Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 25
Found at i:4833098 original size:18 final size:21
Alignment explanation
Indices: 4833060--4833108 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
4833050 AATTTTAAAA
4833060 CTGTTTCCCAAACAGCAGCAG
1 CTGTTTCCCAAACAGCAGCAG
4833081 CTGTTTCCCAAACAGCAGCAG
1 CTGTTTCCCAAACAGCAGCAG
4833102 CTGTTTC
1 CTGTTTC
4833109 TACTCCAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (21 bp):
CTGTTTCCCAAACAGCAGCAG
Found at i:4837374 original size:16 final size:16
Alignment explanation
Indices: 4837355--4837388 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4837345 ATAAGGTGAC
4837355 GCGATGATATAGGGGT
1 GCGATGATATAGGGGT
4837371 GCGATGATATAGGGGT
1 GCGATGATATAGGGGT
4837387 GC
1 GC
4837389 CCGTGATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.44, T:0.24
Consensus pattern (16 bp):
GCGATGATATAGGGGT
Found at i:4841577 original size:21 final size:21
Alignment explanation
Indices: 4841547--4841587 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4841537 CCATGAACAG
*
4841547 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCGATGCAT
*
4841568 TGCTATAGTGCACCGATGCA
1 TGCTACAGTGCACCGATGCA
4841588 CTAAAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGCACCGATGCAT
Found at i:4841650 original size:21 final size:21
Alignment explanation
Indices: 4841609--4841650 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4841599 AAGCAAATTT
*
4841609 GTGCATCGATGCATTGCTACA
1 GTGCATCGATGCACTGCTACA
*
4841630 GTGCATCGATGCACTGTTACA
1 GTGCATCGATGCACTGCTACA
4841651 ATGACTTCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
GTGCATCGATGCACTGCTACA
Found at i:4842358 original size:31 final size:31
Alignment explanation
Indices: 4842323--4842403 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
4842313 TCCATAGATT
*
4842323 CCGAAGAACCTAGGTAAACAATCCATATGTC
1 CCGAAGAACATAGGTAAACAATCCATATGTC
*
4842354 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAATCCATATGTC
4842385 CCGAAGAACATAGGTAAAC
1 CCGAAGAACATAGGTAAAC
4842404 CCTCGACCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAATCCATATGTC
Found at i:4842434 original size:20 final size:20
Alignment explanation
Indices: 4842409--4842452 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4842399 TAAACCCTCG
4842409 ACCCTTGGCATGTCAACTAT
1 ACCCTTGGCATGTCAACTAT
4842429 ACCCTTGGCATGTCAACTAT
1 ACCCTTGGCATGTCAACTAT
4842449 ACCC
1 ACCC
4842453 CTAGCTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (20 bp):
ACCCTTGGCATGTCAACTAT
Found at i:4845501 original size:65 final size:65
Alignment explanation
Indices: 4845427--4845556 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
4845417 TTCGGTTGTA
4845427 TTGATGGCACATAATTTGAATTAGTAAATGGATTATGTATGCCAAGGTGGAGGGAGGGCATGGGT
1 TTGATGGCACATAATTTGAATTAGTAAATGGATTATGTATGCCAAGGTGGAGGGAGGGCATGGGT
4845492 TTGATGGCACATAATTTGAATTAGTAAATGGATTATGTATGCCAAGGTGGAGGGAGGGCATGGGT
1 TTGATGGCACATAATTTGAATTAGTAAATGGATTATGTATGCCAAGGTGGAGGGAGGGCATGGGT
4845557 AAGTTCAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.29, C:0.08, G:0.34, T:0.29
Consensus pattern (65 bp):
TTGATGGCACATAATTTGAATTAGTAAATGGATTATGTATGCCAAGGTGGAGGGAGGGCATGGGT
Found at i:4846235 original size:42 final size:42
Alignment explanation
Indices: 4846148--4846242 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
4846138 GATGAAAATA
* * * * * **
4846148 TTTTGTAACTAGTCTTAGTTTGTGATTTGTGATGATAATTGT
1 TTTTGTCACTAGTCTTAGTTAGTGATTTGCGAAGACAATAAT
4846190 TTTTGTCACTAGTCTTAGTTAGTGATTTGCGAAGACAATAAT
1 TTTTGTCACTAGTCTTAGTTAGTGATTTGCGAAGACAATAAT
*
4846232 TTTTATCACTA
1 TTTTGTCACTA
4846243 TTAAAGTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.47
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTAGTGATTTGCGAAGACAATAAT
Found at i:4847862 original size:15 final size:16
Alignment explanation
Indices: 4847842--4847882 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4847832 GTTTACTTCA
*
4847842 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
*
4847857 GAATGATTCAAATGTT
1 GAATGATTCAAACGTT
4847873 GAATGATTCA
1 GAATGATTCA
4847883 GAGGTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:4849722 original size:22 final size:21
Alignment explanation
Indices: 4849697--4849741 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4849687 AATAAACATT
*
4849697 TTAAAATTTTAAATATCGATAC
1 TTAAAATATT-AATATCGATAC
* *
4849719 TTAATATATTATTATCGATAC
1 TTAAAATATTAATATCGATAC
4849740 TT
1 TT
4849742 TTAAATAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (21 bp):
TTAAAATATTAATATCGATAC
Found at i:4849863 original size:72 final size:73
Alignment explanation
Indices: 4849773--4849942 Score: 180
Period size: 72 Copynumber: 2.3 Consensus size: 73
4849763 GATAAGATTG
* * ** *
4849773 AAATTTAAAATATTGATACTTATGTGATAATGATCAATACTTTTAGAAATTGAA-AAGTTGATAA
1 AAATTTAAAATATCGATACATATGCAATAATGATCAATACTTTTAGAAATTAAACAAGTTGATAA
4849837 AAAAATCA
66 AAAAATCA
* * ** *
4849845 AAATTTCAAATATCGATACATATGCAATGATGATCGTTACTTTTAGATATTAAACAAGTTGATGA
1 AAATTTAAAATATCGATACATATGCAATAATGATCAATACTTTTAGAAATTAAACAAGTTGAT-A
* ** *
4849910 ATATGATCG
65 AAAAAATCA
* *
4849919 ATAGTTAAAATATCGATACATATG
1 AAATTTAAAATATCGATACATATG
4849943 TTCTGAGGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
72 44 0.56
73 8 0.10
74 27 0.34
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (73 bp):
AAATTTAAAATATCGATACATATGCAATAATGATCAATACTTTTAGAAATTAAACAAGTTGATAA
AAAAATCA
Found at i:4850287 original size:99 final size:99
Alignment explanation
Indices: 4850170--4850360 Score: 274
Period size: 99 Copynumber: 1.9 Consensus size: 99
4850160 GATGCTTTTG
* *
4850170 CATAAAAAATGCGCTACCTACTAGGTTATCATGAAAAACATATTTTGTCTTACTTTTGCATAATA
1 CATAAAAAAAGCGCTACCTACTACGTTATCATGAAAAACATATTTTGTCTTACTTTTGCATAATA
* *
4850235 TAAACAATTTTGTGCTTATAACTTAAATGGTTGA
66 TAAACAATTTTATACTTATAACTTAAATGGTTGA
* * * * * *
4850269 CATAAAAAAAGCGTTACCTACTACGTTATCATGAGAAACTTGTTTTGTTTTACTTTTGCATCATA
1 CATAAAAAAAGCGCTACCTACTACGTTATCATGAAAAACATATTTTGTCTTACTTTTGCATAATA
* *
4850334 TAAACATTTTTATACTTGTAACTTAAA
66 TAAACAATTTTATACTTATAACTTAAA
4850361 CAATTGATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (99 bp):
CATAAAAAAAGCGCTACCTACTACGTTATCATGAAAAACATATTTTGTCTTACTTTTGCATAATA
TAAACAATTTTATACTTATAACTTAAATGGTTGA
Found at i:4850377 original size:99 final size:101
Alignment explanation
Indices: 4850173--4850404 Score: 261
Period size: 99 Copynumber: 2.3 Consensus size: 101
4850163 GCTTTTGCAT
* * * *
4850173 AAAAAATGCGCTACCTACTAGGTTATCATGAAAAACATATTTTGTCTTACTTTTGCATAATATAA
1 AAAAAAGGCGTTACCTACTACGTTATCATGAGAAACATATTTTGTCTTACTTTTGCATAATATAA
* * ***
4850238 ACAATTTTGTGCTTATAACTTAAATGGTTGACAT-A
66 ACAATTTTATACTTATAACTTAAACAATTGACATAA
* * * *
4850273 AAAAAA-GCGTTACCTACTACGTTATCATGAGAAACTTGTTTTGTTTTACTTTTGCATCATATAA
1 AAAAAAGGCGTTACCTACTACGTTATCATGAGAAACATATTTTGTCTTACTTTTGCATAATATAA
* * * **
4850337 ACATTTTTATACTTGTAACTTAAACAATTGATATCT
66 ACAATTTTATACTTATAACTTAAACAATTGACATAA
* **
4850373 AAAAAAGGTGTTACCTTTTACGTTATCATGAG
1 AAAAAAGGCGTTACCTACTACGTTATCATGAG
4850405 CATAATAAAA
Statistics
Matches: 111, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
99 77 0.69
100 12 0.11
101 22 0.20
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (101 bp):
AAAAAAGGCGTTACCTACTACGTTATCATGAGAAACATATTTTGTCTTACTTTTGCATAATATAA
ACAATTTTATACTTATAACTTAAACAATTGACATAA
Found at i:4850669 original size:73 final size:70
Alignment explanation
Indices: 4850529--4850719 Score: 226
Period size: 73 Copynumber: 2.7 Consensus size: 70
4850519 ATATTTTAAC
* **
4850529 TTTCGAATTCAAAAGTATCGATACTTTTAAAAAAAATATTCATACTTTGCATTCTTCTCATTTTT
1 TTTC-AATTCGAAAGTATCGATACTTTTAAAAAAAATATTCATACTTTGCAACCTTCTCATTTTT
4850594 CATGTT
65 CATGTT
** * *
4850600 TTTCTTTAAATTCGAAAGTATCGATACTTTT-GGAAAAGTA-TCGATCCTTTGCAACCTTCTCAT
1 TTTC----AATTCGAAAGTATCGATACTTTTAAAAAAAATATTC-ATACTTTGCAACCTTCTCAT
4850663 TTTTCATGTT
61 TTTTCATGTT
*
4850673 TTTCAATTCGAAAATATCGATAC-TTTAGAAAAAAATATTCATACTTT
1 TTTCAATTCGAAAGTATCGATACTTTTA-AAAAAAATATTCATACTTT
4850720 TGAATTAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
68 3 0.03
69 18 0.18
70 12 0.12
71 6 0.06
72 2 0.02
73 37 0.37
74 22 0.22
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (70 bp):
TTTCAATTCGAAAGTATCGATACTTTTAAAAAAAATATTCATACTTTGCAACCTTCTCATTTTTC
ATGTT
Found at i:4851026 original size:75 final size:76
Alignment explanation
Indices: 4850854--4851072 Score: 255
Period size: 75 Copynumber: 2.9 Consensus size: 76
4850844 ACTTTTAAAT
* *** ** *
4850854 TTTTA-TAATAAAAATATTAACATTCCATATTGTAATTTACTTTCTTAGTGAA-TTGTAACATTC
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACATA-TTTCTTAGTGAACATG--ACATTC
*
4850917 TTGGACACAACCCA
63 TTGGACACAACCAA
*
4850931 TTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAACATGACATTCTTG
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACATATTTCTTAGTGAACATGACATTCTTG
**
4850996 GTGA-AACCAA
66 GACACAACCAA
* * *
4851006 TTTTATTAATAAAAATATTAATATTCAAGATCACAACATATTTCTTAATGAACCATGACATTCTT
1 TTTTATTAATAAAAATATTAACATTCCAGATCACAACATATTTCTTAGTGAA-CATGACATTCTT
4851071 GG
65 GG
4851073 GTGCAACTGT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
75 53 0.42
76 25 0.20
77 17 0.14
78 30 0.24
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (76 bp):
TTTTATTAATAAAAATATTAACATTCCAGATCACAACATATTTCTTAGTGAACATGACATTCTTG
GACACAACCAA
Found at i:4851326 original size:73 final size:76
Alignment explanation
Indices: 4851175--4851334 Score: 193
Period size: 73 Copynumber: 2.1 Consensus size: 76
4851165 AACTTTGATA
* * * **
4851175 ACATT-TTAGGCGCAACCTATTTAATTAATAAAAATATTAACATTCTAGATCACAACCAATTTCT
1 ACATTCTTGGGCGAAACCCATTTAATTAATAAAAATATTAACATTCTA-ATCACAACCAATTAAT
*
4851239 TAGTGAACCTTG
65 TAGTGAACCATG
* * * *
4851251 ACATTCTTGGGCGAAACCCATTTTATTAGTAAAAATATTAACA-T-T-ATCGCAACCTATTAATT
1 ACATTCTTGGGCGAAACCCATTTAATTAATAAAAATATTAACATTCTAATCACAACCAATTAATT
4851313 AGTGAACCATG
66 AGTGAACCATG
4851324 ACATTCTTGGG
1 ACATTCTTGGG
4851335 TGCAACCATA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
73 34 0.47
75 1 0.01
76 6 0.08
77 32 0.44
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (76 bp):
ACATTCTTGGGCGAAACCCATTTAATTAATAAAAATATTAACATTCTAATCACAACCAATTAATT
AGTGAACCATG
Found at i:4851561 original size:76 final size:77
Alignment explanation
Indices: 4851446--4851587 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 77
4851436 TTAGGTGCAG
*
4851446 CCCATTTTATTAATAAAAATATTAACACTCCAAACCGCAA-CATGTTTCTTAGTGAACCATGACA
1 CCCATTTTATTAATAAAAATATTAACACTCCAAACCGCAATC-TATTTCTTAGTGAACCATGACA
4851510 TTTTTGGGCGAAA
65 TTTTTGGGCGAAA
* * * * *
4851523 CCCATTTTATTAAT-AAAATATTAATATTCTAGATCGCAATCTATTTCTTAGTGAACCATGACAT
1 CCCATTTTATTAATAAAAATATTAACACTCCAAACCGCAATCTATTTCTTAGTGAACCATGACAT
4851587 T
66 T
4851588 CTTTAGTGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
76 43 0.74
77 15 0.26
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (77 bp):
CCCATTTTATTAATAAAAATATTAACACTCCAAACCGCAATCTATTTCTTAGTGAACCATGACAT
TTTTGGGCGAAA
Found at i:4851837 original size:77 final size:78
Alignment explanation
Indices: 4851709--4851855 Score: 194
Period size: 77 Copynumber: 1.9 Consensus size: 78
4851699 AGGCGCAACT
* *
4851709 CATTTTATTAATAAAAATATTAACATTCAATGTCACAAATAATTTCATAGTGAACCTTGACATT-
1 CATTTTATTAATAAAAATATTAACATTCAATATCACAAATAATTTCATAGTGAACCATGACATTC
4851773 TTTGGGCGAAATC
66 TTTGGGCGAAATC
* * *
4851786 CATTTTATTAGTAAAAATATTAACATTTC-ATATCGCAACCT-ATTT-ATTAGTGAACCATGACA
1 CATTTTATTAATAAAAATATTAACA-TTCAATATCACAA-ATAATTTCA-TAGTGAACCATGACA
4851848 TTCTTTGG
63 TTCTTTGG
4851856 TGCAAACATA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
76 1 0.02
77 51 0.84
78 9 0.15
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (78 bp):
CATTTTATTAATAAAAATATTAACATTCAATATCACAAATAATTTCATAGTGAACCATGACATTC
TTTGGGCGAAATC
Found at i:4851903 original size:262 final size:261
Alignment explanation
Indices: 4850924--4852040 Score: 1405
Period size: 262 Copynumber: 4.3 Consensus size: 261
4850914 TTCTTGGACA
* *
4850924 CAACCCATTTTATTAATAAAAATATTAACATTCCAGATCACAACCTATTTCTTAGTGAA-CATGA
1 CAACCCATTTTATTAATAAAAATATTAACATTCAAG-TCACAACATATTTCTTAGTGAACCATGA
* * * * * * *
4850988 CATTCTT-GGTGAAACCAATTTTATTAATAAAAATATTAATATTCAAGATCACAACATATTTCTT
65 CATTTTTGGGCGAAACCCATTTTATTAATAAAAATATTAACATTCAAGATCGCAACCTATTTATT
* * * *
4851052 AATGAACCATGACATTCTTGGGTGC-AACTGTATTTTTTTTAAAATATAATCATAACATTTTCAT
130 AGTGAACCATGACATTCTTGGGTGCAAAC---ATATTTCTT-ATATATAATCATAACATTTTCAT
* * * *
4851116 CTTTAACTTATTTTCTTATCGTGGGAAAATCCAAAGCTCTATCAGCTTAAACTTTGATAACATTT
191 CTTTAACTTATCTTCTTATCGTGGGAAAATCCAAAGCTCCATCAACTTAAACTCTGATAACATTT
4851181 TAGGCG
256 TAGGCG
* * * *
4851187 CAACCTATTTAATTAATAAAAATATTAACATTCTAGATCACAACCA-ATTTCTTAGTGAACCTTG
1 CAACCCATTTTATTAATAAAAATATTAACATTCAAG-TCACAA-CATATTTCTTAGTGAACCATG
* * *
4851251 ACATTCTTGGGCGAAACCCATTTTATTAGTAAAAATATTAACATT----ATCGCAACCTATTAAT
64 ACATTTTTGGGCGAAACCCATTTTATTAATAAAAATATTAACATTCAAGATCGCAACCTATTTAT
*
4851312 TAGTGAACCATGACATTCTTGGGTGCAACCATATTTCTTATATATAATCATAACATTTTCATCTT
129 TAGTGAACCATGACATTCTTGGGTGCAAACATATTTCTTATATATAATCATAACATTTTCATCTT
* * ** *
4851377 TAACTTATCTTCTTATCGTGAGAAAAT-CTAA-CTCCATCGGCTTAAACTCTTATAACATTTTAG
194 TAACTTATCTTCTTATCGTGGGAAAATCCAAAGCTCCATCAACTTAAACTCTGATAACATTTTAG
*
4851440 GTG
259 GCG
* * ** * *
4851443 CAGCCCATTTTATTAATAAAAATATTAACACTCCAAACCGCAACATGTTTCTTAGTGAACCATGA
1 CAACCCATTTTATTAATAAAAATATTAACA-TTCAAGTCACAACATATTTCTTAGTGAACCATGA
* * * *
4851508 CATTTTTGGGCGAAACCCATTTTATTAAT-AAAATATTAATATTCTAGATCGCAATCTATTTCTT
65 CATTTTTGGGCGAAACCCATTTTATTAATAAAAATATTAACATTCAAGATCGCAACCTATTTATT
** * * * *
4851572 AGTGAACCATGACATTCTTTAGTGCAACCATATTTTTTATATATAATTATAACATTTTCATCCTT
130 AGTGAACCATGACATTCTTGGGTGCAAACATATTTCTTATATATAATCATAACATTTTCATCTTT
* * * * * * *
4851637 AACTTATTTTCTTATCGTGTGAAATTTCAAAGCTCCATTAACTTAAATTCTGATAATATTTTAGG
195 AACTTATCTTCTTATCGTGGGAAAATCCAAAGCTCCATCAACTTAAACTCTGATAACATTTTAGG
4851702 CG
260 CG
* * *
4851704 CAACTCATTTTATTAATAAAAATATTAACATTCAATGTCACAA-ATAATTTCATAGTGAACCTTG
1 CAACCCATTTTATTAATAAAAATATTAACATTCAA-GTCACAACAT-ATTTCTTAGTGAACCATG
* * *
4851768 ACATTTTTGGGCGAAATCCATTTTATTAGTAAAAATATTAACATTTC-ATATCGCAACCTATTTA
64 ACATTTTTGGGCGAAACCCATTTTATTAATAAAAATATTAACA-TTCAAGATCGCAACCTATTTA
* ** *
4851832 TTAGTGAACCATGACATTCTTTGGTGCAAACATATTTCTTATATATAATTGTAACATTTTCATGT
128 TTAGTGAACCATGACATTCTTGGGTGCAAACATATTTCTTATATATAATCATAACATTTTCATCT
* *
4851897 TTAACTTATCTTCTTATCGTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTA
193 TTAACTTATCTTCTTATCGTGGGAAAATCCAAAGCTCCATCAACTTAAACTCTGATAACATTTTA
4851962 GGCG
258 GGCG
* * *
4851966 CAACTCATTTTATTAATAAAAATATTAACATTTCAAATCATAACATATTTCTTAGTGAACCATGA
1 CAACCCATTTTATTAATAAAAATATTAACA-TTCAAGTCACAACATATTTCTTAGTGAACCATGA
4852031 CATTCTTTGG
65 CATT-TTTGG
4852041 TGCAACCGTA
Statistics
Matches: 745, Mismatches: 90, Indels: 38
0.85 0.10 0.04
Matches are distributed among these distances:
255 15 0.02
256 105 0.14
257 6 0.01
258 50 0.07
259 104 0.14
260 9 0.01
261 140 0.19
262 204 0.27
263 68 0.09
264 12 0.02
265 32 0.04
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (261 bp):
CAACCCATTTTATTAATAAAAATATTAACATTCAAGTCACAACATATTTCTTAGTGAACCATGAC
ATTTTTGGGCGAAACCCATTTTATTAATAAAAATATTAACATTCAAGATCGCAACCTATTTATTA
GTGAACCATGACATTCTTGGGTGCAAACATATTTCTTATATATAATCATAACATTTTCATCTTTA
ACTTATCTTCTTATCGTGGGAAAATCCAAAGCTCCATCAACTTAAACTCTGATAACATTTTAGGC
G
Found at i:4852107 original size:185 final size:185
Alignment explanation
Indices: 4851785--4852222 Score: 669
Period size: 185 Copynumber: 2.4 Consensus size: 185
4851775 TGGGCGAAAT
* * * * *
4851785 CCATTTTATTAGTAAAAATATTAACATTTCATATCGCAACCTATTTATTAGTGAACCATGACATT
1 CCATTTTATTAATAAAAATATTAACATTTCAAATCACAACATATTTCTTAGTGAACCATGACATT
* *
4851850 CTTTGGTGCAAACATATTTCTTATATATAATTGTAACATTTTCATGTTTAACTTATCTTCTTATC
66 CTTTGGTGCAAACATATTTCTTATATATAATTATAACATTTTCATCTTTAACTTATCTTCTTATC
4851915 GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
131 GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
* *
4851970 TCATTTTATTAATAAAAATATTAACATTTCAAATCATAACATATTTCTTAGTGAACCATGACATT
1 CCATTTTATTAATAAAAATATTAACATTTCAAATCACAACATATTTCTTAGTGAACCATGACATT
* * * *
4852035 CTTTGGTGCAACCGTATTTCTTATATATAATTATAACATTTTCATCTTTAACTTATTTTTTTATC
66 CTTTGGTGCAAACATATTTCTTATATATAATTATAACATTTTCATCTTTAACTTATCTTCTTATC
* * * *
4852100 TTGGGAAAATCCAATGCTCCATTACCTTAAATTCTGATAACATTTTAGGCGCAAC
131 GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
* * * * * *
4852155 CCATTTTATTAATAAAAATATTAACATTCCAGATTACAATATATTTCTTAATGAACTATGACATT
1 CCATTTTATTAATAAAAATATTAACATTTCAAATCACAACATATTTCTTAGTGAACCATGACATT
4852220 CTT
66 CTT
4852223 GGGCGTAACT
Statistics
Matches: 228, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
185 228 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (185 bp):
CCATTTTATTAATAAAAATATTAACATTTCAAATCACAACATATTTCTTAGTGAACCATGACATT
CTTTGGTGCAAACATATTTCTTATATATAATTATAACATTTTCATCTTTAACTTATCTTCTTATC
GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
Found at i:4852275 original size:185 final size:185
Alignment explanation
Indices: 4851785--4852276 Score: 560
Period size: 185 Copynumber: 2.7 Consensus size: 185
4851775 TGGGCGAAAT
* * * * * * *
4851785 CCATTTTATTAGTAAAAATATTAACATTTCATATCGCAACCTATTTATTAGTGAACCATGACATT
1 CCATTTTATTAATAAAAATATTAACATTCCAAATCACAACATATTTCTTAATGAACCATGACATT
* * * * * * * * ** *
4851850 CTTTGGTGCAAACATATTTCTTATATATAATTGTAACATTTTCATGTTTAACTTATCTTCTTATC
66 CTTGGGCGCAACCATATTTATTATATAAAAATATAACATTTTCATCTGCAACTTATTTTCTTATC
4851915 GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
131 GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
* * * *
4851970 TCATTTTATTAATAAAAATATTAACATTTCAAATCATAACATATTTCTTAGTGAACCATGACATT
1 CCATTTTATTAATAAAAATATTAACATTCCAAATCACAACATATTTCTTAATGAACCATGACATT
* * * * * * ** *
4852035 CTTTGGTGCAACCGTATTTCTTATATATAATTATAACATTTTCATCTTTAACTTATTTTTTTATC
66 CTTGGGCGCAACCATATTTATTATATAAAAATATAACATTTTCATCTGCAACTTATTTTCTTATC
* * * *
4852100 TTGGGAAAATCCAATGCTCCATTACCTTAAATTCTGATAACATTTTAGGCGCAAC
131 GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
* * * *
4852155 CCATTTTATTAATAAAAATATTAACATTCCAGATTACAATATATTTCTTAATGAACTATGACATT
1 CCATTTTATTAATAAAAATATTAACATTCCAAATCACAACATATTTCTTAATGAACCATGACATT
*
4852220 CTTGGGCGTAACTCAT-TTTATTA-ATAAAAATATTAACATTCTAT-ATC-GCAACTTATT
66 CTTGGGCGCAAC-CATATTTATTATATAAAAATA-TAACATT-T-TCATCTGCAACTTATT
4852277 CTAAGTGAAT
Statistics
Matches: 269, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
184 7 0.03
185 255 0.95
186 6 0.02
187 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (185 bp):
CCATTTTATTAATAAAAATATTAACATTCCAAATCACAACATATTTCTTAATGAACCATGACATT
CTTGGGCGCAACCATATTTATTATATAAAAATATAACATTTTCATCTGCAACTTATTTTCTTATC
GTGGGAAAATCCAAGGCTCCATTAACTTAAACTCTGATAACATTTTAGGCGCAAC
Found at i:4853789 original size:18 final size:19
Alignment explanation
Indices: 4853766--4853801 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4853756 AACAAAGATG
4853766 TAAAATT-AAAATTAAAAT
1 TAAAATTAAAAATTAAAAT
4853784 TAAAATTAAAAATTAAAA
1 TAAAATTAAAAATTAAAA
4853802 ATTCTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTAAAAATTAAAAT
Found at i:4853804 original size:7 final size:6
Alignment explanation
Indices: 4853766--4853801 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
4853756 AACAAAGATG
4853766 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT T-AAAAT TAAAA
4853802 ATTCTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAAAT
Found at i:4859790 original size:24 final size:24
Alignment explanation
Indices: 4859751--4859859 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
4859741 AAACAGAGAT
* *
4859751 ATCAAAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
4859775 ATCAGATATTAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
4859799 ATCAGAAATCATAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
4859823 GTAATG-TATCATAACAGAATTCA-
1 ATCA-GAAATCAGAACAGAATTCAG
4859846 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
4859860 TAAAATATTT
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
23 1 0.02
24 64 0.97
25 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:4859792 original size:12 final size:12
Alignment explanation
Indices: 4859763--4859822 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
4859753 CAAAAATCAA
4859763 AACAGAATTCAG
1 AACAGAATTCAG
*
4859775 ATCAGATATT-AG
1 AACAGA-ATTCAG
*
4859787 AACAGAATCCAG
1 AACAGAATTCAG
* * *
4859799 ATCAGAAATCAT
1 AACAGAATTCAG
4859811 AACAGAATTCAG
1 AACAGAATTCAG
4859823 GTAATGTATC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
11 2 0.06
12 31 0.86
13 3 0.08
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:4859839 original size:48 final size:47
Alignment explanation
Indices: 4859751--4859857 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 47
4859741 AAACAGAGAT
* * *
4859751 ATCAAAAATCAAAACAGAATTCAGATCAGATATTAGAACAGAATCCA
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCCA
* * * *
4859798 GATCAGAAATCATAACAGAATTCAGGTAATG-TATCATAACAGAATTCA
1 -ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAATCCA
4859846 AGTCAGAAATCA
1 A-TCAGAAATCA
4859858 GATAAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.02
48 48 0.96
49 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (47 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCCA
Found at i:4861617 original size:130 final size:130
Alignment explanation
Indices: 4861384--4861643 Score: 520
Period size: 130 Copynumber: 2.0 Consensus size: 130
4861374 AAACCCTCTT
4861384 GGAGTTAAAAATCGGTTATACGAATTTTCTAAGCAAACTAGCATTTCTTATGCACATATGTAGTT
1 GGAGTTAAAAATCGGTTATACGAATTTTCTAAGCAAACTAGCATTTCTTATGCACATATGTAGTT
4861449 TTATCATATCAATATATCCTTTCAGAGTTATATAGAATTTCCAGGGACAATTCTTGTCATCTTAC
66 TTATCATATCAATATATCCTTTCAGAGTTATATAGAATTTCCAGGGACAATTCTTGTCATCTTAC
4861514 GGAGTTAAAAATCGGTTATACGAATTTTCTAAGCAAACTAGCATTTCTTATGCACATATGTAGTT
1 GGAGTTAAAAATCGGTTATACGAATTTTCTAAGCAAACTAGCATTTCTTATGCACATATGTAGTT
4861579 TTATCATATCAATATATCCTTTCAGAGTTATATAGAATTTCCAGGGACAATTCTTGTCATCTTAC
66 TTATCATATCAATATATCCTTTCAGAGTTATATAGAATTTCCAGGGACAATTCTTGTCATCTTAC
4861644 AACTTAAGGG
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (130 bp):
GGAGTTAAAAATCGGTTATACGAATTTTCTAAGCAAACTAGCATTTCTTATGCACATATGTAGTT
TTATCATATCAATATATCCTTTCAGAGTTATATAGAATTTCCAGGGACAATTCTTGTCATCTTAC
Found at i:4864006 original size:182 final size:182
Alignment explanation
Indices: 4863713--4864191 Score: 746
Period size: 182 Copynumber: 2.6 Consensus size: 182
4863703 CGATCCAAAT
* * * *
4863713 AAAAAATGTATCGATCCATATCAATATAACAGGTAAAAATATGACAAAACCGGTCA-CGAAAAGA
1 AAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGT-ATCGAAATGA
* * * *
4863777 CAATACC-AGTAAAGCGCTACCGGGTATATTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
65 TAAAACCGA-TAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
* * *
4863841 TTTGTGAATTTAAAAGAGAAGCAGTTTTAGCTCCTATAAAGTGTCGATACTTTG
129 TTTGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTTA
* * *
4863895 TAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACTAAACCGGTATCGAAATGAT
1 AAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGAT
* *
4863960 AAAACCGATAAATTGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGTATCGACACTT
66 AAAACCGATAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
4864025 TGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTTA
131 TGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTTA
**
4864077 AAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATTAAAATGAT
1 AAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGAT
* *
4864142 AAAACCGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTGTAATA
66 AAAACCGATAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
4864192 AGTACGTGTA
Statistics
Matches: 270, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
181 1 0.00
182 268 0.99
183 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGAT
AAAACCGATAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
TGTGAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTTA
Found at i:4866402 original size:21 final size:21
Alignment explanation
Indices: 4866378--4866442 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
4866368 AAGACGATCA
4866378 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
4866399 AGAGTCGAAGATAATCTTAAG
1 AGAGTCGAAGAGAAACTTGAG
* *
4866420 AGAGTCAAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
4866441 AG
1 AG
4866443 GCATAAGGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:4866482 original size:15 final size:16
Alignment explanation
Indices: 4866462--4866491 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4866452 GGAAGTAGAA
4866462 GGAAAAATAG-TGGAC
1 GGAAAAATAGATGGAC
4866477 GGAAAAATAGATGGA
1 GGAAAAATAGATGGA
4866492 GTAGTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.03, G:0.33, T:0.13
Consensus pattern (16 bp):
GGAAAAATAGATGGAC
Found at i:4866627 original size:33 final size:33
Alignment explanation
Indices: 4866590--4866655 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4866580 AAATTGATGG
*
4866590 AGTGGTGAAAAAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAAAAGTAGAGGTGTTAAGGGGTGA
* * *
4866623 AGTGGTGAAAGAAGTTGATGTGTTAAGGGGTGA
1 AGTGGTGAAAAAAGTAGAGGTGTTAAGGGGTGA
4866656 TCTTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAAAAGTAGAGGTGTTAAGGGGTGA
Found at i:4866650 original size:99 final size:99
Alignment explanation
Indices: 4866479--4866697 Score: 411
Period size: 99 Copynumber: 2.2 Consensus size: 99
4866469 TAGTGGACGG
* * *
4866479 AAAAATAGATGGAGTAGTGAAAGAAGTAGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGATG
1 AAAAATTGATGGAGTGGTGAAAAAAGTAGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGATG
4866544 TGTTAAGGGGTGATCTTAAGATGGTGACGGGTGA
66 TGTTAAGGGGTGATCTTAAGATGGTGACGGGTGA
4866578 AAAAATTGATGGAGTGGTGAAAAAAGTAGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGATG
1 AAAAATTGATGGAGTGGTGAAAAAAGTAGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGATG
4866643 TGTTAAGGGGTGATCTTAAGATGGTGACGGGTGA
66 TGTTAAGGGGTGATCTTAAGATGGTGACGGGTGA
4866677 AAAAATTGATGGAGTGGTGAA
1 AAAAATTGATGGAGTGGTGAA
4866698 GGAGATTGTG
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
99 117 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.25
Consensus pattern (99 bp):
AAAAATTGATGGAGTGGTGAAAAAAGTAGAGGTGTTGAGGGGTGAAGTGGTGAAAGAAGTTGATG
TGTTAAGGGGTGATCTTAAGATGGTGACGGGTGA
Found at i:4866792 original size:18 final size:18
Alignment explanation
Indices: 4866769--4866807 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4866759 GAAAAAATAT
4866769 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
*
4866787 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGAGGGAG
4866805 GAA
1 GAA
4866808 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:4868412 original size:19 final size:19
Alignment explanation
Indices: 4868388--4868437 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4868378 AATGTAGGGT
4868388 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
4868407 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
4868426 TAATTTTTTATA
1 TAATTTTGTATA
4868438 TGAATGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:4869098 original size:69 final size:69
Alignment explanation
Indices: 4868987--4869125 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
4868977 ACCCATAAAG
4868987 TGTCGATCAATTTATAAAAAGTATCGATCCCAGATACATCGAAACCCATAAGTATAATGTAATAG
1 TGTCGATCAATTTATAAAAAGTATCGATCCCAGATACATCGAAACCCATAAGTATAATGTAATAG
4869052 GTAA
66 GTAA
4869056 TGTCGATCAATTTATAAAAAGTATCGATCCCAGATACATCGAAACCCATAAGTATAATGTAATAG
1 TGTCGATCAATTTATAAAAAGTATCGATCCCAGATACATCGAAACCCATAAGTATAATGTAATAG
4869121 GTAA
66 GTAA
4869125 T
1 T
4869126 TTTTCAATGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (69 bp):
TGTCGATCAATTTATAAAAAGTATCGATCCCAGATACATCGAAACCCATAAGTATAATGTAATAG
GTAA
Found at i:4869527 original size:201 final size:201
Alignment explanation
Indices: 4869056--4869812 Score: 988
Period size: 201 Copynumber: 3.8 Consensus size: 201
4869046 TAATAGGTAA
* *
4869056 TGTCGATCA-ATTTATAAAAAGTATCGATCCCAGATACATCGAAACCCATAAGTATAATGTAATA
1 TGTCGAT-ATATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
* *
4869120 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGT
65 GGTAATTTTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATGTCTACAACATGT
* * * * *
4869185 ATCTACACTTTTTAATTTTGTATCGATACTTTTGGTCTAGAA-TGAA-GCCAAAAAGGGTGCACC
130 ATCAACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATTAAATCCCAAAAAGGGTGCACC
4869248 CATAAAG
195 CATAAAG
* *
4869255 TGTCGATATATTTATAAAAAGTATCTATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAG
1 TGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAG
* * *
4869320 GTAATTTTTTAATGTAACTGGTATAAATATATCAGTTTTATGAGAGAATATGTCTACAACATGTA
66 GTAATTTTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATGTCTACAACATGTA
* *
4869385 TCAACACTTTTTAATTTTGTGTCAATACTTTTTGTCCAGAATTAAATCCCAAAAAGGGTGCACCC
131 TCAACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATTAAATCCCAAAAAGGGTGCACCC
4869450 ATAAAG
196 ATAAAG
*
4869456 TGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAATTATAATGTAATAG
1 TGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAG
* * * *
4869521 GTAATTTTTCAATGTAACAGGTATAAAGATACCGGTTTTATGAGAGAATATGTCTACAACATATA
66 GTAATTTTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATGTCTACAACATGTA
* * ** ** * ** *
4869586 TCGACACTTGTGGAGATCGTGTCGATACTTTTGGAACAGAATCAAATCCCAAAAAGGGTGCACCC
131 TCAACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATTAAATCCCAAAAAGGGTGCACCC
4869651 ATAAAG
196 ATAAAG
* * * * * * *
4869657 TGTCGATATATTTTTAAAAAGTGTTGAT-CCAAAAAAATCAAAATCCATAATTATAATGTAATAG
1 TGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAG
* * * * * * * *
4869721 ATAATTTTGT-AATATAACCGGTATAACTCTACCATTTTTATGAGAAAATAGGTC-ATCATA-AA
66 GTAATTTT-TCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATGTCTA-CA-ACAT
* * *
4869783 GTATCGACAATTTTTAAATTTGTGTCGATA
128 GTATCAACACTTTTTAATTTTGTGTCGATA
4869813 TTATTTTAAA
Statistics
Matches: 492, Mismatches: 60, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
198 1 0.00
199 158 0.32
200 103 0.21
201 230 0.47
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (201 bp):
TGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATAG
GTAATTTTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATGTCTACAACATGTA
TCAACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATTAAATCCCAAAAAGGGTGCACCC
ATAAAG
Found at i:4870132 original size:15 final size:15
Alignment explanation
Indices: 4870109--4870152 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
4870099 TCTTTCTCAA
4870109 AGCTCTTCTCAACCC
1 AGCTCTTCTCAACCC
*
4870124 AGCTATTCTCAACCC
1 AGCTCTTCTCAACCC
4870139 ATG-TCTTCTCAACC
1 A-GCTCTTCTCAACC
4870153 ACAACCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.23, C:0.41, G:0.07, T:0.30
Consensus pattern (15 bp):
AGCTCTTCTCAACCC
Found at i:4873123 original size:200 final size:200
Alignment explanation
Indices: 4872711--4873839 Score: 1597
Period size: 200 Copynumber: 5.7 Consensus size: 200
4872701 GTAGCTACCT
** * ** *
4872711 CAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAT
1 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATAT
* * * * *
4872776 ACC-GATTTTAT-AAAAAATAGGTATATAACATGTATCAACACTTTTTAATTTTGTGTCGATACT
66 ACCAG-TTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACT
* * * * * * *
4872839 TTTTATCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTCAATAAGTGT
130 TTTTGTCAAGAATGAATGCCAAAAAGGGTGATCGCATAAAGTGTCGATACATTTTCAAAAAGTGT
4872904 CGATCC
195 CGATCC
* *
4872910 CAAAAACATCGAAACCCATAATTACAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATTT
1 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATAT
* * *
4872975 ACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCAACAATTTTTAATTTTGTGTCGATACTT
66 ACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACTT
* * *
4873040 TTTGTTAAGAATGAATGCC-AAAAGGGTGATCGCATAAAGTGTCAATACATTTTCAAAAAGTATC
131 TTTGTCAAGAATGAATGCCAAAAAGGGTGATCGCATAAAGTGTCGATACATTTTCAAAAAGTGTC
4873104 GATCC
196 GATCC
* *
4873109 CAAAAAACATCGAAACTCATAATTATAATGTAATATGTAATTTTGTAATATAACCGGTATAAATA
1 C-AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATA
* * * * *
4873174 TACCATTTTTATGAGAGAATATGTCTATAACATGTATCGATACTTTTTAATATTGTGTCGATACT
65 TACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACT
* * *
4873239 TTTTTTCCAA-AATGGATGCCTAAAAGGGTGAAT-GCATAAAGTGTCGATACATTTTCAAAAAGT
130 TTTTGT-CAAGAATGAATGCCAAAAAGGGTG-ATCGCATAAAGTGTCGATACATTTTCAAAAAGT
4873302 GTCGATCC
193 GTCGATCC
* *
4873310 CAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTGTAATATAACCGATATAAATAT
1 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATAT
* * * * *
4873375 ACCAGTTTTATGAGAGAATAGGTCTACAACATGCATCGACAATTTTTAATATTGTTTCGATACAT
66 ACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACTT
*
4873440 TTTGTCAAGAATGAATGCC-AAAAGGGTGATCACATAAAGTGTCGATACATTTTCAAAAAGTGTC
131 TTTGTCAAGAATGAATGCCAAAAAGGGTGATCGCATAAAGTGTCGATACATTTTCAAAAAGTGTC
*
4873504 GATTC
196 GATCC
* *
4873509 CAAAAACATAGAAACCCATAATTATAATATAATAGGTAATTTTGTAATATAACCGGTATAAATAT
1 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATAT
* * * * * *
4873574 ATCGGTTTTATGAGAGAATAAGTCTATAACATGTATTAATACTTTTTAATATTGTGTCGATACTT
66 ACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACTT
* * * * *
4873639 TTTGTCCAGAATGAATGCCAAAAAGGGAGAACACATAATGTGTCGATACATTTTCAAAAAGTGTC
131 TTTGTCAAGAATGAATGCCAAAAAGGGTGATCGCATAAAGTGTCGATACATTTTCAAAAAGTGTC
*
4873704 GATCT
196 GATCC
* *
4873709 CAAAAACATCGAAACCCATAATTATATTGTAATAGATAATTTTGTAATATAACCGGTATAAATAT
1 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATAT
* * *
4873774 ACCAATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTT-ATTTTGTGTCGATACTT
66 ACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACTT
4873838 TT
131 TT
4873840 AAATAACACG
Statistics
Matches: 833, Mismatches: 88, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
198 2 0.00
199 312 0.37
200 469 0.56
201 48 0.06
202 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (200 bp):
CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATAT
ACCAGTTTTATGAGAGAATAGGTCTACAACATGTATCAACACTTTTTAATATTGTGTCGATACTT
TTTGTCAAGAATGAATGCCAAAAAGGGTGATCGCATAAAGTGTCGATACATTTTCAAAAAGTGTC
GATCC
Found at i:4873733 original size:399 final size:398
Alignment explanation
Indices: 4872674--4873839 Score: 1750
Period size: 399 Copynumber: 2.9 Consensus size: 398
4872664 TAAAGTTTCC
* * * *
4872674 CATAAAGTGTCAATCCATTTAT-AAAAAGTAGCTA-CCTCAAAAACATCGAAACTGATAATTATA
1 CATAAAGTGTCAATACATTT-TCAAAAAGTATCGATCC-CAAAAACATCGAAACTCATAATTATA
* ** * * * * *
4872737 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTAT-AAAAAATAGGTATA
64 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTA
* *
4872801 TAACATGTATCAACACTTTTTAATTTTGTGTCGATACTTTTTATCCAGAATGGATGCCAAAAA-G
129 TAACATGTATCAATACTTTTTAATATTGTGTCGATACTTTTTATCCAGAATGGATGCCAAAAAGG
* *
4872865 GATGAACGCACAAAGTGTCGATACATTTTCAATAAGTGTCGATCCCAAAAACATCGAAACCCATA
194 GA-GAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATA
* * *
4872930 ATTACAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATTTACCGGTTTTATGAGAGAATA
258 ATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATA
* *
4872995 GGTCTACAACATGTATCAACAATTTTTAATTTTGTGTCGATACTTTTTGTTAAGAATGAATGCCA
323 GGTCTACAACATGTATCGACAATTTTTAATTTTGTGTCGATAC-TTTTGTCAAGAATGAATGCCA
*
4873060 AAAGGGTGATCG
387 AAAGGGTGATCA
4873072 CATAAAGTGTCAATACATTTTCAAAAAGTATCGATCCCAAAAAACATCGAAACTCATAATTATAA
1 CATAAAGTGTCAATACATTTTCAAAAAGTATCGATCCC-AAAAACATCGAAACTCATAATTATAA
* *
4873137 TGTAATATGTAATTTTGTAATATAACCGGTATAAATATACC-ATTTTTATGAGAGAATATGTCTA
65 TGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGA-TTTTATGAGAGAATAAGTCTA
* * * *
4873201 TAACATGTATCGATACTTTTTAATATTGTGTCGATACTTTTTTTCCAAAATGGATGCCTAAAAGG
129 TAACATGTATCAATACTTTTTAATATTGTGTCGATACTTTTTATCCAGAATGGATGCCAAAAAGG
* *
4873266 GTGAATGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAA
194 GAGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAA
* *
4873331 TTATAATATAATAGGTAATTTTGTAATATAACCGATATAAATATACCAGTTTTATGAGAGAATAG
259 TTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAG
* * *
4873396 GTCTACAACATGCATCGACAATTTTTAATATTGTTTCGATACATTTTGTCAAGAATGAATGCCAA
324 GTCTACAACATGTATCGACAATTTTTAATTTTGTGTCGATAC-TTTTGTCAAGAATGAATGCCAA
4873461 AAGGGTGATCA
388 AAGGGTGATCA
* * * * *
4873472 CATAAAGTGTCGATACATTTTCAAAAAGTGTCGATTCCAAAAACATAGAAACCCATAATTATAAT
1 CATAAAGTGTCAATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAAT
* * *
4873537 ATAATAGGTAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGAGAATAAGTCTATA
66 GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTATA
* * *
4873602 ACATGTATTAATACTTTTTAATATTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAAGGGA
131 ACATGTATCAATACTTTTTAATATTGTGTCGATACTTTTTATCCAGAATGGATGCCAAAAAGGGA
* * *
4873667 GAACACATAATGTGTCGATACATTTTCAAAAAGTGTCGATCTCAAAAACATCGAAACCCATAATT
196 GAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATT
* * *
4873732 ATATTGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAATTTTATGAGAGAATAGGT
261 ATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGT
*
4873797 CTACAACATGTATCGACACTTTTT-ATTTTGTGTCGATACTTTT
326 CTACAACATGTATCGACAATTTTTAATTTTGTGTCGATACTTTT
4873840 AAATAACACG
Statistics
Matches: 696, Mismatches: 65, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
397 5 0.01
398 44 0.06
399 354 0.51
400 291 0.42
401 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (398 bp):
CATAAAGTGTCAATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAAT
GTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAAGTCTATA
ACATGTATCAATACTTTTTAATATTGTGTCGATACTTTTTATCCAGAATGGATGCCAAAAAGGGA
GAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATT
ATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGT
CTACAACATGTATCGACAATTTTTAATTTTGTGTCGATACTTTTGTCAAGAATGAATGCCAAAAG
GGTGATCA
Found at i:4873811 original size:599 final size:598
Alignment explanation
Indices: 4872711--4873839 Score: 1699
Period size: 599 Copynumber: 1.9 Consensus size: 598
4872701 GTAGCTACCT
** * * *
4872711 CAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAT
1 CAAAAACATCGAAACCCATAATTATAATATAATAGGTAAATTTACAATATAACCGATATAAATAT
* * * * *
4872776 ACCGATTTTATAAAAAATAGGTATATAACATGTATCAACACTTTTTAATTTTGTGTCGATACTTT
66 ACCGATTTTATAAAAAATAGGTATACAACATGCATCAACAATTTTTAATATTGTGTCGATACATT
* * * *
4872841 TTATCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTCAATAAGTGTCG
131 TTATCAAGAATGAATGCCAAAAAGGATGAACACACAAAGTGTCGATACATTTTCAAAAAGTGTCG
* *
4872906 ATCCCAAAAACATCGAAACCCATAATTACAATGTAATAGGTAATTTTGTAATATAACCGGTATAA
196 ATCCCAAAAACATAGAAACCCATAATTACAATATAATAGGTAATTTTGTAATATAACCGGTATAA
* * *
4872971 ATTTACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCAACAATTTTTAATTTTGTGTCGAT
261 ATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTATCAACAATTTTTAATATTGTGTCGAT
* * * *
4873036 ACTTTTTGTTAAGAATGAATGCCAAAAGGGTGATCGCATAAAGTGTCAATACATTTTCAAAAAGT
326 ACTTTTTGTCAAGAATGAATGCCAAAAGGGAGAACACATAAAGTGTCAATACATTTTCAAAAAGT
*
4873101 ATCGATCCCAAAAAACATCGAAACTCATAATTATAATGTAATATGTAATTTTGTAATATAACCGG
391 ATCGATCCCAAAAAACATCGAAACCCATAATTATAATGTAATATGTAATTTTGTAATATAACCGG
* * * *
4873166 TATAAATATACCATTTTTATGAGAGAATATGTCTATAACATGTATCGATACTTTTTAATATTGTG
456 TATAAATATACCAATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTT-ATATTGTG
4873231 TCGATACTTTTTTTCCAAAATGGATGCCTAAAAGGGTGAATGCATAAAGTGTCGATACATTTTCA
520 TCGATACTTTTTTTCCAAAATGGATGCCTAAAAGGGTGAATGCATAAAGTGTCGATACATTTTCA
4873296 AAAAGTGTCGATCC
585 AAAAGTGTCGATCC
* **
4873310 CAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTGTAATATAACCGATATAAATAT
1 CAAAAACATCGAAACCCATAATTATAATATAATAGGTAAATTTACAATATAACCGATATAAATAT
* * * * *
4873375 ACC-AGTTTTATGAGAGAATAGGTCTACAACATGCATCGACAATTTTTAATATTGTTTCGATACA
66 ACCGA-TTTTAT-AAAAAATAGGTATACAACATGCATCAACAATTTTTAATATTGTGTCGATACA
* * * *
4873439 TTTTGTCAAGAATGAATGCC-AAAAGGGTGATCACATAAAGTGTCGATACATTTTCAAAAAGTGT
129 TTTTATCAAGAATGAATGCCAAAAAGGATGAACACACAAAGTGTCGATACATTTTCAAAAAGTGT
* *
4873503 CGATTCCAAAAACATAGAAACCCATAATTATAATATAATAGGTAATTTTGTAATATAACCGGTAT
194 CGATCCCAAAAACATAGAAACCCATAATTACAATATAATAGGTAATTTTGTAATATAACCGGTAT
* * * * *
4873568 AAATATATCGGTTTTATGAGAGAATAAGTCTATAACATGTATTAATACTTTTTAATATTGTGTCG
259 AAATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTATCAACAATTTTTAATATTGTGTCG
* * *
4873633 ATACTTTTTGTCCAGAATGAATGCCAAAAAGGGAGAACACATAATGTGTCGATACATTTTCAAAA
324 ATACTTTTTGTCAAGAATGAATGCC-AAAAGGGAGAACACATAAAGTGTCAATACATTTTCAAAA
* * *
4873698 AGTGTCGATCTC-AAAAACATCGAAACCCATAATTATATTGTAATA-GATAATTTTGTAATATAA
388 AGTATCGATCCCAAAAAACATCGAAACCCATAATTATAATGTAATATG-TAATTTTGTAATATAA
*
4873761 CCGGTATAAATATACCAATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTATTTT
452 CCGGTATAAATATACCAATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTATATT
4873826 GTGTCGATACTTTT
517 GTGTCGATACTTTT
4873840 AAATAACACG
Statistics
Matches: 472, Mismatches: 54, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
598 20 0.04
599 349 0.74
600 103 0.22
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (598 bp):
CAAAAACATCGAAACCCATAATTATAATATAATAGGTAAATTTACAATATAACCGATATAAATAT
ACCGATTTTATAAAAAATAGGTATACAACATGCATCAACAATTTTTAATATTGTGTCGATACATT
TTATCAAGAATGAATGCCAAAAAGGATGAACACACAAAGTGTCGATACATTTTCAAAAAGTGTCG
ATCCCAAAAACATAGAAACCCATAATTACAATATAATAGGTAATTTTGTAATATAACCGGTATAA
ATATACCGGTTTTATGAGAGAATAAGTCTACAACATGTATCAACAATTTTTAATATTGTGTCGAT
ACTTTTTGTCAAGAATGAATGCCAAAAGGGAGAACACATAAAGTGTCAATACATTTTCAAAAAGT
ATCGATCCCAAAAAACATCGAAACCCATAATTATAATGTAATATGTAATTTTGTAATATAACCGG
TATAAATATACCAATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTATATTGTGT
CGATACTTTTTTTCCAAAATGGATGCCTAAAAGGGTGAATGCATAAAGTGTCGATACATTTTCAA
AAAGTGTCGATCC
Found at i:4875320 original size:17 final size:17
Alignment explanation
Indices: 4875294--4875327 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4875284 ATACGATTTA
* *
4875294 TAATTTTGTATGTGATG
1 TAATTATGTATGAGATG
4875311 TAATTATGTATGAGATG
1 TAATTATGTATGAGATG
4875328 AGAAAAGTTA
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:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
TAATTATGTATGAGATG
Found at i:4878628 original size:199 final size:198
Alignment explanation
Indices: 4878108--4878784 Score: 756
Period size: 205 Copynumber: 3.4 Consensus size: 198
4878098 TATCGACACA
* * * *
4878108 AAAAACTTCAAAACCAATAATTATAATGTAATAGGTAAATTTAACAATGTAACCGTTATAAATAT
1 AAAAACATCGAAACGAA-AATTATAATGTAATAGGTAAATTT-ACAATGTAACCGGTATAAATAT
* * * **
4878173 ACCGG-TTAATTAGAAAACAAGTCAACATAATGTATCGACACTTGTGGAATTTGTGTCGAT--AT
64 ACCGGTTTTATGAGAAAATAAGTCAA-ATAATGTATCGACACTTGTTAAATTTGTGTCGATACAT
* * * *
4878235 TTATTGTCCAGAATGAATGCCCAAACGAGGTGCATA-TATAAAGTATCGATACATTTATTAAAAG
128 TTA--GTCAATAATGAATG-CCAAACGAGGTGCA-AGCATAAAGTGTCGATACATTTATTAAAAG
*
4878299 TATCGATCAC
189 TATCGATCCC
* * *
4878309 AAAAATATCGAAAACTGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAT-AATAT
1 AAAAACATCG-AAAC-GAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATAT
* * *
4878373 ACCGGTTTTATGAGAAAATAGGTCAGCATAAAGTATCGACACTTGTTAAATTTGTGTCGATACAT
64 ACCGGTTTTATGAGAAAATAAGTCA-AATAATGTATCGACACTTGTTAAATTTGTGTCGATACAT
* * *
4878438 TTAGTCAATAATGAATGCCAAACGGGGTGCACGCATAGAGTGTCGATACATTTATTAAAAGTATC
128 TTAGTCAATAATGAATGCCAAACGAGGTGCAAGCATAAAGTGTCGATACATTTATTAAAAGTATC
4878503 GATCCC
193 GATCCC
* * *
4878509 AAAAACATCGAAACGAAAATTACAATGTGATAGGTAAATTTACAATGTACCCGGTATAAATATAC
1 AAAAACATCGAAACGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATAC
* * * * *
4878574 CGGTTTTATGAGAAAATATGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATACTTTT
66 CGGTTTTATGAGAAAATAAGTC-AAATAATGTATCGACACTTGTTAAATTTGTGTCGATACATTT
** * * *
4878639 TTTCAGAATGAAATATGAATGCCCAACGAGGTGCAAGCATAAAATGTCGATACATTTA--AAATT
130 AGTC--AAT---A-ATGAATGCCAAACGAGGTGCAAGCATAAAGTGTCGATACATTTATTAAA-A
*
4878702 GTATCGATCCA
188 GTATCGATCCC
* * * * *
4878713 AAAAACATCGAAACCGATAATTATAATGTAATAAGTTAATTTGCAATGTTACCGGTATAAATATA
1 AAAAACATCGAAA-CGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATA
4878778 CCGGTTT
65 CCGGTTT
4878785 ACTTCAAAAA
Statistics
Matches: 407, Mismatches: 52, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
198 38 0.09
199 69 0.17
200 67 0.16
201 83 0.20
202 28 0.07
203 9 0.02
204 24 0.06
205 89 0.22
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (198 bp):
AAAAACATCGAAACGAAAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATAC
CGGTTTTATGAGAAAATAAGTCAAATAATGTATCGACACTTGTTAAATTTGTGTCGATACATTTA
GTCAATAATGAATGCCAAACGAGGTGCAAGCATAAAGTGTCGATACATTTATTAAAAGTATCGAT
CCC
Found at i:4878800 original size:205 final size:199
Alignment explanation
Indices: 4878092--4878784 Score: 785
Period size: 201 Copynumber: 3.4 Consensus size: 199
4878082 TCGACCCAAA
* * *
4878092 AAAATGTATCGA-CACAAAAAACTTCAAAACCAATAATTATAATGTAATAGGTAAATTTAACAAT
1 AAAA-GTATCGATC-CAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTT-ACAAT
* * * * * **
4878156 GTAACCGTTATAAATATACCGG-TTAATTAGAAAACAAGTCAACATAATGTATCGACACTTGTGG
63 GTAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCAA-ATAATGTATCGACACTTGTTA
* * *
4878220 AATTTGTGTCGATA-TTTATTGTCCA-GAATGAATGCCCAAACGAGGTGCATA-TATAAAGTATC
127 AATTTGTGTCGATACTTT-TTGTCAATGAATGAATGCCC-AACGAGGTGCA-AGCATAAAGTGTC
4878282 GATACATTTATT
189 GATACATTTA-T
* *
4878294 AAAAGTATCGAT-CACAAAAATATCGAAAACTGATAATTATAATGTAATAGGTAAATTTACAATG
1 AAAAGTATCGATCCA-AAAAACATCG-AAACCGATAATTATAATGTAATAGGTAAATTTACAATG
* * * *
4878358 TAACCGATAT-AATATACCGGTTTTATGAGAAAATAGGTCAGCATAAAGTATCGACACTTGTTAA
64 TAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCA-AATAATGTATCGACACTTGTTAA
* * * * * *
4878422 ATTTGTGTCGATACATTTAGTCAAT-AATGAATGCCAAACGGGGTGCACGCATAGAGTGTCGATA
128 ATTTGTGTCGATACTTTTTGTCAATGAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATA
4878486 CATTTATT
193 CATTTA-T
* * * *
4878494 AAAAGTATCGATCCCAAAAACATCGAAA-CGAAAATTACAATGTGATAGGTAAATTTACAATGTA
1 AAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
* * * *
4878558 CCCGGTATAAATATACCGGTTTTATGAGAAAATATGTCTAAATAATGTATCGACACTTTTTTAGT
66 ACCGGTATAAATATACCGGTTTTATGAGAAAATATGTC-AAATAATGTATCGACACTTGTTAAAT
* *
4878623 TTGTGTCGATACTTTTTTTCAGAATGAAATATGAATGCCCAACGAGGTGCAAGCATAAAATGTCG
130 TTGTGTCGATACTTTTTGTC--AATG--A-ATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCG
4878688 ATACATTTA-
190 ATACATTTAT
* * * *
4878697 AAATTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAAGTTAATTTGCAATGT
1 AAA-AGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
*
4878762 TACCGGTATAAATATACCGGTTT
65 AACCGGTATAAATATACCGGTTT
4878785 ACTTCAAAAA
Statistics
Matches: 417, Mismatches: 55, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
198 38 0.09
199 68 0.16
200 64 0.15
201 95 0.23
202 36 0.09
203 3 0.01
204 24 0.06
205 89 0.21
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
AAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
ACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCAAATAATGTATCGACACTTGTTAAATT
TGTGTCGATACTTTTTGTCAATGAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACAT
TTAT
Found at i:4878908 original size:15 final size:15
Alignment explanation
Indices: 4878888--4878916 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4878878 CCTATTTTAT
4878888 TATATAAGCGCTACA
1 TATATAAGCGCTACA
4878903 TATATAAGCGCTAC
1 TATATAAGCGCTAC
4878917 CTAATATTTT
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:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (15 bp):
TATATAAGCGCTACA
Found at i:4888582 original size:18 final size:17
Alignment explanation
Indices: 4888559--4888597 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
4888549 TAGTATATAA
4888559 ATTATTATTAAATATATT
1 ATTATTATTAAATAT-TT
*
4888577 ATTATTTTTAAATATTT
1 ATTATTATTAAATATTT
4888594 ATTA
1 ATTA
4888598 AAAAATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTATTAAATATTT
Found at i:4893535 original size:3 final size:3
Alignment explanation
Indices: 4893517--4893567 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
4893507 TGCAAATATT
* * *
4893517 ATA A-A ATA ATA CTA ATA ATA ATA ATA ATC ATA CT- ATA ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
4893561 ATA ATA A
1 ATA ATA A
4893568 ATATAATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.85
4 3 0.08
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4893538 original size:12 final size:11
Alignment explanation
Indices: 4893511--4893575 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 11
4893501 TGGACCTGCA
*
4893511 AATATTATAA-
1 AATAATATAAT
4893521 AATAATACTAAT
1 AATAATA-TAAT
4893533 AAT-A-ATAAT
1 AATAATATAAT
*
4893542 AATCATACT-AT
1 AATAATA-TAAT
4893553 AAT-ATATAAT
1 AATAATATAAT
4893563 AATAAATATAAT
1 AAT-AATATAAT
4893575 A
1 A
4893576 TATATTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
9 8 0.17
10 16 0.35
11 10 0.22
12 12 0.26
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATATAAT
Found at i:4893551 original size:21 final size:21
Alignment explanation
Indices: 4893511--4893579 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
4893501 TGGACCTGCA
4893511 AATATTATAA-AATAATACTAAT
1 AATA-TATAATAATAATACT-AT
*
4893533 AATA-ATAATAATCATACTAT
1 AATATATAATAATAATACTAT
4893553 AATATATAATAATAA-A-TAT
1 AATATATAATAATAATACTAT
4893572 AATATATA
1 AATATATA
4893580 TTTTAATCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.26
20 11 0.26
21 17 0.40
22 4 0.09
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATATAATAATAATACTAT
Found at i:4896727 original size:24 final size:23
Alignment explanation
Indices: 4896700--4896744 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
4896690 AGAAAAAAAA
4896700 ATAAATATATTTT-TAAAGTAAATT
1 ATAAAT-TATTTTATAAA-TAAATT
*
4896724 ATAAGTTATTTTATAAATAAA
1 ATAAATTATTTTATAAATAAA
4896745 ATGAAGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
ATAAATTATTTTATAAATAAATT
Found at i:4922587 original size:20 final size:20
Alignment explanation
Indices: 4922559--4922600 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4922549 CCTCCATATT
4922559 ATTAAAAAACA-TACTAATAA
1 ATTAAAAAACACTAC-AATAA
* *
4922579 ATTAGAAAATACTACAATAA
1 ATTAAAAAACACTACAATAA
4922599 AT
1 AT
4922601 ATCACATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.26
Consensus pattern (20 bp):
ATTAAAAAACACTACAATAA
Found at i:4923790 original size:2 final size:2
Alignment explanation
Indices: 4923783--4923809 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4923773 TAATTACATT
4923783 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4923810 TATTAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4924109 original size:16 final size:16
Alignment explanation
Indices: 4924084--4924116 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4924074 TAATAAATAA
4924084 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4924100 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
4924116 A
1 A
4924117 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4924206 original size:16 final size:16
Alignment explanation
Indices: 4924185--4924229 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
4924175 TAATAAATAA
4924185 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4924201 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
4924217 ACGAACATAAACG
1 ACGAACATAAACG
4924230 TTGGAGACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4925328 original size:10 final size:10
Alignment explanation
Indices: 4925313--4925360 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
4925303 ATAAATGAAT
4925313 GAACATAAAC
1 GAACATAAAC
4925323 GAACATAACCGAAC
1 GAACAT-A---AAC
4925337 GAACATAAAC
1 GAACATAAAC
*
4925347 GAACATAACC
1 GAACATAAAC
4925357 GAAC
1 GAAC
4925361 GTTCACGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:4925337 original size:14 final size:14
Alignment explanation
Indices: 4925320--4925361 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4925310 AATGAACATA
4925320 AACGAACATAACCG
1 AACGAACATAACCG
4925334 AACGAACAT-A---
1 AACGAACATAACCG
4925344 AACGAACATAACCG
1 AACGAACATAACCG
4925358 AACG
1 AACG
4925362 TTCACGAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:4925340 original size:24 final size:24
Alignment explanation
Indices: 4925313--4925361 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4925303 ATAAATGAAT
4925313 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
4925337 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
4925361 G
1 G
4925362 TTCACGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:4928064 original size:36 final size:36
Alignment explanation
Indices: 4928017--4928154 Score: 242
Period size: 36 Copynumber: 3.9 Consensus size: 36
4928007 TTGGTGCTGG
4928017 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
4928053 ACATTGATACACAAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
4928089 ACATTGATACACGAATGTACCAAAGCTGATATGAT-
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
4928124 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
4928155 ATACTCAACT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 30 0.31
36 67 0.69
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:4929458 original size:16 final size:16
Alignment explanation
Indices: 4929424--4929464 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4929414 AGTTGACCGA
*
4929424 CAGAATTTGTTTTACG
1 CAGAATCTGTTTTACG
**
4929440 CAGAATCTGTTTTGTG
1 CAGAATCTGTTTTACG
4929456 CAGAATCTG
1 CAGAATCTG
4929465 CTGCCCGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (16 bp):
CAGAATCTGTTTTACG
Found at i:4932405 original size:36 final size:36
Alignment explanation
Indices: 4932358--4932492 Score: 227
Period size: 36 Copynumber: 3.8 Consensus size: 36
4932348 TTGGTGCTGG
*
4932358 ACATTGATACACGAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
4932394 ACATTGATACACGATTGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
4932430 ACATTGATACACGAATGTACCAAAGCTGATATGAT-
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
4932465 ACATTGATACATGAATGTATCAAAGCTG
1 ACATTGATACACGAATGTACCAAAGCTG
4932493 GTAATACTCA
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 26 0.28
36 68 0.72
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:4937601 original size:2 final size:2
Alignment explanation
Indices: 4937594--4937643 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4937584 CTAAAGATTA
*
4937594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4937636 AT AT AT AT
1 AT AT AT AT
4937644 TGAATAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4942431 original size:29 final size:29
Alignment explanation
Indices: 4942389--4942446 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4942379 CTGGCGGCGA
4942389 CAGATTCCTCTCGTCGAGACCTTCGATCT
1 CAGATTCCTCTCGTCGAGACCTTCGATCT
4942418 CAGATTCCTCTCGTCGAGACCTTCGATCT
1 CAGATTCCTCTCGTCGAGACCTTCGATCT
4942447 TTCCAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (29 bp):
CAGATTCCTCTCGTCGAGACCTTCGATCT
Found at i:4957415 original size:17 final size:17
Alignment explanation
Indices: 4957375--4957413 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4957365 TTAATATTTT
*
4957375 GTATTTAATTTATTTAA
1 GTATTTAAGTTATTTAA
4957392 GTATTTAAGTTATTTAA
1 GTATTTAAGTTATTTAA
4957409 -TATTT
1 GTATTT
4957414 TACTTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (17 bp):
GTATTTAAGTTATTTAA
Found at i:4958895 original size:29 final size:29
Alignment explanation
Indices: 4958860--4958923 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
4958850 AAGGGTGTTA
* *
4958860 GATCGGGAAATATAGTCTGAACGGTGCCT
1 GATCGGGAAATATAATCTGAACGATGCCT
*
4958889 GATCGGGAAATATAATCTGAACGATGTCT
1 GATCGGGAAATATAATCTGAACGATGCCT
4958918 GATCGG
1 GATCGG
4958924 AAAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (29 bp):
GATCGGGAAATATAATCTGAACGATGCCT
Found at i:4960169 original size:18 final size:18
Alignment explanation
Indices: 4960146--4960188 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4960136 TTGACCGGTC
4960146 TGACCCGGTGTGACCCGT
1 TGACCCGGTGTGACCCGT
* *
4960164 TGACCCGGTTTGGCCCGT
1 TGACCCGGTGTGACCCGT
*
4960182 TAACCCG
1 TGACCCG
4960189 ACCCGTTGAC
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:0.12, C:0.35, G:0.30, T:0.23
Consensus pattern (18 bp):
TGACCCGGTGTGACCCGT
Found at i:4960217 original size:18 final size:18
Alignment explanation
Indices: 4960194--4960234 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4960184 ACCCGACCCG
* *
4960194 TTGACCGTTGACTGACCA
1 TTGACCATTGACCGACCA
*
4960212 TTGACCATTGACCGACCG
1 TTGACCATTGACCGACCA
4960230 TTGAC
1 TTGAC
4960235 TGGCCATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (18 bp):
TTGACCATTGACCGACCA
Found at i:4960284 original size:16 final size:17
Alignment explanation
Indices: 4960252--4960284 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4960242 TGACTTTGAC
4960252 CAAAAAGTCAAATTTTT
1 CAAAAAGTCAAATTTTT
*
4960269 CAAAAAGTCATATTTT
1 CAAAAAGTCAAATTTT
4960285 ATGATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTT
Found at i:4960470 original size:127 final size:128
Alignment explanation
Indices: 4960241--4960475 Score: 289
Period size: 127 Copynumber: 1.8 Consensus size: 128
4960231 TGACTGGCCA
* * *
4960241 TTGACTTTGACCAAAAAGTCAAATTTTTCAAAAAGTCATATTTTATGATTTTTGACGTCTTTAGT
1 TTGACTTTGACCAAAAAGTCAAATTTTTCAAAAAG-CATATTTTATGATTTTTAACGTCCTGAGT
* * **
4960306 CCAAATCTGAAGTTCGTTTTTTCAAATTCGAACCCGAAAGCCTCGAAATCGTCAGTCAAACCCG
65 CCAAATCCGAAGTTCGCTTTGCCAAATTCGAACCCGAAAGCCTCGAAATCGTCAGTCAAACCCG
* *
4960370 TTGACTTTGACCAAAAAGTC-AATTTTTGAAAATA-CATATTTTATG-TTTTTCAACGTCCTGAT
1 TTGACTTTGACCAAAAAGTCAAATTTTTCAAAA-AGCATATTTTATGATTTTT-AACGTCCTGAG
** * *
4960432 TCGGATTCCGCAA-TTCGCTTTGCCAAATTCGAAGCCGAAAGCCT
64 TCCAAATCCG-AAGTTCGCTTTGCCAAATTCGAACCCGAAAGCCT
4960476 ATAAAGTGAC
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
126 5 0.06
127 51 0.57
128 13 0.14
129 21 0.23
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (128 bp):
TTGACTTTGACCAAAAAGTCAAATTTTTCAAAAAGCATATTTTATGATTTTTAACGTCCTGAGTC
CAAATCCGAAGTTCGCTTTGCCAAATTCGAACCCGAAAGCCTCGAAATCGTCAGTCAAACCCG
Found at i:4963080 original size:41 final size:41
Alignment explanation
Indices: 4963026--4963286 Score: 226
Period size: 41 Copynumber: 6.4 Consensus size: 41
4963016 TTTTTTGAAT
* * *
4963026 AAACGCCGGTAAATACTTGTACTTTAGTGGCGTTTTTATAT
1 AAACGCCGCTAAATACTTATACTTTAGTGGCGTTTTTATAC
* * *
4963067 AAACGCAGCTAAATAC-TAAACTTTAGTGGCGTTTTTGTAC
1 AAACGCCGCTAAATACTTATACTTTAGTGGCGTTTTTATAC
** * * *
4963107 AAACGCCGCTAAA-ACTCGTACGTTAGTGGCGTTTTAAGCAC
1 AAACGCCGCTAAATACTTATACTTTAGTGGCGTTTTTA-TAC
* *
4963148 AAACGCCGCTAAATA-ATGTACTTTAGTGGCGTTTCTGCT-TA-
1 AAACGCCGCTAAATACTTATACTTTAGTGGCGTTT-T--TATAC
* * * * * * *
4963189 AAACACCGCCAAAGACTAATATTTTAGTGGCGTTTTAACCAC
1 AAACGCCGCTAAATACTTATACTTTAGTGGCGTTTTTA-TAC
* * *
4963231 AAACGCCGCCAAATACTTATACTTTAGTGGCGTATTTATAT
1 AAACGCCGCTAAATACTTATACTTTAGTGGCGTTTTTATAC
*
4963272 AAACGCCACTAAATA
1 AAACGCCGCTAAATA
4963287 AATAAAGCCA
Statistics
Matches: 172, Mismatches: 38, Indels: 20
0.75 0.17 0.09
Matches are distributed among these distances:
39 2 0.01
40 47 0.27
41 73 0.42
42 50 0.29
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAAATACTTATACTTTAGTGGCGTTTTTATAC
Found at i:4965053 original size:33 final size:33
Alignment explanation
Indices: 4965016--4965092 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
4965006 CCAACACGCT
* * *
4965016 GGGCATCTGAGGCCATCCGAACGAGTTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
** *
4965049 GGGCATCCGAGGGTAACCGAGCGAGCTATGCGA
1 GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
*
4965082 GGGAATCCGAG
1 GGGCATCCGAG
4965093 CGAGGGTAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.25, C:0.23, G:0.38, T:0.14
Consensus pattern (33 bp):
GGGCATCCGAGGCCAACCGAACGAGCTATGCGA
Found at i:4965133 original size:29 final size:29
Alignment explanation
Indices: 4965100--4965155 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
4965090 GAGCGAGGGT
*
4965100 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
*
4965129 AGGTCGCCCGGAGGGCTTGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
4965156 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.30, G:0.38, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:4965256 original size:29 final size:29
Alignment explanation
Indices: 4965214--4965299 Score: 154
Period size: 29 Copynumber: 3.0 Consensus size: 29
4965204 GAGCAAGGGT
4965214 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
4965243 AGGTCGCCAGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
4965272 AGGTCGCCCGAAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
4965300 GGCCAACACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.22, C:0.30, G:0.34, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:4967998 original size:42 final size:42
Alignment explanation
Indices: 4967951--4968174 Score: 202
Period size: 44 Copynumber: 5.2 Consensus size: 42
4967941 AAGGTAATTA
4967951 GCGGCGTTTGTTCCAAAAACGCCGCTATAAATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAAATATGACCTTTT
* * * * * * *
4967993 GCGGCGTTTGCTCCAAAAAAATGCCACTATAGATCTCACATTTT
1 GCGGCGTTTGTTCC--AAAAACGCCGCTATAAATATGACCTTTT
* * * * *
4968037 ACGGCGTTTGTTCAAAAAATGCCGCTA-AAGATCTCGACATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAA-ATAT-GACCTTTT
* *
4968080 GCGGCGTTTGTTACAAAAAACGCCGC--TAAATGTGACACATTTT
1 GCGGCGTTTGTT-CCAAAAACGCCGCTATAAATATGAC-C-TTTT
* * *
4968123 GCGGCGTTTGTTTCAAAAACGCCGCTATAGATATTGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAAATA-TGACCTTTT
4968166 GCGGCGTTT
1 GCGGCGTTT
4968175 TTTGTTCTCA
Statistics
Matches: 149, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
41 4 0.03
42 43 0.29
43 48 0.32
44 50 0.34
45 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAAATATGACCTTTT
Found at i:4968012 original size:43 final size:43
Alignment explanation
Indices: 4967951--4968174 Score: 208
Period size: 43 Copynumber: 5.2 Consensus size: 43
4967941 AAGGTAATTA
4967951 GCGGCGTTTGTTCC-AAAAACGCCGCTATAAATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAAACGCCGCTATAAATATGACCTTTT
* * * * * * *
4967993 GCGGCGTTTGCTCCAAAAAAATGCCACTATAGATCTCACATTTT
1 GCGGCGTTTGTTCC-AAAAAACGCCGCTATAAATATGACCTTTT
* * * *
4968037 ACGGCGTTTGTT-CAAAAAATGCCGCTA-AAGATCTCGACATTTT
1 GCGGCGTTTGTTCCAAAAAACGCCGCTATAA-ATAT-GACCTTTT
* *
4968080 GCGGCGTTTGTTACAAAAAACGCCGC--TAAATGTGACACATTTT
1 GCGGCGTTTGTTCCAAAAAACGCCGCTATAAATATGAC-C-TTTT
* * *
4968123 GCGGCGTTTGTTTC-AAAAACGCCGCTATAGATATTGACCTATT
1 GCGGCGTTTGTTCCAAAAAACGCCGCTATAAATA-TGACCTTTT
4968166 GCGGCGTTT
1 GCGGCGTTT
4968175 TTTGTTCTCA
Statistics
Matches: 151, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
41 4 0.03
42 44 0.29
43 50 0.33
44 49 0.32
45 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAAACGCCGCTATAAATATGACCTTTT
Found at i:4968098 original size:86 final size:84
Alignment explanation
Indices: 4967952--4968174 Score: 245
Period size: 86 Copynumber: 2.6 Consensus size: 84
4967942 AGGTAATTAG
* *
4967952 CGGCGTTTGTTCCAAAAACGCCGCTATAA-ATATGACCTTTTGCGGCGTTTGCTCCAAAAAAATG
1 CGGCGTTTGTT-CAAAAACGCCGCTA-AAGATATGACCTTTTGCGGCGTTTGCTACAAAAAAACG
4968016 CCACTATAGATCT-CACATTTTA
64 CCACTA-A-ATCTACACATTTTA
* * * *
4968038 CGGCGTTTGTTCAAAAAATGCCGCTAAAGATCTCGACATTTTGCGGCGTTTGTTAC-AAAAAACG
1 CGGCGTTTGTTC-AAAAACGCCGCTAAAGATAT-GACCTTTTGCGGCGTTTGCTACAAAAAAACG
* * *
4968102 CCGCTAAATGTGACACATTTTG
64 CCACTAAATCT-ACACATTTTA
* *
4968124 CGGCGTTTGTTTCAAAAACGCCGCTATAGATATTGACCTATTGCGGCGTTT
1 CGGCGTTTG-TTCAAAAACGCCGCTAAAGATA-TGACCTTTTGCGGCGTTT
4968175 TTTGTTCTCA
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
84 3 0.03
85 4 0.03
86 86 0.74
87 23 0.20
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (84 bp):
CGGCGTTTGTTCAAAAACGCCGCTAAAGATATGACCTTTTGCGGCGTTTGCTACAAAAAAACGCC
ACTAAATCTACACATTTTA
Found at i:4971654 original size:44 final size:43
Alignment explanation
Indices: 4971544--4971673 Score: 208
Period size: 42 Copynumber: 3.0 Consensus size: 43
4971534 TTTAGTGGTA
*
4971544 TTTTACCACAAACGCTGCTAATACTATTGGTTTTAGTGGCGTT
1 TTTTACCACAAACGCTGCTAATGCTATTGGTTTTAGTGGCGTT
*
4971587 TTTT-CCACAAACGCTGCTAATGCTATTGATTTTAGTGGCGTT
1 TTTTACCACAAACGCTGCTAATGCTATTGGTTTTAGTGGCGTT
* *
4971629 GTTTTACCACAAACGCCGCTAATGCTATTGGTTTTAGTGGTGTT
1 -TTTTACCACAAACGCTGCTAATGCTATTGGTTTTAGTGGCGTT
4971673 T
1 T
4971674 GTATAAAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 36 0.45
43 9 0.11
44 35 0.44
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (43 bp):
TTTTACCACAAACGCTGCTAATGCTATTGGTTTTAGTGGCGTT
Found at i:4971717 original size:86 final size:84
Alignment explanation
Indices: 4971544--4971713 Score: 184
Period size: 86 Copynumber: 2.0 Consensus size: 84
4971534 TTTAGTGGTA
* * * * *
4971544 TTTTACCACAAACGCTGCTAATACTATTGGTTTTAGTGGCGTTTTTTCCACAAACGCTGCTAATG
1 TTTTACCACAAACGCCGCTAATACTATTGGTTTTAGTGGCGTTTTAT-CAAAAACGCCGCTAATA
*
4971609 CTATTGATTTTAGTGGCGTTG
65 CTATT-ATTTCAGTGGCGTTG
* * *
4971630 TTTTACCACAAACGCCGCTAATGCTATTGGTTTTAGTGGTGTTTGTAT-AAAAATGCCGCTAAAA
1 TTTTACCACAAACGCCGCTAATACTATTGGTTTTAGTGGCGTTT-TATCAAAAACGCCGCT--AA
4971694 TACTACTT-TTTCA-TGGCGTT
63 TACTA-TTATTTCAGTGGCGTT
4971714 TGTTGAGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
85 16 0.23
86 45 0.63
87 8 0.11
88 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (84 bp):
TTTTACCACAAACGCCGCTAATACTATTGGTTTTAGTGGCGTTTTATCAAAAACGCCGCTAATAC
TATTATTTCAGTGGCGTTG
Found at i:4971773 original size:81 final size:81
Alignment explanation
Indices: 4971670--4971822 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 81
4971660 TTTTAGTGGT
** * * *
4971670 GTTTGTATAAAAATGCCGCTAAAATACTACT-TTTTCATGGCGTTTGTTG-AGAAACGCCACTAT
1 GTTTGTATAAAAACACCACTAAAATACTACTCTTTGC--GGCATTTGTTGAAGAAACGCCACTAT
4971733 AAATGAACCTATTGCAGC
64 AAATGAACCTATTGCAGC
* * * **
4971751 GTTTGTATAAATACACCACTAAAGTACTACTCTTTGCGGCATTTGTTGAATAAACGCCACTATCG
1 GTTTGTATAAAAACACCACTAAAATACTACTCTTTGCGGCATTTGTTGAAGAAACGCCACTATAA
4971816 ATGAACC
66 ATGAACC
4971823 CAATTGTGGT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 10 0.17
81 46 0.77
82 4 0.07
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (81 bp):
GTTTGTATAAAAACACCACTAAAATACTACTCTTTGCGGCATTTGTTGAAGAAACGCCACTATAA
ATGAACCTATTGCAGC
Found at i:4974810 original size:27 final size:27
Alignment explanation
Indices: 4974780--4974845 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
4974770 CTATAAGAAC
4974780 ATTTCATAGCATATTATTTTAATACAT
1 ATTTCATAGCATATTATTTTAATACAT
*
4974807 ATTTCATAGAATATTATTTTAATACAT
1 ATTTCATAGCATATTATTTTAATACAT
*
4974834 ATTTCATGGCAT
1 ATTTCATAGCAT
4974846 TTAAGATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (27 bp):
ATTTCATAGCATATTATTTTAATACAT
Found at i:4977763 original size:19 final size:20
Alignment explanation
Indices: 4977741--4977782 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4977731 GTGTTTGAAC
4977741 AAAC-ACAAA-AAAATCAGAA
1 AAACAACAAAGAAAATCA-AA
*
4977760 AAACAACAAAGGAAATCAAA
1 AAACAACAAAGAAAATCAAA
4977780 AAA
1 AAA
4977783 AGAGAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.74, C:0.14, G:0.07, T:0.05
Consensus pattern (20 bp):
AAACAACAAAGAAAATCAAA
Found at i:4980485 original size:22 final size:21
Alignment explanation
Indices: 4980436--4980481 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4980426 AATAAAAGTG
*
4980436 TTTTCTTTCTTTATCTTCATT
1 TTTTCTATCTTTATCTTCATT
*
4980457 TTTTCTATCTTTATCTTCCTT
1 TTTTCTATCTTTATCTTCATT
4980478 TTTT
1 TTTT
4980482 TCTACACGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCTATCTTTATCTTCATT
Found at i:4986958 original size:20 final size:20
Alignment explanation
Indices: 4986933--4986970 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4986923 CTGGAATATA
*
4986933 CATTCTGGAATATACATTTG
1 CATTCTAGAATATACATTTG
*
4986953 CATTCTAGAATATGCATT
1 CATTCTAGAATATACATT
4986971 GTTAACGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
CATTCTAGAATATACATTTG
Found at i:4986970 original size:14 final size:14
Alignment explanation
Indices: 4986910--4986950 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
4986900 AGCAGGTTAT
*
4986910 TGGAATATGCATTC
1 TGGAATATACATTC
4986924 TGGAATATACATTC
1 TGGAATATACATTC
4986938 TGGAATATACATT
1 TGGAATATACATT
4986951 TGCATTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (14 bp):
TGGAATATACATTC
Found at i:4988656 original size:32 final size:32
Alignment explanation
Indices: 4988607--4988706 Score: 130
Period size: 35 Copynumber: 3.0 Consensus size: 32
4988597 CGTCTATAGT
* *
4988607 AGAAC-GAAGGGAGGCATCACACTTTCGATTCA
1 AGAACGGAA-GGAAGCATCGCACTTTCGATTCA
4988639 AGAACGGAAGGAAGCATCGCACTTTCGATTCA
1 AGAACGGAAGGAAGCATCGCACTTTCGATTCA
*
4988671 ATTCGAACGGAATGAAGCATCGCACTTTCGATTCA
1 A---GAACGGAAGGAAGCATCGCACTTTCGATTCA
4988706 A
1 A
4988707 CTAGAACGGA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
32 27 0.44
33 3 0.05
35 31 0.51
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (32 bp):
AGAACGGAAGGAAGCATCGCACTTTCGATTCA
Found at i:4988688 original size:35 final size:33
Alignment explanation
Indices: 4988620--4988716 Score: 133
Period size: 35 Copynumber: 2.8 Consensus size: 33
4988610 ACGAAGGGAG
*
4988620 GCATCACACTTTCGATTCAA-GAACGGAAGGAA
1 GCATCGCACTTTCGATTCAATGAACGGAAGGAA
*
4988652 GCATCGCACTTTCGATTCAATTCGAACGGAATGAA
1 GCATCGCACTTTCGATTCAA-T-GAACGGAAGGAA
4988687 GCATCGCACTTTCGATTCAACTAGAACGGA
1 GCATCGCACTTTCGATTCAA-T-GAACGGA
4988717 TGATTTACTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 19 0.33
35 39 0.67
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (33 bp):
GCATCGCACTTTCGATTCAATGAACGGAAGGAA
Found at i:4988838 original size:14 final size:14
Alignment explanation
Indices: 4988819--4988859 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
4988809 TGGAGAATAT
*
4988819 TGGAATATGCATTA
1 TGGAATATACATTA
*
4988833 TGGAATATACATTC
1 TGGAATATACATTA
4988847 TGGAATATACATT
1 TGGAATATACATT
4988860 TGCATTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (14 bp):
TGGAATATACATTA
Found at i:4988867 original size:20 final size:20
Alignment explanation
Indices: 4988842--4988879 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4988832 ATGGAATATA
*
4988842 CATTCTGGAATATACATTTG
1 CATTCTAGAATATACATTTG
*
4988862 CATTCTAGAATATGCATT
1 CATTCTAGAATATACATT
4988880 GTTAACGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
CATTCTAGAATATACATTTG
Found at i:4992514 original size:2 final size:2
Alignment explanation
Indices: 4992509--4992533 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4992499 ATTAACAATA
4992509 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4992534 ATTCTGCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5005052 original size:18 final size:18
Alignment explanation
Indices: 5005029--5005064 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5005019 TTGACGGGTT
5005029 TTGACCCGACCCGACCCG
1 TTGACCCGACCCGACCCG
5005047 TTGACCCGACCCGACCCG
1 TTGACCCGACCCGACCCG
5005065 ACCGTTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (18 bp):
TTGACCCGACCCGACCCG
Found at i:5015237 original size:18 final size:18
Alignment explanation
Indices: 5015214--5015259 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
5015204 ATATTTTCCT
5015214 AGGGCACAAATTAAAATG
1 AGGGCACAAATTAAAATG
*
5015232 AGGGCATAAATTAAAATG
1 AGGGCACAAATTAAAATG
5015250 AGGGCACAAA
1 AGGGCACAAA
5015260 ACCCTAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.24, T:0.15
Consensus pattern (18 bp):
AGGGCACAAATTAAAATG
Found at i:5027191 original size:24 final size:24
Alignment explanation
Indices: 5027146--5027195 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5027136 TGGTGGTTGG
5027146 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
5027170 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
5027194 TT
1 TT
5027196 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:5030433 original size:15 final size:15
Alignment explanation
Indices: 5030409--5030452 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
5030399 TGAGTGTTTG
5030409 TTTG-TTTATTTTTA
1 TTTGTTTTATTTTTA
5030423 TTTGTTTTATTTTT-
1 TTTGTTTTATTTTTA
*
5030437 TTTAGTTTTAATTTTA
1 TTT-GTTTTATTTTTA
5030453 ATATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTGTTTTATTTTTA
Found at i:5031659 original size:17 final size:17
Alignment explanation
Indices: 5031637--5031676 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
5031627 CAATGTGTAC
5031637 TAAATGAAAAGGGAGTA
1 TAAATGAAAAGGGAGTA
5031654 TAAATGAAAAGGGAGTA
1 TAAATGAAAAGGGAGTA
5031671 TAAATG
1 TAAATG
5031677 TGCTTAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.20
Consensus pattern (17 bp):
TAAATGAAAAGGGAGTA
Found at i:5032818 original size:24 final size:24
Alignment explanation
Indices: 5032773--5032822 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5032763 TGGTGGTTGG
5032773 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATGTTTAAACTTTATT
*
5032797 TTTAATGGTATGTTT-AAGTTTATT
1 TTTAATGG-ATGTTTAAACTTTATT
5032821 TT
1 TT
5032823 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTAATGGATGTTTAAACTTTATT
Found at i:5038543 original size:22 final size:23
Alignment explanation
Indices: 5038497--5038545 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
5038487 ACTGTTTGTG
*
5038497 AAATTTGGAGGAAGCAAAAATCA
1 AAATTTGGAGGAAGCAAAAACCA
*
5038520 AAATTTGGAGG-AGCGAAAACCA
1 AAATTTGGAGGAAGCAAAAACCA
5038542 AAAT
1 AAAT
5038546 GCAGAGGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.16
Consensus pattern (23 bp):
AAATTTGGAGGAAGCAAAAACCA
Found at i:5040936 original size:41 final size:41
Alignment explanation
Indices: 5040889--5041120 Score: 200
Period size: 41 Copynumber: 5.9 Consensus size: 41
5040879 TCCAAATTCG
* *
5040889 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAT
1 TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCTAAAT
* ** *
5040930 TCGCGTTGCGA---T--A--TCGCAACGCGAT-CT-TAAAT
1 TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCTAAAT
* * * * * *
5040962 TCGCAACT-C-AGTTTCCAAATTCGCGTTGCGATAGTCCAAAA
1 TCGC-ATTGCGATTTTCC-ATTTCGCATTGCGATAGTCTAAAT
* *
5041003 TCGCATTGCGATTTTCCATTTCGCATTGCGACAGTC-AAAA
1 TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCTAAAT
* * * *
5041043 TCGCATTGCAATTTTCTATTTCGCGTTGCGATAGTCCAAAT
1 TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCTAAAT
5041084 TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCT
1 TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCT
5041121 TGCTCTTGCA
Statistics
Matches: 151, Mismatches: 26, Indels: 28
0.74 0.13 0.14
Matches are distributed among these distances:
31 1 0.01
32 10 0.07
33 2 0.01
34 10 0.07
36 1 0.01
37 1 0.01
38 1 0.01
39 9 0.06
40 39 0.26
41 71 0.47
42 6 0.04
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCATTTCGCATTGCGATAGTCTAAAT
Found at i:5041028 original size:20 final size:20
Alignment explanation
Indices: 5041003--5041115 Score: 109
Period size: 20 Copynumber: 5.6 Consensus size: 20
5040993 TAGTCCAAAA
5041003 TCGCATTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
*** * **
5041023 TCGCATTGCGACAGTCAAAA
1 TCGCATTGCGATTTTCCATT
* *
5041043 TCGCATTGCAATTTTCTATT
1 TCGCATTGCGATTTTCCATT
* ** *
5041063 TCGCGTTGCGATAGTCCAAAT
1 TCGCATTGCGATTTTCC-ATT
5041084 TCGCATTGCGATTTTCCATT
1 TCGCATTGCGATTTTCCATT
5041104 TCGCATTGCGAT
1 TCGCATTGCGAT
5041116 AGTCTTGCTC
Statistics
Matches: 69, Mismatches: 23, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
20 53 0.77
21 16 0.23
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTCCATT
Found at i:5041395 original size:20 final size:20
Alignment explanation
Indices: 5041372--5041417 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
5041362 AAACAAATGC
5041372 ACGCGAAATGAAAAATCGCA
1 ACGCGAAATGAAAAATCGCA
*
5041392 ACGCGAAATGGAAAATCGCA
1 ACGCGAAATGAAAAATCGCA
*
5041412 ATGCGA
1 ACGCGA
5041418 TTTTGAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.11
Consensus pattern (20 bp):
ACGCGAAATGAAAAATCGCA
Found at i:5041603 original size:19 final size:20
Alignment explanation
Indices: 5041560--5041605 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
5041550 TGGAAACTGA
*
5041560 GTTGCGAAGTTAGAGTTCGC
1 GTTGCGAAGTTAGAGATCGC
* *
5041580 TTTGCGAATTTA-AGATCGC
1 GTTGCGAAGTTAGAGATCGC
5041599 GTTGCGA
1 GTTGCGA
5041606 TTTTGTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (20 bp):
GTTGCGAAGTTAGAGATCGC
Found at i:5043252 original size:2 final size:2
Alignment explanation
Indices: 5043245--5043286 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
5043235 AGTAAAGCGA
5043245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5043287 GTATCACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5043911 original size:24 final size:24
Alignment explanation
Indices: 5043865--5043911 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
5043855 TTATTAATAA
*
5043865 TATTTTATAATTTTTAATGTATAG
1 TATTTTATAAGTTTTAATGTATAG
5043889 TATTTATATAAGTTTTAAT-TATA
1 TATTT-TATAAGTTTTAATGTATA
5043912 TTTAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
TATTTTATAAGTTTTAATGTATAG
Found at i:5044653 original size:15 final size:15
Alignment explanation
Indices: 5044618--5044653 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
5044608 ATTTTAATAT
*
5044618 TTTATATTAAATTTA
1 TTTATTTTAAATTTA
*
5044633 TTTATTTTATATTTA
1 TTTATTTTAAATTTA
5044648 TTTATT
1 TTTATT
5044654 AATGATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTAAATTTA
Found at i:5044789 original size:34 final size:33
Alignment explanation
Indices: 5044751--5044819 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
5044741 AAAGATAAAT
* *
5044751 TTATAATATGAATCTTAAATAATTTTTCTTATGA
1 TTATAATATGAATATTAAATAATTTTT-TAATGA
* * *
5044785 TTATAATTTGGATATTAAATTATTTTTTAATGA
1 TTATAATATGAATATTAAATAATTTTTTAATGA
5044818 TT
1 TT
5044820 TCATATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (33 bp):
TTATAATATGAATATTAAATAATTTTTTAATGA
Found at i:5052988 original size:2 final size:2
Alignment explanation
Indices: 5052981--5053012 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5052971 TAATCATGTA
5052981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5053013 TATTTTCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5057610 original size:2 final size:2
Alignment explanation
Indices: 5057603--5057631 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5057593 ATCAACTCAA
5057603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5057632 CAAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5066968 original size:5 final size:5
Alignment explanation
Indices: 5066949--5066986 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
5066939 GTAGACATCA
*
5066949 ATTTT -TTTC ATTTT ATTTT ATTTT ATTTT ATTATT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATT
5066987 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 3 0.10
5 21 0.72
6 5 0.17
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:5068748 original size:18 final size:19
Alignment explanation
Indices: 5068712--5068750 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5068702 ATTTATAAAA
5068712 TTATAAAATATATATATAT
1 TTATAAAATATATATATAT
5068731 TTATAAAAGT-TA-ATATAT
1 TTATAAAA-TATATATATAT
5068749 TT
1 TT
5068751 TTCTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 10 0.53
20 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTATAAAATATATATATAT
Found at i:5072641 original size:3 final size:3
Alignment explanation
Indices: 5072633--5072711 Score: 79
Period size: 3 Copynumber: 26.3 Consensus size: 3
5072623 TATATTTAAA
* * * * * * *
5072633 ATT ATT ATT A-T AAT ATA ATT ATA ATT ATA ATT ATA ATT ATT AAT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5072680 ATAT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5072712 AATTACAAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
2 2 0.03
3 57 0.93
4 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:5072663 original size:12 final size:12
Alignment explanation
Indices: 5072622--5072716 Score: 83
Period size: 12 Copynumber: 8.2 Consensus size: 12
5072612 ATTTTTCATT
* *
5072622 TTATATTTAAAA
1 TTATAATTATAA
*
5072634 TTATTATTATAA
1 TTATAATTATAA
5072646 -TATAATTATAA
1 TTATAATTATAA
5072657 TTATAATTATAA
1 TTATAATTATAA
5072669 TTATTAA-TATAA
1 TTA-TAATTATAA
*
5072681 -TAT-ATTATTA
1 TTATAATTATAA
* *
5072691 TTATTATTATTA
1 TTATAATTATAA
*
5072703 TTATTATTA-AA
1 TTATAATTATAA
5072714 TTA
1 TTA
5072717 CAAGCTCAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
9 1 0.01
10 5 0.07
11 19 0.26
12 44 0.61
13 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATAATTATAA
Found at i:5072922 original size:16 final size:15
Alignment explanation
Indices: 5072901--5072930 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5072891 TCAAGTTTGA
5072901 AACCCTAGGGTATCAT
1 AACCCTAGGG-ATCAT
5072917 AACCCTAGGGATCA
1 AACCCTAGGGATCA
5072931 CGTGGTGGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
AACCCTAGGGATCAT
Found at i:5074090 original size:41 final size:40
Alignment explanation
Indices: 5074045--5074125 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
5074035 TTATTATTGT
*
5074045 TATTATTATTATGTAGTCATATAAACATATATA-ATAAATAA
1 TATTATTATTATATA-T-ATATAAACATATATATATAAATAA
* *
5074086 TATTATTATTATATATATATATATATATATATATAAATAA
1 TATTATTATTATATATATATAAACATATATATATAAATAA
5074126 AAATCCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 13 0.36
40 9 0.25
41 14 0.39
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
TATTATTATTATATATATATAAACATATATATATAAATAA
Found at i:5074102 original size:2 final size:2
Alignment explanation
Indices: 5074071--5074120 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
5074061 TCATATAAAC
*
5074071 AT AT AT A- AT AA AT A- AT AT -T AT -T AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5074108 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
5074121 AATAAAAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5074966 original size:27 final size:28
Alignment explanation
Indices: 5074913--5074972 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
5074903 TAATTCTTTC
*
5074913 TTTTCAAAATTTTTATATATACTTATTAT
1 TTTTCAAAATATTTATATATAC-TATTAT
* *
5074942 TTTTCATAATATTTATATGTA-TATTAT
1 TTTTCAAAATATTTATATATACTATTAT
5074969 TTTT
1 TTTT
5074973 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.36
29 18 0.64
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTCAAAATATTTATATATACTATTAT
Found at i:5074973 original size:29 final size:28
Alignment explanation
Indices: 5074891--5074974 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
5074881 AAAAATTCCT
* *
5074891 ATATTTA-ATTTATAATTCTTTCTTTTCAA
1 ATATTTATATATAT-ATTATTT-TTTTCAA
*
5074920 A-ATTTTTATATATACTTATTATTTTTCATA
1 ATATTTATATATATA-TTATT-TTTTTCA-A
*
5074950 ATATTTATATGTATATTATTTTTTT
1 ATATTTATATATATATTATTTTTTT
5074975 TATTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
28 5 0.11
29 21 0.47
30 8 0.18
31 11 0.24
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (28 bp):
ATATTTATATATATATTATTTTTTTCAA
Found at i:5076411 original size:43 final size:44
Alignment explanation
Indices: 5076344--5076430 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
5076334 TGGCTTTAGA
* * *
5076344 GAAGTTAGGAGGGAAAGTTATCCCCTATATGT-AAAGTTTTGTT
1 GAAGTTAGGACGGAAAGCTATCCCCTACATGTAAAAGTTTTGTT
* *
5076387 GAAGTTAGGACTGAAAGCTGTCCCCTACATGTAAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGCTATCCCCTACATGTAAAAGTTTTGTT
5076431 TGATGCACGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGCTATCCCCTACATGTAAAAGTTTTGTT
Found at i:5076555 original size:19 final size:20
Alignment explanation
Indices: 5076531--5076568 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5076521 ATCTTTACAT
5076531 TTTTAT-TTTGCATTTGTAC
1 TTTTATGTTTGCATTTGTAC
*
5076550 TTTTATGTTTGCTTTTGTA
1 TTTTATGTTTGCATTTGTA
5076569 TTGCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.13, C:0.08, G:0.13, T:0.66
Consensus pattern (20 bp):
TTTTATGTTTGCATTTGTAC
Found at i:5084220 original size:45 final size:45
Alignment explanation
Indices: 5084155--5084810 Score: 1062
Period size: 45 Copynumber: 14.6 Consensus size: 45
5084145 CTATTTCCCA
5084155 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
5084200 GATCTGTAAGCCCTTCAGTGCATGGTGTTATCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
5084245 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
5084290 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACC-TCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
5084334 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAATCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
5084379 AATTTGTAAGCCCTTCAGTGCATGATATTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
5084424 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
5084469 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* **
5084514 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAATATTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
5084559 CATCTGTAAGCCCTTCAGTGCATGATATTTTAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
5084604 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTTGGAT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
5084649 CATCTATAAGCCCTTCAGTACATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
5084694 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
5084739 CATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTAGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
5084784 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
5084811 ATAAGACCTC
Statistics
Matches: 562, Mismatches: 48, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
44 42 0.07
45 520 0.93
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:5084997 original size:3 final size:3
Alignment explanation
Indices: 5084989--5085031 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
5084979 TATATTTAAA
5084989 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5085032 AATTACAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:5086055 original size:13 final size:13
Alignment explanation
Indices: 5086037--5086061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5086027 CAACCTATAT
5086037 GTATTTTAATTTG
1 GTATTTTAATTTG
5086050 GTATTTTAATTT
1 GTATTTTAATTT
5086062 TTTTTGTTTA
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (13 bp):
GTATTTTAATTTG
Found at i:5086103 original size:2 final size:2
Alignment explanation
Indices: 5086088--5086147 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
5086078 AGCCACTGAT
* *
5086088 TA TA TA TG TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5086130 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
5086148 GGGTAAAGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5086721 original size:139 final size:137
Alignment explanation
Indices: 5086562--5086820 Score: 380
Period size: 139 Copynumber: 1.9 Consensus size: 137
5086552 CATATTTTAA
* *
5086562 TATTTATTTTTTTAATATTAAGAAATG-GACTGTCTTAAAGTACCTAAAAGTCATTTTCTGATA-
1 TATTTATTTTTTTAATATTAAGAAATGTGA-TGTCTTAAAGCACATAAAAGTCATTTTCTGATAT
* * * *
5086625 TTCTTAAATAAATAAATATCCTATTTTTATAAATTATATATATTAATTTATTTTAATATAAATGT
65 TTC-TAAATAAATAAATA-CCT-TATTTATAAA-TATATATATAAATATATATTAATATAAATGT
5086690 TTTATTAGTATT
126 TTTATTAGTATT
*
5086702 TATTTA-TTTTTTAATATTAAGAAATGTGATGTCTTAAAGCACATAGAAGTCATTTTCTGATATT
1 TATTTATTTTTTTAATATTAAGAAATGTGATGTCTTAAAGCACATAAAAGTCATTTTCTGATATT
*
5086766 TCTAAGTAAATAAATACCTTATTTATAAATATATATATAAATATATATTAATATA
66 TCTAAATAAATAAATACCTTATTTATAAATATATATATAAATATATATTAATATA
5086821 TTTTCTTAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
136 23 0.21
137 9 0.08
138 3 0.03
139 63 0.58
140 11 0.10
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (137 bp):
TATTTATTTTTTTAATATTAAGAAATGTGATGTCTTAAAGCACATAAAAGTCATTTTCTGATATT
TCTAAATAAATAAATACCTTATTTATAAATATATATATAAATATATATTAATATAAATGTTTTAT
TAGTATT
Done.