTAGAAATGGAG
66 ACCAAACATT-CATTTTGTAATTTCTCAAA-AAAGTAAGACAAACCCATATATCTAGAAATGGAG
3633370 TTTCCTTTCTAAAATAGAAAAAAATCAAA
129 TTTCCTTTCTAAAATAGAAAAAAATCAAA
3633399 ACAATTTTTA
Statistics
Matches: 141, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
176 12 0.09
177 103 0.73
178 26 0.18
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.34
Consensus pattern (176 bp):
AAAAAAAGAGACTAGAAAACGTATATTCTTCTATTTCCTATCCTATTTCCTTCATTTTCCAAGTA
ACCAAACATTCATTTTGTAATTTCTCAAAAAAGTAAGACAAACCCATATATCTAGAAATGGAGTT
TCCTTTCTAAAATAGAAAAAAATCAAAGCTTTAACATGATCAAAGA
Found at i:3633879 original size:30 final size:30
Alignment explanation
Indices: 3633845--3633912 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
3633835 AATTATCTCA
*
3633845 TTCATACATTAAGTATAT-CAAATTCTCAGT
1 TTCATACATTAA-TATATAAAAATTCTCAGT
* * *
3633875 TTCATAC-GTAATATTTAAAAATTCTCATT
1 TTCATACATTAATATATAAAAATTCTCAGT
3633904 TTCATACAT
1 TTCATACAT
3633913 GATGTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 4 0.13
29 20 0.65
30 7 0.23
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (30 bp):
TTCATACATTAATATATAAAAATTCTCAGT
Found at i:3633920 original size:29 final size:29
Alignment explanation
Indices: 3633864--3633921 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
3633854 TAAGTATATC
*
3633864 AAATTCTCAGTTTCATACGTAATATTTAA
1 AAATTCTCAGTTTCATACATAATATTTAA
* * *
3633893 AAATTCTCATTTTCATACATGATGTTTAA
1 AAATTCTCAGTTTCATACATAATATTTAA
3633922 TTTAAATTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (29 bp):
AAATTCTCAGTTTCATACATAATATTTAA
Found at i:3634110 original size:239 final size:239
Alignment explanation
Indices: 3633691--3634158 Score: 873
Period size: 239 Copynumber: 2.0 Consensus size: 239
3633681 ATATGGTATA
3633691 CTACATGATGTATTTAAGATATACGATGCTCACATTTATGGGTTTAATGGGCCATAATGGGGCCT
1 CTACATGATGTATTTAAGATATACGATGCTCACATTTATGGGTTTAATGGGCCATAATGGGGCCT
*
3633756 ATGATTGTAATTTAAATTTTGTTTTTTAAAATTTTCAATAGATATAAAAGAAACTTGTGTTGGAA
66 ATGATTGTAATTTAAATTTTGTTTTTTAAAATTTTCAATAGATATAAAAGAAACTTGTGGTGGAA
* *
3633821 AATTTATTTATGTTAATTATCTCATTCATACATTAAGTATATCAAATTCTCAGTTTCATACGTAA
131 AATTTATTTAGGTTAATTATCTCATTCATACATTAAGTATACCAAATTCTCAGTTTCATACGTAA
*
3633886 TATTTAAAAATTCTCATTTTCATACATGATGTTTAATTTAAATT
196 TACTTAAAAATTCTCATTTTCATACATGATGTTTAATTTAAATT
3633930 CTACATGATGTATTTAAGATATACGATGCTCACATTTATGGGTTTAATGGGCCATAATGGGGCCT
1 CTACATGATGTATTTAAGATATACGATGCTCACATTTATGGGTTTAATGGGCCATAATGGGGCCT
*
3633995 ATGATTGTAATTTATATTTTGTTTTTTAAAATTTTCAATAGATATAAAAGAAACTTGTGGTGGAA
66 ATGATTGTAATTTAAATTTTGTTTTTTAAAATTTTCAATAGATATAAAAGAAACTTGTGGTGGAA
*
3634060 AATTTATTTCGGTTAATTATCTCATTCATACATTAAGTATACCAAATTCTCAGTTTCATACGTAA
131 AATTTATTTAGGTTAATTATCTCATTCATACATTAAGTATACCAAATTCTCAGTTTCATACGTAA
*
3634125 TGCTTAAAAATTCTCATTTTCATACATGATGTTT
196 TACTTAAAAATTCTCATTTTCATACATGATGTTT
3634159 TATACCGTTA
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
239 222 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (239 bp):
CTACATGATGTATTTAAGATATACGATGCTCACATTTATGGGTTTAATGGGCCATAATGGGGCCT
ATGATTGTAATTTAAATTTTGTTTTTTAAAATTTTCAATAGATATAAAAGAAACTTGTGGTGGAA
AATTTATTTAGGTTAATTATCTCATTCATACATTAAGTATACCAAATTCTCAGTTTCATACGTAA
TACTTAAAAATTCTCATTTTCATACATGATGTTTAATTTAAATT
Found at i:3636738 original size:81 final size:81
Alignment explanation
Indices: 3636625--3637038 Score: 639
Period size: 81 Copynumber: 5.1 Consensus size: 81
3636615 ATTCCTTTAG
* * * * * *
3636625 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
3636690 ACAGCTACGCTATTAA
66 ACAGCTAGGCCATTAA
* * *
3636706 TCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTAGCATAATTGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
3636771 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
3636787 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTAACACCTTTCTGTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
3636852 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
3636868 TCTTTTACTCAAAGATATTTAACCTTTCATCTAACTGGCATAATTGACAACTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
3636933 ACAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
*
3636949 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
3637014 ACAGTTAGGCCATTAG
66 ACAGCTAGGCCATTAA
3637030 TCTTTTACT
1 TCTTTTACT
3637039 TTAGAATAGT
Statistics
Matches: 303, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 303 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:3641611 original size:13 final size:13
Alignment explanation
Indices: 3641593--3641617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3641583 TAAGATACAT
3641593 AAGTTGAGTTTCA
1 AAGTTGAGTTTCA
3641606 AAGTTGAGTTTC
1 AAGTTGAGTTTC
3641618 TTAATGGTAA
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:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (13 bp):
AAGTTGAGTTTCA
Found at i:3668627 original size:11 final size:11
Alignment explanation
Indices: 3668613--3668644 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3668603 ATTACATGGC
3668613 ATTTACTTTAT
1 ATTTACTTTAT
3668624 ATTTACTTTAT
1 ATTTACTTTAT
*
3668635 ATTTAGTTTA
1 ATTTACTTTA
3668645 GTTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTTACTTTAT
Found at i:3676384 original size:152 final size:153
Alignment explanation
Indices: 3676178--3676484 Score: 589
Period size: 152 Copynumber: 2.0 Consensus size: 153
3676168 GCATAAGGAT
3676178 TAAATCCTTCCTACCTCAAAAAGGTCTTTAATGATAAACTACTTCGATTTGAGGACAAATCGCCT
1 TAAATCCTTCCTACCTCAAAAAGGTCTTTAATGATAAACTACTTCGATTTGAGGACAAATCGCCT
3676243 AAAAGAAGGGGATGATGATACAATCCAAACTAGCTCACACTTTCTCCATGACTTGATCACACCAT
66 AAAAGAAGGGGATGATGATACAATCCAAACTAGCTCACACTTTCTCCATGACTTGATCACACCAT
3676308 G-GTTCTTCAAAGCTGATTCTAA
131 GAGTTCTTCAAAGCTGATTCTAA
3676330 TAAATCCTTCCTACCTCAAAAAGGTCTTTAATGATAAACTACTTCGATTTGAGGACAAATCGCCT
1 TAAATCCTTCCTACCTCAAAAAGGTCTTTAATGATAAACTACTTCGATTTGAGGACAAATCGCCT
3676395 AAAAGAAGGGGATGATGATACAATCCAAACTAGCTCACACTTTCTCCATGACTTGATCACACCAT
66 AAAAGAAGGGGATGATGATACAATCCAAACTAGCTCACACTTTCTCCATGACTTGATCACACCAT
3676460 GAATGTTCTTCAAAGCTGATTCTAA
131 G-A-GTTCTTCAAAGCTGATTCTAA
3676485 GGGAGTTCTT
Statistics
Matches: 152, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
152 131 0.86
155 21 0.14
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (153 bp):
TAAATCCTTCCTACCTCAAAAAGGTCTTTAATGATAAACTACTTCGATTTGAGGACAAATCGCCT
AAAAGAAGGGGATGATGATACAATCCAAACTAGCTCACACTTTCTCCATGACTTGATCACACCAT
GAGTTCTTCAAAGCTGATTCTAA
Found at i:3678424 original size:32 final size:32
Alignment explanation
Indices: 3678357--3678557 Score: 185
Period size: 32 Copynumber: 6.3 Consensus size: 32
3678347 TGATGTAATC
* ** *
3678357 AGATAATTC-CAACAGTGTTAGTGTCGTATTC
1 AGATAATGCACAACAGTGTTAGTGTCACATTT
* *
3678388 AGATAATGCACAACGGTGTTAATGTCACATTT
1 AGATAATGCACAACAGTGTTAGTGTCACATTT
*
3678420 AGATAATGCACAACGGTGTTAGTGTCACATTT
1 AGATAATGCACAACAGTGTTAGTGTCACATTT
* *
3678452 AGATAATGCACAAC-GATGTCAGCT-TCACATTC
1 AGATAATGCACAACAG-TGTTAG-TGTCACATTT
* ** * *
3678484 AAATAATAG-ACATTAGTGTTATTTTCACATTT
1 AGATAAT-GCACAACAGTGTTAGTGTCACATTT
* ** *
3678516 AGATAATACACAACAGAATTAGTGTCGCATTT
1 AGATAATGCACAACAGTGTTAGTGTCACATTT
3678548 AGATAATGCA
1 AGATAATGCA
3678558 AAGAAATTAC
Statistics
Matches: 138, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
31 10 0.07
32 125 0.91
33 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (32 bp):
AGATAATGCACAACAGTGTTAGTGTCACATTT
Found at i:3679052 original size:20 final size:18
Alignment explanation
Indices: 3678997--3679061 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 18
3678987 TGCTCGGTGC
3678997 TTTTATTTATTTATTTA-
1 TTTTATTTATTTATTTAT
*
3679014 TTTTATTTTACTTTTTTTAT
1 TTTTA-TTTA-TTTATTTAT
3679034 TTTTATTTATGTTAATTTAT
1 TTTTATTTAT-TT-ATTTAT
*
3679054 TATTATTT
1 TTTTATTT
3679062 TTACAGGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 5 0.12
18 5 0.12
19 13 0.32
20 17 0.43
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTATTTATTTATTTAT
Found at i:3679147 original size:22 final size:24
Alignment explanation
Indices: 3679103--3679148 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
3679093 CTAAAATTAC
3679103 ATTACAAGCCCAATCAGGCCCAAA
1 ATTACAAGCCCAATCAGGCCCAAA
*
3679127 ATTAC-AGCCCAA-CTGGCCCAAA
1 ATTACAAGCCCAATCAGGCCCAAA
3679149 CCAACCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.39, C:0.35, G:0.13, T:0.13
Consensus pattern (24 bp):
ATTACAAGCCCAATCAGGCCCAAA
Found at i:3679485 original size:17 final size:17
Alignment explanation
Indices: 3679463--3679505 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
3679453 CCAATTGTTG
3679463 CCATCTCCAACTCTCTT
1 CCATCTCCAACTCTCTT
3679480 CCATCTCCAACTCTCTT
1 CCATCTCCAACTCTCTT
3679497 CCATCTCCA
1 CCATCTCCA
3679506 TACCCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.19, C:0.49, G:0.00, T:0.33
Consensus pattern (17 bp):
CCATCTCCAACTCTCTT
Found at i:3687276 original size:42 final size:42
Alignment explanation
Indices: 3687215--3687294 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
3687205 ACTTATTAAG
*
3687215 TCCTTCGGGTCATCGATAAGTCTTTCGAGCATGATGATGAAA
1 TCCTTCGGGTCATCGATAAGTCTTTCGAGCAAGATGATGAAA
* *
3687257 TCCTTGGGGTCATCTATAAGTCTTTCGAGCAAGATGAT
1 TCCTTCGGGTCATCGATAAGTCTTTCGAGCAAGATGAT
3687295 AAGTATTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGTCATCGATAAGTCTTTCGAGCAAGATGATGAAA
Found at i:3688047 original size:4 final size:4
Alignment explanation
Indices: 3688038--3688072 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
3688028 ACCTGATCCT
3688038 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
3688073 GTATTTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:3688090 original size:11 final size:11
Alignment explanation
Indices: 3688037--3688121 Score: 54
Period size: 11 Copynumber: 7.8 Consensus size: 11
3688027 CACCTGATCC
3688037 TTTTA-TTTAT
1 TTTTATTTTAT
3688047 TTATT-TATTTAT
1 TT-TTAT-TTTAT
3688059 TTATT-TATTTAT
1 TT-TTAT-TTTAT
* *
3688071 TTGTATTTTGT
1 TTTTATTTTAT
3688082 TTTTATTTTAT
1 TTTTATTTTAT
3688093 TTTTA-TTTA-
1 TTTTATTTTAT
**
3688102 TGCTATTTTAT
1 TTTTATTTTAT
*
3688113 TATTATTTT
1 TTTTATTTT
3688122 TTAGGTTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
9 3 0.05
10 10 0.16
11 28 0.46
12 20 0.33
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:3695262 original size:21 final size:21
Alignment explanation
Indices: 3695238--3695324 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
3695228 AGCTCGTATA
*
3695238 AATTGAACCGAAGTG-CCACAT
1 AATTGTACCGAAG-GACCACAT
* * *
3695259 AATTGTTCTGAAGGACTACAT
1 AATTGTACCGAAGGACCACAT
* *
3695280 AGGTTTGCACCGAAGTG-CCACAT
1 A--ATTGTACCGAAG-GACCACAT
*
3695303 AATTGTCCCGAAGGACCACAT
1 AATTGTACCGAAGGACCACAT
3695324 A
1 A
3695325 TATACTCCTA
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
20 2 0.04
21 32 0.65
23 14 0.29
24 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
AATTGTACCGAAGGACCACAT
Found at i:3695902 original size:2 final size:2
Alignment explanation
Indices: 3695895--3695922 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3695885 ATATGGTTTC
3695895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3695923 CATACCACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3696000 original size:3 final size:3
Alignment explanation
Indices: 3695992--3696066 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
3695982 TCGATTCTCA
3695992 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3696040 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
3696067 ATATAAATGC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3700332 original size:23 final size:23
Alignment explanation
Indices: 3700306--3700354 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3700296 AAAGGACCAA
*
3700306 ATAGGTTTGCACCAAAGTTCCAC
1 ATAGGTTTGCACCAAAGTGCCAC
* **
3700329 ATAGGTTTTCACTGAAGTGCCAC
1 ATAGGTTTGCACCAAAGTGCCAC
3700352 ATA
1 ATA
3700355 ATTGTCCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (23 bp):
ATAGGTTTGCACCAAAGTGCCAC
Found at i:3701892 original size:20 final size:22
Alignment explanation
Indices: 3701867--3701921 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
3701857 TTCAGTCTCA
3701867 ATAGTATCGGTACT-CCCAT-T
1 ATAGTATCGGTACTACCCATCT
* * *
3701887 ATAGTACCGATACTACCCTTCT
1 ATAGTATCGGTACTACCCATCT
*
3701909 ATGGTATCGGTAC
1 ATAGTATCGGTAC
3701922 CCCCTTTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 12 0.44
21 4 0.15
22 11 0.41
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (22 bp):
ATAGTATCGGTACTACCCATCT
Found at i:3705523 original size:19 final size:20
Alignment explanation
Indices: 3705479--3705523 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3705469 TTTATTTTTT
*
3705479 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
3705499 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
3705518 AATAAA
1 AATAAA
3705524 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:3713507 original size:34 final size:34
Alignment explanation
Indices: 3713444--3713508 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
3713434 TAATCTAACC
* *
3713444 AAATATCTTTTAATATTCAACTTTAAAGAGAGAA
1 AAATATCTTTTAATATTAAAATTTAAAGAGAGAA
*
3713478 AAATATCTTTTAAT-TTAAAATATTCAAGAGA
1 AAATATCTTTTAATATTAAAAT-TTAAAGAGA
3713509 TAAACTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 5 0.19
34 22 0.81
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (34 bp):
AAATATCTTTTAATATTAAAATTTAAAGAGAGAA
Found at i:3715210 original size:60 final size:59
Alignment explanation
Indices: 3715135--3715255 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 59
3715125 TTCAATTTAC
3715135 TCCACTTACAATATCAAGTAGTCTTAGTAGTTAAAAGTGAATATTATTATCTTAGAAATT
1 TCCACTTACAATATCAAGTAGTCTTAGTAGTT-AAAGTGAATATTATTATCTTAGAAATT
*
3715195 TCCACTTACAATATCAAGTAGTCTTTGTAGTTAAAGTGAATATTATTATCTTAGAAATT
1 TCCACTTACAATATCAAGTAGTCTTAGTAGTTAAAGTGAATATTATTATCTTAGAAATT
3715254 TC
1 TC
3715256 GAATTCAAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 29 0.48
60 31 0.52
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (59 bp):
TCCACTTACAATATCAAGTAGTCTTAGTAGTTAAAGTGAATATTATTATCTTAGAAATT
Found at i:3716051 original size:19 final size:19
Alignment explanation
Indices: 3716027--3716070 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3716017 ATATACACTT
*
3716027 TTTAATCCATATCAATTTG
1 TTTAATCCATATCAATTTA
** *
3716046 TTTAATTTATATCCATTTA
1 TTTAATCCATATCAATTTA
3716065 TTTAAT
1 TTTAAT
3716071 TAGCCTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAATCCATATCAATTTA
Found at i:3716071 original size:19 final size:19
Alignment explanation
Indices: 3716035--3716071 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3716025 TTTTTAATCC
*
3716035 ATATCAATTTGTTTAATTT
1 ATATCAATTTATTTAATTT
*
3716054 ATATCCATTTATTTAATT
1 ATATCAATTTATTTAATT
3716072 AGCCTAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (19 bp):
ATATCAATTTATTTAATTT
Found at i:3716264 original size:23 final size:23
Alignment explanation
Indices: 3716204--3716295 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
3716194 CACATAGATA
* *
3716204 TGTCTTGAAGGACCGTGTAGAATT
1 TGTCCTGAAGGACCGCGTAGAA-T
* * *
3716228 TGTCCCGAAAGACCACGTAGAAT
1 TGTCCTGAAGGACCGCGTAGAAT
* *
3716251 TGTCCTGAAGGACCTCATAGAAT
1 TGTCCTGAAGGACCGCGTAGAAT
* *
3716274 TATCCTGAAGGACTGCGTAGAA
1 TGTCCTGAAGGACCGCGTAGAA
3716296 CCCTCGACTC
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
23 38 0.69
24 17 0.31
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (23 bp):
TGTCCTGAAGGACCGCGTAGAAT
Found at i:3719572 original size:18 final size:18
Alignment explanation
Indices: 3719551--3719593 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
3719541 GTTGTTTTTA
**
3719551 AAATAAAAGATGAGAATT
1 AAATAAAAGAAAAGAATT
*
3719569 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
3719587 AAATAAA
1 AAATAAA
3719594 CATATTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:3722377 original size:131 final size:130
Alignment explanation
Indices: 3722135--3722414 Score: 361
Period size: 131 Copynumber: 2.1 Consensus size: 130
3722125 TTAAAATTTT
* * **
3722135 ATTGCACTGTTCGAATTTGTTGTGTATTTTTCTGCGTTGTTCGAACCAAACAAGTTTTTTTGCAT
1 ATTGCATTGTTCGAATCTGTTGTGTATTTTTCTGCACTGTTCGAACCAAACAAGTTTTTTTGCAT
* * *
3722200 TGTTCCGTTGAAACTTTTATGTACAGTTTGAACCAAATCTTCTTTTTTTTGCATTATTTTTTCTG
66 TGTTCCGTTGAAACTTTTATGTACAGTTCGAACCAAATCTT-ATTTTTTTGCACTATTTTTTCTG
3722265 C
130 C
*
3722266 ATTGCATTGTTCGAATCTGTTGTGTATTTTTCTTCACTGTTCGAACCAAATCAA-TTTTTTATGC
1 ATTGCATTGTTCGAATCTGTTGTGTATTTTTCTGCACTGTTCGAACCAAA-CAAGTTTTTT-TGC
* * * *
3722330 ATTGTTCTGTTCG-AACTTTTCT-TCACAGTTCGAACCAAATC-TATTTTTTTGTACTGTTTTTT
64 ATTGTTCCGTT-GAAACTTTTATGT-ACAGTTCGAACCAAATCTTATTTTTTTGCACTATTTTTT
3722392 CTGC
127 CTGC
* *
3722396 ACTGTATTGTTCGAATCTG
1 ATTGCATTGTTCGAATCTG
3722415 CTCAAAAAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
130 37 0.28
131 53 0.40
132 40 0.31
133 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (130 bp):
ATTGCATTGTTCGAATCTGTTGTGTATTTTTCTGCACTGTTCGAACCAAACAAGTTTTTTTGCAT
TGTTCCGTTGAAACTTTTATGTACAGTTCGAACCAAATCTTATTTTTTTGCACTATTTTTTCTGC
Found at i:3722477 original size:10 final size:10
Alignment explanation
Indices: 3722464--3722502 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
3722454 AGTTTGTTAA
3722464 AAATAAAACG
1 AAATAAAACG
* *
3722474 AAATAAACCAA
1 AAATAAAAC-G
3722485 AAATAAAACG
1 AAATAAAACG
3722495 AAATAAAA
1 AAATAAAA
3722503 TAGAACGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.74, C:0.10, G:0.05, T:0.10
Consensus pattern (10 bp):
AAATAAAACG
Found at i:3722486 original size:21 final size:21
Alignment explanation
Indices: 3722462--3722501 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
3722452 AAAGTTTGTT
3722462 AAAAATAAAACGAAATAAACC
1 AAAAATAAAACGAAATAAACC
3722483 AAAAATAAAACGAAATAAA
1 AAAAATAAAACGAAATAAA
3722502 ATAGAACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.75, C:0.10, G:0.05, T:0.10
Consensus pattern (21 bp):
AAAAATAAAACGAAATAAACC
Found at i:3722502 original size:15 final size:15
Alignment explanation
Indices: 3722484--3722513 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3722474 AAATAAACCA
3722484 AAAATAAAACGAAAT
1 AAAATAAAACGAAAT
*
3722499 AAAATAGAACGAAAT
1 AAAATAAAACGAAAT
3722514 GGGCTGCCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATAAAACGAAAT
Found at i:3726538 original size:18 final size:18
Alignment explanation
Indices: 3726497--3726541 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3726487 AAGATGTTTT
3726497 TAAAATAAAAAATAAGAA
1 TAAAATAAAAAATAAGAA
* *
3726515 TTAAATAAAAGAA-AATAA
1 TAAAATAAAA-AATAAGAA
3726533 TAAAATAAA
1 TAAAATAAA
3726542 CATATTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
TAAAATAAAAAATAAGAA
Found at i:3730507 original size:35 final size:34
Alignment explanation
Indices: 3730422--3730508 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
3730412 AATATAATTT
*
3730422 TAAATATAACAAACTTACAATAAGTATTAAATGG
1 TAAATATAACAAAATTACAATAAGTATTAAATGG
*
3730456 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ATAACAAAATTACAATAA--G-TATTAAATGG
3730494 T-AATA-AACAAAATTA
1 TAAATATAACAAAATTA
3730509 ACTGAAATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
34 5 0.11
35 25 0.54
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (34 bp):
TAAATATAACAAAATTACAATAAGTATTAAATGG
Found at i:3730565 original size:26 final size:24
Alignment explanation
Indices: 3730536--3730607 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
3730526 AAAGTCCAAC
3730536 AAATTTAACAAAATAAAGTAAGTATT
1 AAATTTAACAAAATAAAGTAA--ATT
*
3730562 AAA-TGAGA-AATAATAAA--AAATT
1 AAATTTA-ACAA-AATAAAGTAAATT
3730584 ACAATTTAACAAAATAAAGTAAAT
1 A-AATTTAACAAAATAAAGTAAAT
3730608 ACAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 9 0.24
24 6 0.16
25 8 0.22
26 10 0.27
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.26
Consensus pattern (24 bp):
AAATTTAACAAAATAAAGTAAATT
Found at i:3732811 original size:17 final size:18
Alignment explanation
Indices: 3732768--3732808 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3732758 GAATTATATT
3732768 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
3732785 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
3732803 ATTAAA
1 AGTAAA
3732809 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:3732887 original size:10 final size:10
Alignment explanation
Indices: 3732850--3732890 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
3732840 CTTAATCAGA
*
3732850 GAGAGTATTT
1 GAGAGAATTT
*
3732860 GAGAGAAATT
1 GAGAGAATTT
3732870 GAGAGAATTT
1 GAGAGAATTT
3732880 GAGAGAATTT
1 GAGAGAATTT
3732890 G
1 G
3732891 GTATGATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:3736948 original size:19 final size:19
Alignment explanation
Indices: 3736924--3736967 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3736914 TTATACACTT
*
3736924 TTTAATCCATATCAATTTG
1 TTTAATCCATATCAATTTA
** *
3736943 TTTAATTTATATCCATTTA
1 TTTAATCCATATCAATTTA
3736962 TTTAAT
1 TTTAAT
3736968 TAGCCCAACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAATCCATATCAATTTA
Found at i:3736968 original size:19 final size:19
Alignment explanation
Indices: 3736932--3736968 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3736922 TTTTTAATCC
*
3736932 ATATCAATTTGTTTAATTT
1 ATATCAATTTATTTAATTT
*
3736951 ATATCCATTTATTTAATT
1 ATATCAATTTATTTAATT
3736969 AGCCCAACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (19 bp):
ATATCAATTTATTTAATTT
Found at i:3737154 original size:23 final size:24
Alignment explanation
Indices: 3737101--3737169 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
3737091 CACACATATA
* *
3737101 TGTCCTGAAGGACCGCGTATAATT
1 TGTCCCGAAGGACCGCGTAGAATT
* *
3737125 TGTCCCGAAGAACCACGTAGAA-T
1 TGTCCCGAAGGACCGCGTAGAATT
3737148 TGTCCCGAAGGACCGCGTAGAA
1 TGTCCCGAAGGACCGCGTAGAA
3737170 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (24 bp):
TGTCCCGAAGGACCGCGTAGAATT
Found at i:3737308 original size:15 final size:15
Alignment explanation
Indices: 3737299--3737351 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
3737289 ATCACTTAGC
3737299 ACATTTTCACATAGA
1 ACATTTTCACATAGA
*
3737314 ACATTTTCACGTAGA
1 ACATTTTCACATAGA
* * *
3737329 TCATTTTTCACGTATA
1 ACA-TTTTCACATAGA
3737345 ACATTTT
1 ACATTTT
3737352 TCACGTATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (15 bp):
ACATTTTCACATAGA
Found at i:3737359 original size:16 final size:16
Alignment explanation
Indices: 3737302--3737358 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
3737292 ACTTAGCACA
*
3737302 TTTTCACATAGAACA-
1 TTTTCACGTAGAACAT
*
3737317 TTTTCACGTAGATCAT
1 TTTTCACGTAGAACAT
*
3737333 TTTTCACGTATAACAT
1 TTTTCACGTAGAACAT
3737349 TTTTCACGTA
1 TTTTCACGTA
3737359 TGACATATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 13 0.35
16 24 0.65
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (16 bp):
TTTTCACGTAGAACAT
Found at i:3737364 original size:16 final size:16
Alignment explanation
Indices: 3737317--3737379 Score: 76
Period size: 16 Copynumber: 4.0 Consensus size: 16
3737307 ACATAGAACA
3737317 TTTTCACGTA-GATCAT
1 TTTTCACGTATGA-CAT
*
3737333 TTTTCACGTATAACAT
1 TTTTCACGTATGACAT
3737349 TTTTCACGTATGACA-
1 TTTTCACGTATGACAT
* *
3737364 TATTCACCTATGACAT
1 TTTTCACGTATGACAT
3737380 ATACTTATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.32
16 27 0.66
17 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (16 bp):
TTTTCACGTATGACAT
Found at i:3737369 original size:15 final size:15
Alignment explanation
Indices: 3737335--3737381 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
3737325 TAGATCATTT
* *
3737335 TTCACGTATAACATTT
1 TTCACGTATGACA-TA
3737351 TTCACGTATGACATA
1 TTCACGTATGACATA
*
3737366 TTCACCTATGACATA
1 TTCACGTATGACATA
3737381 T
1 T
3737382 ACTTATAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (15 bp):
TTCACGTATGACATA
Found at i:3737370 original size:31 final size:30
Alignment explanation
Indices: 3737290--3737379 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 30
3737280 TAGACTACAA
* *
3737290 TCACTTAGCACATTTTCACATAGAACA-TTT
1 TCACGTAG-ACATTTTCACATATAACATTTT
*
3737320 TCACGTAGATCATTTTTCACGTATAACATTTT
1 TCACGTAGA-CA-TTTTCACATATAACATTTT
* * *
3737352 TCACGTATGACATATTCACCTATGACAT
1 TCACGTA-GACATTTTCACATATAACAT
3737380 ATACTTATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 1 0.02
30 9 0.18
31 26 0.52
32 12 0.24
33 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (30 bp):
TCACGTAGACATTTTCACATATAACATTTT
Found at i:3740283 original size:12 final size:12
Alignment explanation
Indices: 3740251--3740308 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
3740241 TCTGATAAAC
3740251 TAAAATAATAA-T
1 TAAAA-AATAATT
*
3740263 T-AAATATAATT
1 TAAAAAATAATT
*
3740274 TAAAAAATAACAT
1 TAAAAAATAA-TT
*
3740287 T-AAATATAATT
1 TAAAAAATAATT
3740298 TAAAAAATAAT
1 TAAAAAATAAT
3740309 AATTAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 4 0.11
11 7 0.19
12 23 0.64
13 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAAAAATAATT
Found at i:3740303 original size:25 final size:25
Alignment explanation
Indices: 3740252--3740315 Score: 112
Period size: 24 Copynumber: 2.6 Consensus size: 25
3740242 CTGATAAACT
3740252 AAAATAATAATTAAATATAATTTAA
1 AAAATAATAATTAAATATAATTTAA
*
3740277 AAAATAA-CATTAAATATAATTTAA
1 AAAATAATAATTAAATATAATTTAA
3740301 AAAATAATAATTAAA
1 AAAATAATAATTAAA
3740316 ATACTAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATAATAATTAAATATAATTTAA
Found at i:3744028 original size:14 final size:14
Alignment explanation
Indices: 3744009--3744037 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3743999 TCTTGTAGTT
3744009 AAAACTCAACAAAA
1 AAAACTCAACAAAA
3744023 AAAACTCAACAAAA
1 AAAACTCAACAAAA
3744037 A
1 A
3744038 TGTCCAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.21, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACTCAACAAAA
Found at i:3745618 original size:24 final size:26
Alignment explanation
Indices: 3745567--3745618 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3745557 CATTACACAC
3745567 ATTATACCCAACATATATATTAATAT
1 ATTATACCCAACATATATATTAATAT
3745593 ATTATACCCAACATATATATTAATAT
1 ATTATACCCAACATATATATTAATAT
3745619 GTAATGCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTATACCCAACATATATATTAATAT
Found at i:3748553 original size:131 final size:129
Alignment explanation
Indices: 3748278--3748556 Score: 452
Period size: 131 Copynumber: 2.1 Consensus size: 129
3748268 AAGACTTACT
3748278 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTAAAAAATTCC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTAAAAAATTCC
* *
3748343 ATCTTAAAACATCATTTTTTCATTATCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATG
66 ATCTTAAAACATCATTTTTTCATTATCAAATTAATTTGAAAACATCATACCCGAAGGTCTTATG
* * *
3748407 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTAAAAAATTCC
* * *
3748472 ATTTTTTTAAAACATCA-TTTTTCATTCTCAAATTAATTTGAAAACATCATACCCGAAGGTTTTA
66 A---TCTTAAAACATCATTTTTTCATTATCAAATTAATTTGAAAACATCATACCCGAAGGTCTTA
3748536 TG
128 TG
3748538 GATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
3748557 CCTCTTGCTC
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
129 63 0.45
131 64 0.46
132 12 0.09
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (129 bp):
GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTAAAAAATTCC
ATCTTAAAACATCATTTTTTCATTATCAAATTAATTTGAAAACATCATACCCGAAGGTCTTATG
Found at i:3748630 original size:42 final size:41
Alignment explanation
Indices: 3748538--3748638 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
3748528 AGGTTTTATG
* * * * *
3748538 GATGGCCCGAAGGACTTATCCTCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * * *
3748579 GGTGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
*
3748621 GATGGCCCGAATGACTTA
1 GATGGCCCGAAGGACTTA
3748639 TAAATTGTGA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
41 15 0.33
42 31 0.67
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:3748783 original size:216 final size:216
Alignment explanation
Indices: 3748407--3749505 Score: 1632
Period size: 217 Copynumber: 5.0 Consensus size: 216
3748397 AGGTCTTATG
*
3748407 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
* * * *
3748472 A-TTTTTTTAAAACATCA-TTTTTCATTCTCAAATTAATTTGAAAACATCATACCCGAAGGTTTT
66 ATTTTTTTTAAAACATCATTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTT
* *
3748535 ATGGATGGCCCGAAGGACTTATCCTCTTGCTCTAAAGGCTTACAGGTGACCCGAAGGATTTAAGC
131 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
3748600 ATCATGCTCGAAAGACTTACT
196 ATCATGCTCGAAAGACTTACT
* * * * *
3748621 GATGGCCCGAATGACTTATAAATTGTGAAATTTTAAAAATCGTATTCTTTGTTTTCAAAAATTTC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
* *
3748686 ATTTTTTTTAAAACTTCATTTTTTAATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTT
66 ATTTTTTTTAAAACATCATTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTT
*
3748751 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGATCCGAAGGATTTAAGC
131 ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
*
3748816 ATCATGCTCGAAAGACTTATT
196 ATCATGCTCGAAAGACTTACT
* * *
3748837 GATTGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTCC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
* ** *
3748902 A-TCTGCTTAAAACA-CTATTTTTTTTCATTTTCAAATTCATATGAAAACATCCGACCCGAAGGT
66 ATTTTTTTTAAAACATC-A--TTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGT
* *
3748965 TTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCATACAGATGACCCAAAGGATTTA
128 TTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTA
3749030 AGCATCATGCTCGAAAGACTTACT
193 AGCATCATGCTCGAAAGACTTACT
*
3749054 GATGGCTCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
* * *
3749119 A-TCTTCTTAAAACATCACTTTTCTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTT
66 ATTTTTTTTAAAACATCA-TTTT-TTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTT
* *
3749183 TTATGGATGGCCCGGAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACTCGAAGGATTTAA
129 TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTT-A
*
3749248 AGCATCATGCTCGAAAGACTTATT
193 AGCATCATGCTCGAAAGACTTACT
* * * *
3749272 GATGGCCGGAAGGATTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTAAAAAATTCC
1 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
*
3749337 ATCTTCTTAAAACATCATCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCT
66 A--TT-TT------T--T-TTAAAACATCA-TTTTTTCATTTTCAAATTCATATGAAAACATCCT
*
3749402 ACCCGAAGGTTTTATGGATGTCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCC
118 ACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCC
* *
3749467 GAAGGATTTAAGCATCATGCTCGGAAGGCTTACT
183 GAAGGATTTAAGCATCATGCTCGAAAGACTTACT
3749501 GATGG
1 GATGG
3749506 ATTTGCTTCA
Statistics
Matches: 805, Mismatches: 59, Indels: 27
0.90 0.07 0.03
Matches are distributed among these distances:
214 63 0.08
215 25 0.03
216 185 0.23
217 300 0.37
218 86 0.11
221 1 0.00
222 1 0.00
228 1 0.00
229 27 0.03
230 101 0.13
231 15 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (216 bp):
GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCC
ATTTTTTTTAAAACATCATTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTT
ATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGC
ATCATGCTCGAAAGACTTACT
Found at i:3748998 original size:433 final size:436
Alignment explanation
Indices: 3748401--3749505 Score: 1697
Period size: 433 Copynumber: 2.5 Consensus size: 436
3748391 ACCCGAAGGT
* *
3748401 CTTATGGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
1 CTTATTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
* * * * * * * *
3748466 AATTTCATTTTTTTAAAACA-TCA---TTTTTCATTCTCAAATTAATTTGAAAACATCATACCCG
66 AATTCCATCTTCTTAAAACACTAATTTTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCG
* *
3748527 AAGGTTTTATGGATGGCCCGAAGGACTTATCCTCTTGCTCTAAAGGCTTACAGGTGACCCGAAGG
131 AAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGG
*
3748592 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTATAAATTGTGAAATTTTAA
196 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTAA
* * * * * *
3748657 AAATCGTATTCTTTGTTTTCAAAAATTTCATTTTTTTTAAAACTTCA-TTTT-TTAATTTTCAAA
261 AAATCGCATTCTTCGTTTTCAAAAATTCCA-TCTTCTTAAAACATCACTTTTCTTAATTTTCAAA
3748720 TTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTA
325 TTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTA
3748785 AAGGCTTACAGATGA-TCCGAAGGATTT-AAGCATCATGCTCGAAAGA
390 AAGGCTTACAGATGACT-CGAAGGATTTAAAGCATCATGCTCGAAAGA
* *
3748831 CTTATTGATTGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAA
1 CTTATTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
* *
3748896 AATTCCATCTGCTTAAAACACT-ATTTTTTTTCATTTTCAAATTCATATGAAAACATCCGACCCG
66 AATTCCATCTTCTTAAAACACTAATTTTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCG
* *
3748960 AAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCATACAGATGACCCAAAGG
131 AAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGG
* *
3749025 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATAAATTGTGAAATTTTGA
196 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTAA
*
3749090 AAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTCTTCATTTTCAAAT
261 AAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTCTTAATTTTCAAAT
* *
3749155 TCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGGAGGACTTATCATCTTGCTCTAA
326 TCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAA
3749220 AGGCTTACAGATGACTCGAAGGATTTAAAGCATCATGCTCGAAAGA
391 AGGCTTACAGATGACTCGAAGGATTTAAAGCATCATGCTCGAAAGA
* * *
3749266 CTTATTGATGGCCGGAAGGATTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTAAAA
1 CTTATTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
*
3749331 AATTCCATCTTCTTAAAACATCATCTTAAAACATCATTTTTTTCATTTTCAAATTCATGTGAAAA
66 AATTCCATCTTCTT-AAA-A-CA-C-T---A-AT--TTTTTTTCATTTTCAAATTCATATGAAAA
*
3749396 CATCCTACCCGAAGGTTTTATGGATGTCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGA
120 CATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGA
* *
3749461 TGACCCGAAGGATTTAAGCATCATGCTCGGAAGGCTTACTGATGG
185 TGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
3749506 ATTTGCTTCA
Statistics
Matches: 613, Mismatches: 42, Indels: 23
0.90 0.06 0.03
Matches are distributed among these distances:
430 78 0.13
431 1 0.00
432 13 0.02
433 187 0.31
434 99 0.16
435 93 0.15
436 3 0.00
437 1 0.00
438 2 0.00
439 1 0.00
440 1 0.00
445 2 0.00
447 132 0.22
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (436 bp):
CTTATTGATGGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAA
AATTCCATCTTCTTAAAACACTAATTTTTTTTCATTTTCAAATTCATATGAAAACATCCTACCCG
AAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGG
ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTAA
AAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCACTTTTCTTAATTTTCAAAT
TCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAA
AGGCTTACAGATGACTCGAAGGATTTAAAGCATCATGCTCGAAAGA
Found at i:3749357 original size:13 final size:13
Alignment explanation
Indices: 3749336--3749367 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3749326 TAAAAAATTC
*
3749336 CATCTTCTTAAAA
1 CATCATCTTAAAA
3749349 CATCATCTTAAAA
1 CATCATCTTAAAA
3749362 CATCAT
1 CATCAT
3749368 TTTTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (13 bp):
CATCATCTTAAAA
Found at i:3749495 original size:42 final size:41
Alignment explanation
Indices: 3749418--3749504 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 41
3749408 AGGTTTTATG
* * * *
3749418 GATGTCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGGCTTACA
* * *
3749459 GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGGCTTACT
1 GATGACCCGAAGGACTT-AGCATCATGCTCGAAAGGCTTACA
3749501 GATG
1 GATG
3749505 GATTTGCTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 15 0.39
42 23 0.61
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGGCTTACA
Found at i:3749553 original size:37 final size:37
Alignment explanation
Indices: 3749490--3749724 Score: 287
Period size: 37 Copynumber: 6.4 Consensus size: 37
3749480 ATCATGCTCG
*
3749490 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCGGT
1 GAAGGCTTA-AGATGGATTTGCTTCACTACTCTTCGGT
* * * **
3749528 GAAGGCTTAAAATTGATTTGTTTCACTGTTC-TCAGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTC-GGT
* *
3749565 GAAGGCTTAAGATGGATTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* * *
3749602 GAAGGCTTAAGATGGTTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* * *
3749639 GAAGGCTTTAGAT-TAATTGCTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
* *
3749675 GAAGGCTTAAGATGGA-TTGCTTCACTACTATTTGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
3749711 GAAGGCTTAAGATG
1 GAAGGCTTAAGATG
3749725 AATTGCTCCA
Statistics
Matches: 172, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
36 64 0.37
37 98 0.57
38 10 0.06
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (37 bp):
GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGT
Found at i:3755725 original size:6 final size:6
Alignment explanation
Indices: 3755716--3755745 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3755706 CAAAAATAAG
*
3755716 AATGCA AATGCA TATGCA AATGCA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA
3755746 CGAGGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (6 bp):
AATGCA
Found at i:3756231 original size:54 final size:55
Alignment explanation
Indices: 3756098--3756238 Score: 185
Period size: 55 Copynumber: 2.6 Consensus size: 55
3756088 CAACTTCTAA
* * * * * *
3756098 CTTCATTCATCGGATGTCTTTCTTCACGGATCGGTCTTCAATCAGTTTCTGATTT
1 CTTCATTCATCGGATGTCCTTCTTCATGAATCGGTCTTCAATCAGGTTCTAAATT
* * *
3756153 CTTCATTCTTCGGATGTCCATCTTCATGAATCGTTCTTCAATCAGGTTC-AAATT
1 CTTCATTCATCGGATGTCCTTCTTCATGAATCGGTCTTCAATCAGGTTCTAAATT
*
3756207 CTTCATTCATCGGATATCCTTCTTCATGAATC
1 CTTCATTCATCGGATGTCCTTCTTCATGAATC
3756239 ACTTGAATGT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 32 0.43
55 42 0.57
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (55 bp):
CTTCATTCATCGGATGTCCTTCTTCATGAATCGGTCTTCAATCAGGTTCTAAATT
Found at i:3758382 original size:263 final size:264
Alignment explanation
Indices: 3757890--3758435 Score: 1051
Period size: 263 Copynumber: 2.1 Consensus size: 264
3757880 ACCAGTATGA
*
3757890 CTAACATG-CAAAAACATAACAAGTAAAAAAAATATATGTTTCAGAAAATAACCATTCTTGTTAA
1 CTAA-ATGACAAAAACAAAACAAGTAAAAAAAATATATGTTTCAGAAAATAACCATTCTTGTTAA
3757954 AATAAAGATTAAATTATATTAAACCAAACTTCACTACCTTAAATACCAACATAATAAGAATTAAA
65 AATAAAGATTAAATTATATTAAACCAAACTTCACTACCTTAAATACCAACATAATAAGAATTAAA
3758019 GTGTACATGCACATATTACCATATTGAATACTAACAACTGAAATAAATTACTATTATCATTATGG
130 GTGTACATGCACATATTACCATATTGAATACTAACAACTGAAATAAATTACTATTATCATTATGG
3758084 ATTAAAATTAGAATAAACCCAATATATACAGGACTAAAACATAACATACAAAAACTTGGAGCTCA
195 ATTAAAATTAGAATAAACCCAATATATACAGGACTAAAACATAACATACAAAAACTTGGAGCTCA
3758149 AATGT
260 AATGT
3758154 CTAAATGACAAAAACAAAACAAGT-AAAAAAATATATGTTTCAGAAAATAACCATTCTTGTTAAA
1 CTAAATGACAAAAACAAAACAAGTAAAAAAAATATATGTTTCAGAAAATAACCATTCTTGTTAAA
3758218 ATAAAGATTAAATTATATTAAACCAAACTTCACTACCTTAAATACCAACATAATAAGAATTAAAG
66 ATAAAGATTAAATTATATTAAACCAAACTTCACTACCTTAAATACCAACATAATAAGAATTAAAG
3758283 TGTACATGCACATATTACCATATTGAATACTAACAACTGAAATAAATTACTATTATCATTATGGA
131 TGTACATGCACATATTACCATATTGAATACTAACAACTGAAATAAATTACTATTATCATTATGGA
3758348 TTAAAATTAGAATAAACCCAATATATACAGGACTAAAACATAACATACAAAAACTTGGAGCTCAA
196 TTAAAATTAGAATAAACCCAATATATACAGGACTAAAACATAACATACAAAAACTTGGAGCTCAA
3758413 ATGT
261 ATGT
*
3758417 ATAAATGACAAAAACAAAA
1 CTAAATGACAAAAACAAAA
3758436 TAATCAACAT
Statistics
Matches: 279, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
263 260 0.93
264 19 0.07
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (264 bp):
CTAAATGACAAAAACAAAACAAGTAAAAAAAATATATGTTTCAGAAAATAACCATTCTTGTTAAA
ATAAAGATTAAATTATATTAAACCAAACTTCACTACCTTAAATACCAACATAATAAGAATTAAAG
TGTACATGCACATATTACCATATTGAATACTAACAACTGAAATAAATTACTATTATCATTATGGA
TTAAAATTAGAATAAACCCAATATATACAGGACTAAAACATAACATACAAAAACTTGGAGCTCAA
ATGT
Found at i:3764332 original size:20 final size:20
Alignment explanation
Indices: 3764307--3764408 Score: 87
Period size: 20 Copynumber: 5.1 Consensus size: 20
3764297 ATATTTTGGT
*
3764307 TTGTAGTATTGATATTGTTC
1 TTGTAGTATCGATATTGTTC
* *
3764327 TTGTAGTATCAATATTGTTT
1 TTGTAGTATCGATATTGTTC
* * *
3764347 TTTTAGTATCGATACTATTC
1 TTGTAGTATCGATATTGTTC
* * * * *
3764367 TTGTAGTATTGCTACTATTT
1 TTGTAGTATCGATATTGTTC
* *
3764387 TTATAGTATCGATATTATTC
1 TTGTAGTATCGATATTGTTC
3764407 TT
1 TT
3764409 TCAGTATCTG
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.54
Consensus pattern (20 bp):
TTGTAGTATCGATATTGTTC
Found at i:3764402 original size:60 final size:59
Alignment explanation
Indices: 3764307--3764495 Score: 155
Period size: 60 Copynumber: 3.2 Consensus size: 59
3764297 ATATTTTGGT
* * * * * *
3764307 TTGTAGTATTGATATTGTTCTTGTAGTATCAATATTGTTTTTTTAGTATC-GATACTATTC
1 TTGTAGTATTG-TACTATTCTTATAGTATCAATATTATTCTTTCAGTATCTG-TACTATTC
* * *
3764367 TTGTAGTATTGCTACTATTTTTATAGTATCGATATTATTCTTTCAGTATCTGTACTTTTC
1 TTGTAGTATTG-TACTATTCTTATAGTATCAATATTATTCTTTCAGTATCTGTACTATTC
* * * *** * * * *
3764427 TTGCAGTATATGTACTATTCTTACAATATTTGTATTGTTCTTGCAATATATGTACTATTC
1 TTGTAGTAT-TGTACTATTCTTATAGTATCAATATTATTCTTTCAGTATCTGTACTATTC
*
3764487 ATGTAGTAT
1 TTGTAGTAT
3764496 ATATACTACT
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 100 0.97
61 3 0.03
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.51
Consensus pattern (59 bp):
TTGTAGTATTGTACTATTCTTATAGTATCAATATTATTCTTTCAGTATCTGTACTATTC
Found at i:3764427 original size:20 final size:20
Alignment explanation
Indices: 3764402--3764503 Score: 96
Period size: 20 Copynumber: 5.1 Consensus size: 20
3764392 GTATCGATAT
* *
3764402 TATTCTTTCAGTATCTGTAC
1 TATTCTTGCAGTATATGTAC
*
3764422 TTTTCTTGCAGTATATGTAC
1 TATTCTTGCAGTATATGTAC
* * * *
3764442 TATTCTTACAATATTTGTAT
1 TATTCTTGCAGTATATGTAC
* *
3764462 TGTTCTTGCAATATATGTAC
1 TATTCTTGCAGTATATGTAC
* * *
3764482 TATTCATGTAGTATATATAC
1 TATTCTTGCAGTATATGTAC
3764502 TA
1 TA
3764504 CTTTATTAAG
Statistics
Matches: 65, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (20 bp):
TATTCTTGCAGTATATGTAC
Found at i:3764446 original size:40 final size:40
Alignment explanation
Indices: 3764402--3764486 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
3764392 GTATCGATAT
* * *
3764402 TATTCTTTCAGTATCTGTACTT-TTCTTGCAGTATATGTAC
1 TATTCTTACAATATCTGTA-TTGTTCTTGCAATATATGTAC
*
3764442 TATTCTTACAATATTTGTATTGTTCTTGCAATATATGTAC
1 TATTCTTACAATATCTGTATTGTTCTTGCAATATATGTAC
3764482 TATTC
1 TATTC
3764487 ATGTAGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.51
Consensus pattern (40 bp):
TATTCTTACAATATCTGTATTGTTCTTGCAATATATGTAC
Found at i:3765395 original size:20 final size:20
Alignment explanation
Indices: 3765370--3765418 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
3765360 ATATTCTAGT
* * *
3765370 TTGTAGTATTGATATTGTTC
1 TTGTAGTATCGATACTATTC
3765390 TTGTAGTATCGATACTATTC
1 TTGTAGTATCGATACTATTC
3765410 TTGTAGTAT
1 TTGTAGTAT
3765419 AGATGTCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.18, T:0.51
Consensus pattern (20 bp):
TTGTAGTATCGATACTATTC
Found at i:3767234 original size:18 final size:17
Alignment explanation
Indices: 3767211--3767244 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3767201 TGACTTTGAC
*
3767211 AAAAAAGTCAAATTTTA
1 AAAAAAATCAAATTTTA
*
3767228 AAAAAAATCATATTTTA
1 AAAAAAATCAAATTTTA
3767245 TATTTTTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAAAATCAAATTTTA
Found at i:3772079 original size:21 final size:22
Alignment explanation
Indices: 3772044--3772086 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
3772034 ATAACTATTG
*
3772044 GAATTAAGTAGTATCGATACTA
1 GAATTAAGTAATATCGATACTA
3772066 GAATT-AGTAATATCGATACTA
1 GAATTAAGTAATATCGATACTA
3772087 CTATGTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (22 bp):
GAATTAAGTAATATCGATACTA
Found at i:3779997 original size:44 final size:44
Alignment explanation
Indices: 3779889--3780068 Score: 279
Period size: 44 Copynumber: 4.1 Consensus size: 44
3779879 AATTTATCAT
* * *
3779889 TTATCCCATAAGCACGTAAGCTTATTTTACCAACATACTTACCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA
* *
3779933 CTTATTACATAAGCTCGTAAGCTTATTTTATCAATATACTTACCA
1 -TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA
3779978 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA
* * *
3780022 TTATTCCATAAGCTCATAAGCTTATTTTACCAATAAACTTTCCA
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA
3780066 TTA
1 TTA
3780069 ACCTCATGTA
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 86 0.69
45 39 0.31
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (44 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA
Found at i:3780293 original size:117 final size:117
Alignment explanation
Indices: 3780164--3780397 Score: 276
Period size: 117 Copynumber: 2.0 Consensus size: 117
3780154 TCTCAGTGCT
* * * * * ** *
3780164 CTATCTGAAAATCTATACCATT-AGTATGATTT-CTTATCTTTGTAGCACCCTTAGTGCTTTATC
1 CTATCTGAAAATCCATA-CATTCAATATGATTTCCTTATCATT-TAGCACACTCAGTGCTCCATA
* *
3780227 TGGAAATCCATACACTCAGTATGA-TTCCTTTACCTTTTTAGCACATAAAATGCC
64 TGGAAATCCATACACTCAGTATGATTTCC-TTACCATTTTAGCACACAAAATGCC
* **
3780281 CTATCTGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATG
1 CTATCTGAAAATCCATACATTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATG
* * *
3780346 GAAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCACACAAAGTGCC
66 GAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACACAAAATGCC
3780398 ATTCGGTAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
116 2 0.02
117 84 0.86
118 12 0.12
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (117 bp):
CTATCTGAAAATCCATACATTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATG
GAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACACAAAATGCC
Found at i:3780375 original size:58 final size:58
Alignment explanation
Indices: 3780133--3780389 Score: 209
Period size: 58 Copynumber: 4.4 Consensus size: 58
3780123 ATTCATGTAA
* * * * * * *
3780133 ATTTCCTTTTAATATTAGCACTCTCAGTGCTCTATCTGAAAATCTATAC-CATTAGTATG
1 ATTTCCTTATCAT-TTAGCACACTCAGTGCTCCATCTGGAAATCCATACAC-TCAGTATG
* * * **
3780192 ATTT-CTTATCTTTGTAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATG
1 ATTTCCTTATCATT-TAGCACACTCAGTGCTCCATCTGGAAATCCATACACTCAGTATG
* * * * *** *
3780250 A-TTCCTTTACCTTTTTAGCACA-TAAAATGC-CCTATCTGGAAATCCATATTTTCAATATG
1 ATTTCC-TTATC-ATTTAGCACACT-CAGTGCTCC-ATCTGGAAATCCATACACTCAGTATG
* *
3780309 ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAGTATG
1 ATTTCCTTATCATTTAGCACACTCAGTGCTCCATCTGGAAATCCATACACTCAGTATG
3780367 ATTTCCTTATCATTTTAGCACAC
1 ATTTCCTTATCA-TTTAGCACAC
3780390 AAAGTGCCAT
Statistics
Matches: 158, Mismatches: 29, Indels: 22
0.76 0.14 0.11
Matches are distributed among these distances:
57 3 0.02
58 89 0.56
59 59 0.37
60 7 0.04
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (58 bp):
ATTTCCTTATCATTTAGCACACTCAGTGCTCCATCTGGAAATCCATACACTCAGTATG
Found at i:3780414 original size:59 final size:59
Alignment explanation
Indices: 3780186--3780416 Score: 183
Period size: 59 Copynumber: 3.9 Consensus size: 59
3780176 CTATACCATT
* ** **
3780186 AGTATGATTT-CTTATC-TTTGTAGCACCCTTAGTGCTTTATCTGGAAATCC-ATACACTC
1 AGTATGATTTCCTTATCATTT-TAGCACACAAAGTGCCATATC-GGAAATCCTATACACTC
* * * * * ***
3780244 AGTATGA-TTCCTTTACCTTTTTAGCACATAAAATGCCCTATCTGGAAATCC-ATATTTTC
1 AGTATGATTTCC-TTATCATTTTAGCACACAAAGTGCCATATC-GGAAATCCTATACACTC
* **
3780303 AATATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCCATAT-GGAAAT-CTATACACTC
1 AGTATGATTTCCTTATCATTTTAGCACACAAAGTG--CCATATCGGAAATCCTATACACTC
*
3780361 AGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCAT-TCGGTAATCACTATACA
1 AGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCATATCGGAAATC-CTATACA
3780417 TACATCAATA
Statistics
Matches: 136, Mismatches: 26, Indels: 21
0.74 0.14 0.11
Matches are distributed among these distances:
56 1 0.01
57 12 0.09
58 48 0.35
59 63 0.46
60 12 0.09
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (59 bp):
AGTATGATTTCCTTATCATTTTAGCACACAAAGTGCCATATCGGAAATCCTATACACTC
Found at i:3785495 original size:21 final size:21
Alignment explanation
Indices: 3785469--3785508 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3785459 TAAAATGTGT
*
3785469 ATCGATAGACTACTACAGTGC
1 ATCGATACACTACTACAGTGC
*
3785490 ATCGATACACTGCTACAGT
1 ATCGATACACTACTACAGT
3785509 AATTTCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (21 bp):
ATCGATACACTACTACAGTGC
Found at i:3785975 original size:45 final size:45
Alignment explanation
Indices: 3785911--3786096 Score: 304
Period size: 44 Copynumber: 4.2 Consensus size: 45
3785901 ATCAATAAAT
* * *
3785911 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
3785956 TTACCATTTATTCCATAAGCGCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
3786001 TTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
3786045 TTAACA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
3786089 TTTCCATT
1 TTACCATT
3786097 AACCTCATTT
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 84 0.64
45 48 0.36
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
Found at i:3786032 original size:21 final size:21
Alignment explanation
Indices: 3786007--3786076 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
3785997 ATACTTACCA
3786007 TTATTCCATAAGCTCGTAAGC
1 TTATTCCATAAGCTCGTAAGC
3786028 TTATTTTACCAATATA-CT--TAA-C
1 TTA--TT-CC-ATA-AGCTCGTAAGC
3786050 ATTATTCCATAAGCTCGTAAGC
1 -TTATTCCATAAGCTCGTAAGC
3786072 TTATT
1 TTATT
3786077 TTACCAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 20
0.66 0.00 0.34
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 2 0.05
21 13 0.33
22 2 0.05
23 8 0.21
24 2 0.05
25 5 0.13
26 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (21 bp):
TTATTCCATAAGCTCGTAAGC
Found at i:3786274 original size:59 final size:59
Alignment explanation
Indices: 3786211--3786322 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
3786201 TTTCCCCTTT
* ** *
3786211 CATTTTAGCAAACGAAGTGCCCTAT-TCAAAAATTGATACCATTAGTATGATTTTGTTAC
1 CATTTTAGCAAACGAAATGCCCTATGT-AAAAATCCATACCATTAATATGATTTTGTTAC
* * *
3786270 CATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATTAATATGATTT
1 CATTTTAGCAAACGAAATGCCCTATGTAAAAATCCATACCATTAATATGATTT
3786323 CCTTATCTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 44 0.98
60 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (59 bp):
CATTTTAGCAAACGAAATGCCCTATGTAAAAATCCATACCATTAATATGATTTTGTTAC
Found at i:3786362 original size:59 final size:58
Alignment explanation
Indices: 3786299--3786575 Score: 279
Period size: 58 Copynumber: 4.7 Consensus size: 58
3786289 CCCTATGTGA
* * * * *
3786299 AAATCCATAC-CATTAATATGATTTCCTTATCTTTGTAGCACCCTTAGTGCTTTATCTGG
1 AAATCCATACAC-TCAATATGATTTCCTTATCTTT-TAGCACACTCAGTGCTCTATATGG
* * * * * * *
3786358 AAATCCATACACTCAGTATGATTCCCTTACCTTTTTAGCACA-TAAAATGCTCTATCTAG
1 AAATCCATACACTCAATATGATTTCCTTATC-TTTTAGCACACT-CAGTGCTCTATATGG
*** * * *
3786417 AAATCCATATTTTCAATATGATTTTCTTATCATTTAGCACACTCAGTGCTCCATATGG
1 AAATCCATACACTCAATATGATTTCCTTATCTTTTAGCACACTCAGTGCTCTATATGG
* * *
3786475 AAATCTATACACTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCAATATGG
1 AAATCCATACACTCAATATGATTTCCTTATCTTTTAGCACACTCAGTGCTCTATATGG
* * *
3786533 AAATCTATACACTCAGTATGATTTTCTTATCATTTTAGCACAC
1 AAATCCATACACTCAATATGATTTCCTTATC-TTTTAGCACAC
3786576 AAAGTGACAT
Statistics
Matches: 182, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
58 101 0.55
59 77 0.42
60 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (58 bp):
AAATCCATACACTCAATATGATTTCCTTATCTTTTAGCACACTCAGTGCTCTATATGG
Found at i:3786376 original size:118 final size:117
Alignment explanation
Indices: 3786254--3786575 Score: 310
Period size: 118 Copynumber: 2.7 Consensus size: 117
3786244 TGATACCATT
** * *
3786254 AGTATGATTTTGTTACCATTTTAGCACATGAAATGCCCTATGT-GAAAATCCATACCATT-AATA
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAG-AAATCCATA-CATTCAATA
* * * ** *
3786317 TGATTTCCTTATCTTTGTAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTC
64 TGATTTCCTTATCATT-TAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
* * * **
3786372 AGTATGATTCCCTTACCTTTTTAGCACATAAAATGCTCTATCTAGAAATCCATATTTTCAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAATCCATACATTCAATATG
* *
3786437 ATTTTCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTC
66 ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
* * * * * * * * * * *
3786489 AATATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCAATATGGAAATCTATACACTCAGTAT
1 AGTATGATTTCCTTACCATTTTAGCACA-TAAAATGCCCTATCTAGAAATCCATACATTCAATAT
*
3786552 GATTTTCTTATCATTTTAGCACAC
65 GATTTCCTTATCA-TTTAGCACAC
3786576 AAAGTGACAT
Statistics
Matches: 169, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
116 46 0.27
117 59 0.35
118 63 0.37
119 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (117 bp):
AGTATGATTTCCTTACCATTTTAGCACATAAAATGCCCTATCTAGAAATCCATACATTCAATATG
ATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTC
Found at i:3787020 original size:17 final size:18
Alignment explanation
Indices: 3786983--3787020 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3786973 GAGGGGGTGC
*
3786983 ATCAATACACTACCTGTGT
1 ATCAATACACTA-CAGTGT
3787002 ATCAATACACT-CAGTGT
1 ATCAATACACTACAGTGT
3787019 AT
1 AT
3787021 TCGATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (18 bp):
ATCAATACACTACAGTGT
Found at i:3787811 original size:27 final size:27
Alignment explanation
Indices: 3787780--3787832 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
3787770 GGGGTATTAC
* *
3787780 AAAAATAGATTTGAAAAAAATAAAAAAT
1 AAAAAAAG-TTTGAAAAAAAGAAAAAAT
3787808 AAAAAAAGTTTGAAAAAAAGAAAAA
1 AAAAAAAGTTTGAAAAAAAGAAAAA
3787833 GGTTCGATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (27 bp):
AAAAAAAGTTTGAAAAAAAGAAAAAAT
Found at i:3789083 original size:229 final size:229
Alignment explanation
Indices: 3788627--3789084 Score: 900
Period size: 229 Copynumber: 2.0 Consensus size: 229
3788617 ACGTGTCAGC
3788627 TTCTAAAAGGTCCAATCAGCAGCAAGAGTAGTTTCTAGAAGGTTCAATTAGCATTATTTAGAAGC
1 TTCTAAAAGGTCCAATCAGCAGCAAGAGTAGTTTCTAGAAGGTTCAATTAGCATTATTTAGAAGC
3788692 AAGGCGGGCAAAAATCATTTAGGAATTAAGTTTGAATTTGAAACAAATATTTGGGATTTATCTTG
66 AAGGCGGGCAAAAATCATTTAGGAATTAAGTTTGAATTTGAAACAAATATTTGGGATTTATCTTG
3788757 TTATTATTTGGAAATTTGTCTTTTGGTTAATTTTAGAATTATCTTTAGGATAGTTGATTTCATTT
131 TTATTATTTGGAAATTTGTCTTTTGGTTAATTTTAGAATTATCTTTAGGATAGTTGATTTCATTT
3788822 TAAATTTTCTTTTATCTTTAAGAATATATTTTTT
196 TAAATTTTCTTTTATCTTTAAGAATATATTTTTT
3788856 TTCTAAAAGGTCCAATCAGCAGCAAGAGTAGTTTCTAGAAGGTTCAATTAGCATTATTTAGAAGC
1 TTCTAAAAGGTCCAATCAGCAGCAAGAGTAGTTTCTAGAAGGTTCAATTAGCATTATTTAGAAGC
3788921 AAGGCGGGCAAAAATCATTTAGGAATTAAGTTTGAATTTGAAACAAATATTTGGGATTTATCTTG
66 AAGGCGGGCAAAAATCATTTAGGAATTAAGTTTGAATTTGAAACAAATATTTGGGATTTATCTTG
3788986 TTATTATTTGG-AATTTGTCTTTTGGTTAATTTTAGAATTATCTTTAGGATAGTTGATTTCATTT
131 TTATTATTTGGAAATTTGTCTTTTGGTTAATTTTAGAATTATCTTTAGGATAGTTGATTTCATTT
3789050 TAAATTTTCTTTTATCTTTAAGAATATTATTTTTT
196 TAAATTTTCTTTTATCTTTAAGAATA-TATTTTTT
3789085 GTAATTCTCT
Statistics
Matches: 228, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
228 79 0.35
229 149 0.65
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (229 bp):
TTCTAAAAGGTCCAATCAGCAGCAAGAGTAGTTTCTAGAAGGTTCAATTAGCATTATTTAGAAGC
AAGGCGGGCAAAAATCATTTAGGAATTAAGTTTGAATTTGAAACAAATATTTGGGATTTATCTTG
TTATTATTTGGAAATTTGTCTTTTGGTTAATTTTAGAATTATCTTTAGGATAGTTGATTTCATTT
TAAATTTTCTTTTATCTTTAAGAATATATTTTTT
Found at i:3789771 original size:21 final size:21
Alignment explanation
Indices: 3789726--3789769 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
3789716 TTTTCAACTA
3789726 TTTACTTTCATTTTTTTTATT
1 TTTACTTTCATTTTTTTTATT
3789747 TTTAC-TT-ATTTTATTTTATT
1 TTTACTTTCATTTT-TTTTATT
3789767 TTT
1 TTT
3789770 TATATTATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTACTTTCATTTTTTTTATT
Found at i:3796710 original size:21 final size:20
Alignment explanation
Indices: 3796680--3796726 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
3796670 TTTATTTGAA
3796680 AAAAATAATC-AAAGATAAAT
1 AAAAATAATCGAAA-ATAAAT
3796700 AAAAATGAATCGAAAATAAAT
1 AAAAAT-AATCGAAAATAAAT
*
3796721 TAAAAT
1 AAAAAT
3796727 TCAAACGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (20 bp):
AAAAATAATCGAAAATAAAT
Found at i:3798297 original size:160 final size:161
Alignment explanation
Indices: 3798033--3798353 Score: 635
Period size: 160 Copynumber: 2.0 Consensus size: 161
3798023 GTTTGTGCAT
3798033 GTGATGTATTTGGGGTTTTAAACCCTAGTTTGATCTGATCGTGGCCATTGATTTTCCCTCTGATC
1 GTGATGTATTTGGGGTTTTAAACCCTAGTTTGATCTGATCGTGGCCATTGATTTTCCCTCTGATC
3798098 GTTCAGATGGGATGATGCGGTGCTAATGCTTAATGATAAAACCCT-ATGCTCCTATTGGACCCCA
66 GTTCAGATGGGATGATGCGGTGCTAATGCTTAATGATAAAACCCTAATGCTCCTATTGGACCCCA
3798162 ACCAGGCTTTGCTTGCTGGGTCAAGCTTGTA
131 ACCAGGCTTTGCTTGCTGGGTCAAGCTTGTA
3798193 GTGATGTATTTGGGGTTTTAAACCCTAGTTTGATCTGATCGTGGCCATTGATTTTCCCTCTGATC
1 GTGATGTATTTGGGGTTTTAAACCCTAGTTTGATCTGATCGTGGCCATTGATTTTCCCTCTGATC
3798258 GTTCAGATGGGATGATGCGGTGCTAATGCTTAATGATAAAACCCTAATGCTCCTATTGGACCCCA
66 GTTCAGATGGGATGATGCGGTGCTAATGCTTAATGATAAAACCCTAATGCTCCTATTGGACCCCA
3798323 ACCAGGCTTTGCTTGCTGGGTCAAGCTTGTA
131 ACCAGGCTTTGCTTGCTGGGTCAAGCTTGTA
3798354 TTACTCAGTT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 110 0.69
161 50 0.31
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (161 bp):
GTGATGTATTTGGGGTTTTAAACCCTAGTTTGATCTGATCGTGGCCATTGATTTTCCCTCTGATC
GTTCAGATGGGATGATGCGGTGCTAATGCTTAATGATAAAACCCTAATGCTCCTATTGGACCCCA
ACCAGGCTTTGCTTGCTGGGTCAAGCTTGTA
Found at i:3798455 original size:3 final size:3
Alignment explanation
Indices: 3798447--3798478 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3798437 AGAGGGAAAA
3798447 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3798479 ATATAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3798517 original size:23 final size:25
Alignment explanation
Indices: 3798479--3798531 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
3798469 ATAATAATAA
* *
3798479 ATATA-ATATATGTTTTCA-AAA-T
1 ATATATATATATATTTTAATAAACT
3798501 ATATATATATATATTTTAATAAACT
1 ATATATATATATATTTTAATAAACT
3798526 ATATAT
1 ATATAT
3798532 TTTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 11 0.42
24 3 0.12
25 7 0.27
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATATATATATATTTTAATAAACT
Found at i:3798543 original size:21 final size:22
Alignment explanation
Indices: 3798519--3798561 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3798509 ATATATTTTA
* *
3798519 ATAAAC-TATATATTTTAAAAT
1 ATAAACATATACATTTCAAAAT
3798540 ATAAACATATACATTTCAAAAT
1 ATAAACATATACATTTCAAAAT
3798562 TATATCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAAACATATACATTTCAAAAT
Found at i:3798582 original size:2 final size:2
Alignment explanation
Indices: 3798575--3798606 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3798565 ATCTTTTCAA
3798575 AT AT AT AT AT AT AT A- AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3798607 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3798587 original size:37 final size:39
Alignment explanation
Indices: 3798485--3798587 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 39
3798475 ATAAATATAA
* *
3798485 TATATGTTTTCAAAATATATATATATATATTTTAATAAAC
1 TATATATTTTC-AAATATATATATATACATTTTAATAAAC
* * * * *
3798525 TATATATTTTAAAATATAAACATATACA-TTTCA-AAAT
1 TATATATTTTCAAATATATATATATACATTTTAATAAAC
*
3798562 TATATCTTTTCAAATATATATATATA
1 TATATATTTTCAAATATATATATATA
3798588 TAATATATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
37 25 0.48
38 4 0.08
39 14 0.27
40 9 0.17
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.46
Consensus pattern (39 bp):
TATATATTTTCAAATATATATATATACATTTTAATAAAC
Found at i:3798592 original size:15 final size:15
Alignment explanation
Indices: 3798574--3798602 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3798564 TATCTTTTCA
3798574 AATATATATATATAT
1 AATATATATATATAT
3798589 AATATATATATATA
1 AATATATATATATA
3798603 ATATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:3798595 original size:13 final size:13
Alignment explanation
Indices: 3798577--3798606 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
3798567 CTTTTCAAAT
3798577 ATATATATATATA
1 ATATATATATATA
3798590 ATATATATATATA
1 ATATATATATATA
3798603 ATAT
1 ATAT
3798607 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATATATATA
Found at i:3799590 original size:6 final size:7
Alignment explanation
Indices: 3799574--3799604 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3799564 TTTAATTGCG
3799574 AAAATTT
1 AAAATTT
3799581 AAAA-TT
1 AAAATTT
3799587 AAAATTT
1 AAAATTT
3799594 AAAATTT
1 AAAATTT
3799601 AAAA
1 AAAA
3799605 ACCCGATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
AAAATTT
Found at i:3799592 original size:13 final size:14
Alignment explanation
Indices: 3799574--3799604 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3799564 TTTAATTGCG
3799574 AAAATTTAAAA-TT
1 AAAATTTAAAATTT
3799587 AAAATTTAAAATTT
1 AAAATTTAAAATTT
3799601 AAAA
1 AAAA
3799605 ACCCGATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATTTAAAATTT
Found at i:3799791 original size:36 final size:37
Alignment explanation
Indices: 3799741--3799833 Score: 95
Period size: 36 Copynumber: 2.5 Consensus size: 37
3799731 GAAAATAGAC
* *
3799741 AAATAAATATAAATGAAATTTAGTAAAAAA-ATAATAAT
1 AAATTAATAAAAATGAAATTTA-TAAAAAATATAA-AAT
*
3799779 -AA-TAATAAAAATGAAA-ATATAAAAAATATAAAAT
1 AAATTAATAAAAATGAAATTTATAAAAAATATAAAAT
*
3799813 AAATTAATAAATAATTAAATT
1 AAATTAATAAA-AATGAAATT
3799834 AACCAAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
34 10 0.22
35 8 0.18
36 19 0.42
37 8 0.18
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (37 bp):
AAATTAATAAAAATGAAATTTATAAAAAATATAAAAT
Found at i:3799797 original size:21 final size:22
Alignment explanation
Indices: 3799764--3799831 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
3799754 TGAAATTTAG
*
3799764 TAAAAAAATAATAAT-AATAATA
1 TAAAATAA-AATAATAAATAATA
*
3799786 -AAAATGAAAAT-ATAAAAAATA
1 TAAAAT-AAAATAATAAATAATA
*
3799807 TAAAATAAATTAATAAATAAT-
1 TAAAATAAAATAATAAATAATA
3799828 TAAA
1 TAAA
3799832 TTAACCAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 2 0.05
21 21 0.55
22 15 0.39
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAAATAAAATAATAAATAATA
Found at i:3801820 original size:21 final size:21
Alignment explanation
Indices: 3801794--3801833 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3801784 GGAAACTGTC
3801794 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
3801815 TCAAGAGAGACAAGATTTG
1 TCAAGAGAGACAAAATTTG
3801834 CTCCAAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:3801840 original size:21 final size:21
Alignment explanation
Indices: 3801795--3801840 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3801785 GAAACTGTCT
* *
3801795 CAAGAGAGACAAAATTTGTTT
1 CAAGAGAGACAAAATTTGCTC
*
3801816 CAAGAGAGACAAGATTTGCTC
1 CAAGAGAGACAAAATTTGCTC
3801837 CAAG
1 CAAG
3801841 GGAAACTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (21 bp):
CAAGAGAGACAAAATTTGCTC
Found at i:3802280 original size:106 final size:106
Alignment explanation
Indices: 3802089--3802643 Score: 728
Period size: 106 Copynumber: 5.5 Consensus size: 106
3802079 TATTGTTCCA
* * * * *
3802089 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * * * * *
3802154 CAGCCGTCCTTTCATTGTGAAGTTGAACTTGTGTTGCCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* *
3802195 AGTCCAATATACTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
3802260 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* *
3802301 AGCCCAATATCCTTC-AT-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * *
3802354 TAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
*
3802395 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
3802460 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
3802501 AGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
3802554 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
3802595 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGAATTGGGAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAA
3802644 GCCCCTTTGT
Statistics
Matches: 396, Mismatches: 28, Indels: 50
0.84 0.06 0.11
Matches are distributed among these distances:
94 161 0.41
95 4 0.01
96 4 0.01
99 6 0.02
100 8 0.02
101 6 0.02
104 4 0.01
105 5 0.01
106 198 0.50
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
Found at i:3802402 original size:94 final size:94
Alignment explanation
Indices: 3802236--3802628 Score: 597
Period size: 94 Copynumber: 4.1 Consensus size: 94
3802226 TGGCTCTGAG
*
3802236 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
1 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3802301 AGCCCAATATCCTTCATTGTGAAGTTGAA
66 AGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
3802330 ATTGGGAAATTGTTTATTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCGTTGTCTGG
1 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
3802395 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
66 AGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAA
*
3802436 ATTGGGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
3802501 AGTCCAATATCCTTCGTTGTGAAGTTGAA
66 AGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
3802530 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAG
1 ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3802595 AGTCCAATATCCTTCGCTGTGAAGTTGAA
66 AGTCCAATATCCTTCGTTGTGAAGTTGAA
3802624 ATTGG
1 ATTGG
3802629 CTCTAGAATT
Statistics
Matches: 275, Mismatches: 12, Indels: 24
0.88 0.04 0.08
Matches are distributed among these distances:
94 175 0.64
95 2 0.01
96 2 0.01
99 3 0.01
100 4 0.01
101 3 0.01
104 2 0.01
105 2 0.01
106 82 0.30
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGTTGTGAAGTTGAA
Found at i:3802475 original size:200 final size:200
Alignment explanation
Indices: 3802132--3802643 Score: 846
Period size: 200 Copynumber: 2.6 Consensus size: 200
3802122 GCTCTGGAAC
* * * * * * *
3802132 TGGGAAATTGTTTGTTGACAACCAGCCGTCCTTTCATTGTGAAGTTGAACTTGTGTTGCCTCGAG
1 TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAG
* *
3802197 TCCAATATACTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAATTGTTTATTGACAACCA
66 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
* *
3802262 GCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGCCCAATATCCTTCATTGTGAAGTT
131 GCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGCCCAATATCCTTCATTGTGAAGTT
3802327 GAAAT
196 GAAAT
* * * *
3802332 TGGGAAATTGTTTATTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCGTTGTCTGGAG
1 TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAG
*
3802397 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
66 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
* *
3802462 GCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
131 GCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGCCCAATATCCTTCATTGTGAAGTT
3802527 GAAAT
196 GAAAT
3802532 TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAG
1 TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAG
3802597 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGAATTGGGAA
66 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAA
3802644 GCCCCTTTGT
Statistics
Matches: 289, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 1 0.00
200 288 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (200 bp):
TGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAG
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCA
GCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGCCCAATATCCTTCATTGTGAAGTT
GAAAT
Found at i:3806682 original size:6 final size:7
Alignment explanation
Indices: 3806663--3806693 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3806653 TTTAATTGCG
3806663 AAAATTT
1 AAAATTT
3806670 AAAATTT
1 AAAATTT
3806677 -AAATTT
1 AAAATTT
3806683 AAAATTT
1 AAAATTT
3806690 AAAA
1 AAAA
3806694 ACCCGATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:3806682 original size:13 final size:13
Alignment explanation
Indices: 3806664--3806692 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3806654 TTAATTGCGA
3806664 AAATTTAAAATTT
1 AAATTTAAAATTT
3806677 AAATTTAAAATTT
1 AAATTTAAAATTT
3806690 AAA
1 AAA
3806693 AACCCGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:3806877 original size:33 final size:29
Alignment explanation
Indices: 3806834--3806902 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 29
3806824 ATAGACAAAT
* *
3806834 AAATATAAATGAAATTTAGTAAAAAAATAATA
1 AAATAAAAATGAAA-ATA-TAAAAAAAT-ATA
3806866 ATAATAAAAATGAAAATATAAAAAAATATA
1 A-AATAAAAATGAAAATATAAAAAAATATA
3806896 AAATAAA
1 AAATAAA
3806903 TTAATTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 6 0.18
30 4 0.12
31 9 0.26
32 3 0.09
33 12 0.35
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (29 bp):
AAATAAAAATGAAAATATAAAAAAATATA
Found at i:3810070 original size:19 final size:19
Alignment explanation
Indices: 3810046--3810084 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3810036 ATGACCAACA
* *
3810046 AAATCGTAATACGATCTCT
1 AAATCGCAACACGATCTCT
*
3810065 AAATCGCAACGCGATCTCT
1 AAATCGCAACACGATCTCT
3810084 A
1 A
3810085 TTATCGCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (19 bp):
AAATCGCAACACGATCTCT
Found at i:3810157 original size:21 final size:21
Alignment explanation
Indices: 3810131--3810180 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
3810121 TTGACCATCA
*
3810131 CATTGCGATTTTCGA-AATCCG
1 CATTGCGATTTTAGATAAT-CG
3810152 CATTGCGATTTTAGATAATCG
1 CATTGCGATTTTAGATAATCG
*
3810173 CAATGCGA
1 CATTGCGA
3810181 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
CATTGCGATTTTAGATAATCG
Found at i:3810214 original size:41 final size:41
Alignment explanation
Indices: 3810169--3810279 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
3810159 ATTTTAGATA
* * *
3810169 ATCGCAATGCGAATATGTA-AATCGCAATGCGATAACACTTG
1 ATCGCAACGCGAATATG-ACAATCGCAACGCGATAACACGTG
* * * *
3810210 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTG
1 ATCGCAACGCGAATATGACAATCGCAACGCGATAACACGTG
* * *
3810251 ATCGCAACGCGATTCTGACTATCGCAACG
1 ATCGCAACGCGAATATGACAATCGCAACG
3810280 AGATTCTGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.02
41 61 0.98
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
ATCGCAACGCGAATATGACAATCGCAACGCGATAACACGTG
Found at i:3810235 original size:20 final size:20
Alignment explanation
Indices: 3810210--3810295 Score: 120
Period size: 20 Copynumber: 4.2 Consensus size: 20
3810200 ATAACACTTG
3810210 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
3810230 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
3810250 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
3810271 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
3810291 ATCGC
1 ATCGC
3810296 GTTGCGATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.03
20 39 0.67
21 15 0.26
22 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:3810256 original size:21 final size:20
Alignment explanation
Indices: 3810189--3810263 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
3810179 GAATATGTAA
* *
3810189 ATCGCAATGCGATAACACTTG
1 ATCGCAACGCGATAATAC-TG
**
3810210 ATCGCAACGCGATTCTGACT-
1 ATCGCAACGCGATAAT-ACTG
3810230 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATAATAC-TG
3810251 ATCGCAACGCGAT
1 ATCGCAACGCGAT
3810264 TCTGACTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 26 0.58
22 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATAATACTG
Found at i:3810316 original size:61 final size:61
Alignment explanation
Indices: 3810210--3810325 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
3810200 ATAACACTTG
* ***
3810210 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACT
*** * *
3810271 ATCGCAACGAGATTCTGACTATCGCGTTGCGATAATATAAAATCGCAATGCGATT
1 ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACAAAATCGCAACGCGATT
3810326 TTCAAAGCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (61 bp):
ATCGCAACGAGATTCTGACTATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACT
Found at i:3810490 original size:22 final size:22
Alignment explanation
Indices: 3810465--3810559 Score: 111
Period size: 22 Copynumber: 4.3 Consensus size: 22
3810455 CTACGGCGAC
3810465 ATCCGTCCCCATCTCCAACGAA
1 ATCCGTCCCCATCTCCAACGAA
* * *
3810487 ATCCATCCCCAT-TTCAGGCGAA
1 ATCCGTCCCCATCTCCA-ACGAA
* **
3810509 ATCCGTCCCCATATCCGGCGAA
1 ATCCGTCCCCATCTCCAACGAA
*
3810531 ATCCGTCCCCATCTCCCACGAA
1 ATCCGTCCCCATCTCCAACGAA
3810553 ATCCGTC
1 ATCCGTC
3810560 TATCTCCATC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
21 3 0.05
22 57 0.92
23 2 0.03
ACGTcount: A:0.24, C:0.43, G:0.13, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCAACGAA
Found at i:3810513 original size:44 final size:44
Alignment explanation
Indices: 3810459--3810542 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
3810449 CACTCTCTAC
* *
3810459 GGCGACATCCGTCCCCATCTCCAACGAAATCCATCCCCATTTCA
1 GGCGAAATCCGTCCCCATATCCAACGAAATCCATCCCCATTTCA
** *
3810503 GGCGAAATCCGTCCCCATATCCGGCGAAATCCGTCCCCAT
1 GGCGAAATCCGTCCCCATATCCAACGAAATCCATCCCCAT
3810543 CTCCCACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.24, C:0.42, G:0.15, T:0.19
Consensus pattern (44 bp):
GGCGAAATCCGTCCCCATATCCAACGAAATCCATCCCCATTTCA
Found at i:3810974 original size:20 final size:20
Alignment explanation
Indices: 3810921--3810976 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3810911 GATAGTCAAA
* **
3810921 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
*
3810941 TTCATGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
3810961 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
3810977 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:3810983 original size:20 final size:20
Alignment explanation
Indices: 3810940--3810984 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3810930 CGATAATCAT
* *
3810940 TTTCATGTTGCGATTTTCAT
1 TTTCATGTTGCGATTTTAAG
*
3810960 TTTCGTGTTGCGATTTTAAG
1 TTTCATGTTGCGATTTTAAG
3810980 TTTCA
1 TTTCA
3810985 GAAACTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTCATGTTGCGATTTTAAG
Found at i:3812840 original size:32 final size:32
Alignment explanation
Indices: 3812799--3812859 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
3812789 TTTGTCTTTG
*
3812799 TTTTGTCTTTTGG-TTGAAGTTAGTAAATTCTTA
1 TTTTGTCTTTTGGATTG--CTTAGTAAATTCTTA
3812832 TTTT-TCTTTTGGATTGCTTAGTAAATTC
1 TTTTGTCTTTTGGATTGCTTAGTAAATTC
3812860 ATTCGGTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.42
32 8 0.31
33 7 0.27
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (32 bp):
TTTTGTCTTTTGGATTGCTTAGTAAATTCTTA
Found at i:3813021 original size:20 final size:19
Alignment explanation
Indices: 3812980--3813134 Score: 87
Period size: 20 Copynumber: 8.4 Consensus size: 19
3812970 AGAAGAATAG
* *
3812980 TCGCAACACGAAAATGATTA
1 TCGCAACGCG-AAATGACTA
*
3813000 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* *
3813020 TCGTAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
* *
3813034 TCGCAATGCGAAAACGACTA
1 TCGCAACGCG-AAATGACTA
3813054 TCGCAACGCGGAAATGACTA
1 TCGCAACGC-GAAATGACTA
* *
3813074 TCGCAATGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* *
3813094 TGGCAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
3813108 TCGCAACGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
3813128 TCGCAAC
1 TCGCAAC
3813135 ACAAATTTAG
Statistics
Matches: 100, Mismatches: 20, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
14 15 0.15
15 2 0.02
16 2 0.02
17 5 0.05
18 2 0.02
19 7 0.07
20 66 0.66
21 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:3813102 original size:74 final size:74
Alignment explanation
Indices: 3812980--3813136 Score: 242
Period size: 74 Copynumber: 2.1 Consensus size: 74
3812970 AGAAGAATAG
* * *
3812980 TCGCAACACGAAAATGATTATCGCAACGCGAATTTGACTATCGTAACGGGATAATCGCAATGCGA
1 TCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAACGCGA
3813045 AAACGACTA
66 AAACGACTA
* * * *
3813054 TCGCAACGCGGAAATGACTATCGCAATGCGAATTTGACTATGGCAACGGGATAATCGCAACGCGA
1 TCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAACGCGA
*
3813119 AAATGACTA
66 AAACGACTA
3813128 TCGCAACAC
1 TCGCAACAC
3813137 AAATTTAGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (74 bp):
TCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAACGCGA
AAACGACTA
Found at i:3813179 original size:19 final size:19
Alignment explanation
Indices: 3813140--3813180 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3813130 GCAACACAAA
*
3813140 TTTAGTTTCGCGTTGTAAT
1 TTTAGTTTCGCGTTGCAAT
* *
3813159 TTTAGTTTCGTGTTGCGAT
1 TTTAGTTTCGCGTTGCAAT
3813178 TTT
1 TTT
3813181 CTCGTTGCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.10, G:0.22, T:0.56
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCAAT
Found at i:3813248 original size:20 final size:20
Alignment explanation
Indices: 3813176--3813250 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
3813166 TCGTGTTGCG
* *
3813176 ATTTTCTCGTTGCGATAGTC
1 ATTTTCGCGTTGCAATAGTC
*
3813196 A-TTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCAATAGTC
** *
3813215 AAATTCGCGTTGCAATAATC
1 ATTTTCGCGTTGCAATAGTC
3813235 ATTTTCGCGTTGCAAT
1 ATTTTCGCGTTGCAAT
3813251 TTTAAGTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCAATAGTC
Found at i:3813260 original size:20 final size:20
Alignment explanation
Indices: 3813218--3813279 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
3813208 GATAGTCAAA
** * *
3813218 TTCGCGTTGCAATAATCATT
1 TTCGCGTTGCAATTTTAAGT
3813238 TTCGCGTTGCAATTTTAAGT
1 TTCGCGTTGCAATTTTAAGT
* *
3813258 TTCGTGTTGCGATTTTAAGT
1 TTCGCGTTGCAATTTTAAGT
3813278 TT
1 TT
3813280 TAGAAACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCAATTTTAAGT
Found at i:3813833 original size:42 final size:42
Alignment explanation
Indices: 3813769--3813869 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
3813759 CTGTCATCGT
* * *
3813769 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* * **
3813811 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* *
3813853 TGAAGAGGTCCCTCCCA
1 TCAAGAGGCCCCTCCCA
3813870 ACATTCTAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.22
Consensus pattern (42 bp):
TCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Done.