Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 43
Found at i:4601622 original size:13 final size:14
Alignment explanation
Indices: 4601599--4601628 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4601589 TTCCCATTAC
4601599 AGACGTGCATATGA
1 AGACGTGCATATGA
4601613 AGAC-TGCATATGA
1 AGACGTGCATATGA
4601626 AGA
1 AGA
4601629 TTGTTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:4601807 original size:3 final size:3
Alignment explanation
Indices: 4601799--4601826 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4601789 GAATAAGGTT
4601799 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
4601827 ACCTGAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:4604839 original size:19 final size:19
Alignment explanation
Indices: 4604782--4604841 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
4604772 CCGATAAATC
*
4604782 AAACCGAACCGAACTG-AA
1 AAACCGAACCGAACCGAAA
**
4604800 AAACTCGAACCG-TTC-AAA
1 AAAC-CGAACCGAACCGAAA
4604818 AAACCGAACCGAACCGAAA
1 AAACCGAACCGAACCGAAA
4604837 AAACC
1 AAACC
4604842 TGTTTCGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
17 7 0.21
18 11 0.33
19 15 0.45
ACGTcount: A:0.50, C:0.30, G:0.13, T:0.07
Consensus pattern (19 bp):
AAACCGAACCGAACCGAAA
Found at i:4606427 original size:14 final size:14
Alignment explanation
Indices: 4606408--4606439 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4606398 TTCGAACCCT
*
4606408 AAATGTTCTATAAA
1 AAATGTTCCATAAA
4606422 AAATGTTCCATAAA
1 AAATGTTCCATAAA
4606436 AAAT
1 AAAT
4606440 ATACTTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (14 bp):
AAATGTTCCATAAA
Found at i:4608880 original size:21 final size:22
Alignment explanation
Indices: 4608852--4608900 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4608842 AAATTTTATG
4608852 AATT-TAAATTT-TTAAAG-AA
1 AATTATAAATTTGTTAAAGTAA
*
4608871 AATATATAAATTTGTTATAGTAA
1 AAT-TATAAATTTGTTAAAGTAA
4608894 AATTATA
1 AATTATA
4608901 GTAGAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 1 0.04
21 7 0.28
22 9 0.36
23 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
AATTATAAATTTGTTAAAGTAA
Found at i:4613849 original size:16 final size:16
Alignment explanation
Indices: 4613817--4613850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4613807 ATAGATTATT
*
4613817 AATATAAAATATATAA
1 AATATAAAAAATATAA
*
4613833 AATATAAAAAATTTAA
1 AATATAAAAAATATAA
4613849 AA
1 AA
4613851 ATTTCAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATAAAAAATATAA
Found at i:4618847 original size:20 final size:20
Alignment explanation
Indices: 4618804--4618871 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
4618794 AATGATTTTC
* * *
4618804 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
4618823 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
4618843 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
4618863 TTTTGAAAA
1 TTTTGAAAA
4618872 AGGATTTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:4621582 original size:25 final size:24
Alignment explanation
Indices: 4621542--4621588 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
4621532 TGTTTATGTT
*
4621542 TTTTATTTCTATTTTTAGAAAATAG
1 TTTTATTTCTAGTTTTA-AAAATAG
*
4621567 TTTTATTTTTAGTTTTAAAAAT
1 TTTTATTTCTAGTTTTAAAAAT
4621589 TAGAAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTATTTCTAGTTTTAAAAATAG
Found at i:4622279 original size:23 final size:22
Alignment explanation
Indices: 4622236--4622279 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4622226 ATTTTTAGAA
*
4622236 AAAATAAAAATTATTTAAATTT
1 AAAATAAAAATTATGTAAATTT
4622258 AAAATATAAAA-TATGTACAATT
1 AAAATA-AAAATTATGTA-AATT
4622280 ACTAAGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATAAAAATTATGTAAATTT
Found at i:4622947 original size:25 final size:24
Alignment explanation
Indices: 4622895--4622958 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 24
4622885 TTGAAAATTG
* *
4622895 ACTTTTAAAAGTGCTGAAAAACAA
1 ACTTTTAAAAGTGTTAAAAAACAA
4622919 ACTTTTAAAAGTGTTAAAGAAACAA
1 ACTTTTAAAAGTGTTAAA-AAACAA
4622944 ACTTTTAAAAGTGTT
1 ACTTTTAAAAGTGTT
4622959 GTACAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (24 bp):
ACTTTTAAAAGTGTTAAAAAACAA
Found at i:4624625 original size:132 final size:130
Alignment explanation
Indices: 4624321--4624678 Score: 493
Period size: 132 Copynumber: 2.7 Consensus size: 130
4624311 TAAGAGAGAG
* *
4624321 ATAATATCTAATTATTTTCAATCGAGAATAAATTACCTCTTATGCCTTAAAGCAGTCATTTATTA
1 ATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
* * * * * *
4624386 CTCCAATCGAAATGAAGAGATATCACAATTTCGTCTTAAATTCAATATCGATTCGAGTGAAAATA
66 CTCCAATCGAAATGAAGAAATATCACTATTCCGTCTTAAAATCAATATCGATTCGAGAGAAAACA
* * * * *
4624451 ATAATATCTAATGATTTCCAATCGAGAATAAATGACATCTCATACCTTAAAGCATTCATTTATTA
1 ATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
* *
4624516 CTCCTATCGAAATGAAGAAATATCACTATTCCGTCTTTAAAAATCAATATTGATTCGAGAGAAAA
66 CTCCAATCGAAATGAAGAAATATCACTATTCCGTC-TT-AAAATCAATATCGATTCGAGAGAAAA
*
4624581 CG
129 CA
* * *
4624583 GTAATATCAAATTATTTTCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
1 ATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
* *
4624648 CTCCAACCGAAATGAA-AAGATATTACTATTC
66 CTCCAATCGAAATGAAGAA-ATATCACTATTC
4624679 TCAATATCGA
Statistics
Matches: 198, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
130 89 0.45
131 4 0.02
132 105 0.53
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (130 bp):
ATAATATCTAATTATTTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCATTTATTA
CTCCAATCGAAATGAAGAAATATCACTATTCCGTCTTAAAATCAATATCGATTCGAGAGAAAACA
Found at i:4626785 original size:3 final size:3
Alignment explanation
Indices: 4626777--4626863 Score: 156
Period size: 3 Copynumber: 28.3 Consensus size: 3
4626767 GTAAAGCCTG
4626777 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
4626823 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
4626864 TTAAAAATGG
Statistics
Matches: 82, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 76 0.93
4 6 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4627249 original size:133 final size:134
Alignment explanation
Indices: 4627024--4627343 Score: 396
Period size: 133 Copynumber: 2.4 Consensus size: 134
4627014 TTCAGGATAG
** * * *
4627024 ATCAGATCGAGAAACATTGATTTATTCCACTGTTCTCTAGGGAAGATTGAATCGAGGCAGACTTG
1 ATCAGATCGAGAAATGTTGATTCATTCCACTATTCTTTAGGGAAGATTGAATCGAGGCAGACTTG
* * *
4627089 TTCCACTGCTACTCAGGGAAGATCAAATCTGAAAAAAAAAGA-TTCGTTCCCCTGCTTCTTGAGG
66 TTCCACTACTACTCAGGGAAAATCAAATCTGAAAAAAAAAGACCT-GTTCCCCTGCTTCTTGAGG
4627153 G-AAA
130 GAAAA
* ** *
4627157 ATCAGATCGAAAAATGTTGATTCATTCTGCTTTTCTTTAGGGAAGATTGAATCGAGGCA-ACCTT
1 ATCAGATCGAGAAATGTTGATTCATTCCACTATTCTTTAGGGAAGATTGAATCGAGGCAGA-CTT
* * * ** **
4627221 GTTCCATTATTCCTCAGGGAAAATCAAATCTGAAAAAAAGGGACCTGTTCCGTTGCTTCTTGAGG
65 GTTCCACTACTACTCAGGGAAAATCAAATCTGAAAAAAAAAGACCTGTTCCCCTGCTTCTTGAGG
4627286 GAAAA
130 GAAAA
* *
4627291 ATCAGATATG-GAAATGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATC
1 ATCAGAT-CGAGAAATGTTGATTCATTCCACTATTCTTTAGGGAAGATTGAATC
4627344 TAGTTCGATT
Statistics
Matches: 159, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
132 1 0.01
133 108 0.68
134 49 0.31
135 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (134 bp):
ATCAGATCGAGAAATGTTGATTCATTCCACTATTCTTTAGGGAAGATTGAATCGAGGCAGACTTG
TTCCACTACTACTCAGGGAAAATCAAATCTGAAAAAAAAAGACCTGTTCCCCTGCTTCTTGAGGG
AAAA
Found at i:4627742 original size:20 final size:20
Alignment explanation
Indices: 4627714--4627752 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4627704 TAATCATCAT
*
4627714 GCTCGAAAGACTTACTAATG
1 GCTCAAAAGACTTACTAATG
4627734 GCTCAAAAGACTTACTAAT
1 GCTCAAAAGACTTACTAAT
4627753 TTTGGAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (20 bp):
GCTCAAAAGACTTACTAATG
Found at i:4627987 original size:42 final size:42
Alignment explanation
Indices: 4627885--4627992 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
4627875 GTTCGATGGT
* *
4627885 CTTATGGATGACCCGAAGGACTTA-TCATCTAGCTCGAAAGG
1 CTTATAGATGACCCGAAGGACTTACTCATCTAGCTCGAAAGA
* *
4627926 CCTATAGATGACCCGAAGGATTTACTCATC-ATGCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTACTCATCTA-GCTCGAAAGA
* * *
4627968 CTTATTGATGGCCCAAAGGACTTAC
1 CTTATAGATGACCCGAAGGACTTAC
4627993 CAATTTTGGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 22 0.39
42 34 0.61
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (42 bp):
CTTATAGATGACCCGAAGGACTTACTCATCTAGCTCGAAAGA
Found at i:4628447 original size:244 final size:243
Alignment explanation
Indices: 4627678--4628672 Score: 1332
Period size: 244 Copynumber: 4.1 Consensus size: 243
4627668 ATCATGCCAG
* ** * *
4627678 AAGGACTTATAGAT-ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCTCAAAA
1 AAGG-CTTATAGATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCAAAG
* * * * *
4627742 GACTTACTAATTTTGGAAGTAGTTTA-TAAGGTAA-AAACTTTAGAAATCATTTTTTTCAGTTTT
65 GACTTACCAATTTTGGAAATAGTTTACT-AGGTAAGAAACTTTGGAAATCATCTTTTT-ACTTTT
* *
4627805 CAAAAACTTT-AATTTTCAGATTTAAATGAGAAACGTTTCTCATTTTTCAAAAAACATTTGAAAA
128 CAAAAA-TTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAACATGTGAAAA
* * * * * *
4627869 CATCTTGTTCGATGGTCTTATGGATGACCCGAAGGACTTATCATCTAGCTCGA
192 CATCCTG-CCCAAGGTCTTATGGATGACCCAAAGGACTTATCATCTTGCTCGA
* **
4627922 AAGGCCTATAGATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTATTGATGGCCCAAAGG
1 AAGGCTTATAGATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCAAAGG
4627987 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAAT-AGT-TTTATTACTTTTC
66 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCA-TCTTT-TTACTTTTC
* * *
4628050 AAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTACGAAAAATATGTGAAAACA
129 AAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAACATGTGAAAACA
* *
4628115 TCCTGCCCAAGGTCTTATGGATGGCCCGAAA-GACTTATCATCTTGCTTGA
194 TCCTGCCCAAGGTCTTATGGATGACCC-AAAGGACTTATCATCTTGCTCGA
* * * * **
4628165 AAGGCTTATAGATGACTCGAAGGATTTAGTCCTCATGCTTGAAAGACTTACCGATGGCCTGAAGG
1 AAGGCTTATAGATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCAAAGG
* * *
4628230 ACTTACCATTTTTGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCATCTTCTTACTTTTCAA
66 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCATCTTTTTACTTTTCAA
* *
4628295 AAATTTCAATTTTTCAGATTTAAATGAGAAATTTTTCTCATTTTTCAAAAAACATATGAAAACAT
131 AAATTTCAA-TTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAACATGTGAAAACAT
* * *
4628360 CTTGCCCAAGGTCTTATGGATGTCCCAAAGGACTTATCATCTTTCTCGA
195 CCTGCCCAAGGTCTTATGGATGACCCAAAGGACTTATCATCTTGCTCGA
* *
4628409 AAGGCTTATAGATGACCTGAATGATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCAAAGG
1 AAGGCTTATAGATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCAAAGG
*
4628474 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATAATCTTTTTAC-TTTCAA
66 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCATCTTTTTACTTTTCAA
* * * *
4628538 AATTTTTAATTTTCAGATTTAAATGAGAAGCATTTT-T--TTTTT-GAAAAACATGTGAAAACAT
131 AAATTTCAATTTTCAGATTTAAATGAGAAAC-TTTTCTCATTTTTCAAAAAACATGTGAAAACAT
* *
4628599 CCTGCCCGAAGGTCTTATGGATGAACCAAAGGACTTATCATCTTGCTTGA
195 CCTGCCC-AAGGTCTTATGGATGACCCAAAGGACTTATCATCTTGCTCGA
* *
4628649 AAGACTTACT-GATGGCCCGAAGGA
1 AAGGCTTA-TAGATGACCCGAAGGA
4628673 CTCACCAGTT
Statistics
Matches: 666, Mismatches: 71, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
239 23 0.03
240 61 0.09
241 1 0.00
242 21 0.03
243 188 0.28
244 356 0.53
245 16 0.02
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (243 bp):
AAGGCTTATAGATGACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCAAAGG
ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCATCTTTTTACTTTTCAA
AAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCATTTTTCAAAAAACATGTGAAAACATC
CTGCCCAAGGTCTTATGGATGACCCAAAGGACTTATCATCTTGCTCGA
Found at i:4628878 original size:432 final size:426
Alignment explanation
Indices: 4628200--4629081 Score: 1058
Period size: 432 Copynumber: 2.0 Consensus size: 426
4628190 TTAGTCCTCA
* * * *
4628200 TGCTTGAAAGACTTACCGATGGCCTGAAGGACTTACCATTTTTGGAAATAATTTACTAGGTAAGA
1 TGCTTGAAAGACTTACCGATGGCCCGAAGGACTCACCAGTTTTAGAAATAATTTACTAGGTAAGA
* *
4628265 AACTTTGGAAATCATCTTCTTACTTTTCAAAAATTTCAATTTTTCAGATTTAAATGAGAAATTTT
66 AAC-------AT-ATCTTCTTACTTTTCAAAAATTTCAATTTTTCAAATTTAAATGAGAAACTTT
* * *
4628330 TCTCATTTTTCAAAAAACATATGAAAACATCTTGCCCAAGGTCTTATGGATGTCCCAAAGGACTT
123 TCTCATTTTTCAAAAAACATATGAAAACATCCTACCCAAGGTCTTATGGATATCCCAAAGGACTT
* *** * * * * ** * * *
4628395 ATCATCTTTCTCGAAAGGCTTATAGATGACCTGAATGATTTACTCATCATGCTCGAAAGACTTAC
188 ATCATCTTGCAAAAAAGACCTATAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAAAATTAC
*
4628460 CGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATAATC
253 CAATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTT---AATAA-C
** * * *
4628525 TTTTTACTTTCAAAATTTTTAATTTTCAGATTTAAATGAGAAGCATTT-T-TTTTTTGAAAAACA
314 -TTTTA-----AAAAAATTCAATTTTCAGATTTAAATGAGAAACATTTCTACTTTTTGAAAAACA
* *
4628588 TGTGAAAACATCCTGCCCGAAGGTCTTATGGAT-GAACCAAAGGACTTATCATCT
373 TATGAAAACATCATGCCCGAAGGTCTTATGGATAG-ACCAAAGGACTTATCATCT
* * *
4628642 TGCTTGAAAGACTTACTGATGGCCCGAAGGACTCACCAGTTTTAGAAATAGTTTATTAGGTAAGA
1 TGCTTGAAAGACTTACCGATGGCCCGAAGGACTCACCAGTTTTAGAAATAATTTACTAGGTAAGA
4628707 AAC-T-T-TTCTTACTTTTCAAAAATTTCAA-TTTTCAAATTTAAATGAGAAACTTTTCTCATTT
66 AACATATCTTCTTACTTTTCAAAAATTTCAATTTTTCAAATTTAAATGAGAAACTTTTCTCA-TT
* * * *
4628768 TTTCGAAAAACATGTGAAAACATCCTACCTGAAGGTCTTATGGATATCCTAAAGGACTTATCATC
130 TTTCAAAAAACATATGAAAACATCCTACC-CAAGGTCTTATGGATATCCCAAAGGACTTATCATC
* * *
4628833 TTGCAAAAAAGACCTATTGATGACCCGAAGGATTTAAGCATCATGCTCAAAAAAATTACTAATTG
194 TTGCAAAAAAGACCTATAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAAAATTACCAATGG
* * ** *
4628898 CCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTATGAAACTTTCCTTACTTTTAAAAAA
259 CCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTAATAACTTTTAAAAAA
*
4628963 ATTCAATTTTCAGATTTAAATGAGAAACGTTTCTCACTTTTTGAAAAACATATGAAAACATCATG
324 ATTCAATTTTCAGATTTAAATGAGAAACATTTCT-ACTTTTTGAAAAACATATGAAAACATCATG
* * * *
4629028 CTCGAAGTTCTTATGGATAGCCCGAAGGACTTATCATCT
388 CCCGAAGGTCTTATGGATAGACCAAAGGACTTATCATCT
*
4629067 TGCTTGAAAGGCTTA
1 TGCTTGAAAGACTTA
4629082 TAGGTGACTT
Statistics
Matches: 383, Mismatches: 51, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
422 32 0.08
423 1 0.00
425 73 0.19
426 1 0.00
427 5 0.01
428 1 0.00
429 2 0.01
430 28 0.07
431 50 0.13
432 128 0.33
434 1 0.00
442 61 0.16
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (426 bp):
TGCTTGAAAGACTTACCGATGGCCCGAAGGACTCACCAGTTTTAGAAATAATTTACTAGGTAAGA
AACATATCTTCTTACTTTTCAAAAATTTCAATTTTTCAAATTTAAATGAGAAACTTTTCTCATTT
TTCAAAAAACATATGAAAACATCCTACCCAAGGTCTTATGGATATCCCAAAGGACTTATCATCTT
GCAAAAAAGACCTATAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAAAATTACCAATGGCC
CAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTAATAACTTTTAAAAAAAT
TCAATTTTCAGATTTAAATGAGAAACATTTCTACTTTTTGAAAAACATATGAAAACATCATGCCC
GAAGGTCTTATGGATAGACCAAAGGACTTATCATCT
Found at i:4629142 original size:233 final size:233
Alignment explanation
Indices: 4628652--4629144 Score: 621
Period size: 233 Copynumber: 2.1 Consensus size: 233
4628642 TGCTTGAAAG
* * * * *
4628652 ACTTACTGATGGCCCGAAGGACTCACCAGTTTTAGAAATAGTTTATTAGGTAAGAAACTTTTCTT
1 ACTTACTAAT-GCCCGAAGGACTTACCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTCCTT
* * * * *
4628717 ACTTTTCAAAAATTTCAATTTTCAAATTTAAATGAGAAACTTTTCTCATTTTTTCGAAAAACATG
65 ACTTTTAAAAAAATTCAATTTTCAAATTTAAATGAGAAACGTTTCTCACTTTTTCGAAAAACATA
* * *
4628782 TGAAAACATCCTACCTGAAGGTCTTATGGATATCCTAAAGGACTTATCATCTTGCAAAAAAGACC
130 TGAAAACATCATACCTGAAGGTCTTATGGATAGCCCAAAGGACTTATCATCTTGCAAAAAAGACC
* * **
4628847 TATTGATGACCCGAAGGATTTAAGCATCATGCTCAAAAA
195 TATAGATGACCCGAAGAATTTAAGCATCATGAACAAAAA
* * *
4628886 AATTACTAATTGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTATGAAACTTTCCTT
1 ACTTACTAA-TGCCCGAAGGACTTACCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTCCTT
*
4628951 ACTTTTAAAAAAATTCAATTTTCAGATTTAAATGAGAAACGTTTCTCACTTTTT-GAAAAACATA
65 ACTTTTAAAAAAATTCAATTTTCAAATTTAAATGAGAAACGTTTCTCACTTTTTCGAAAAACATA
* * * *** *
4629015 TGAAAACATCAT-GCTCGAAGTTCTTATGGATAGCCCGAAGGACTTATCATCTTGCTTGAAAGGC
130 TGAAAACATCATACCT-GAAGGTCTTATGGATAGCCCAAAGGACTTATCATCTTGCAAAAAAGAC
* * ** * * *
4629079 TTATAGGTGACTTGAAGAATTTAATCATTATGAACAAAAT
194 CTATAGATGACCCGAAGAATTTAAGCATCATGAACAAAAA
4629119 ACTTACTAATGACCCGAAGGACTTAC
1 ACTTACTAATG-CCCGAAGGACTTAC
4629145 TAAGTAAGAA
Statistics
Matches: 220, Mismatches: 36, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
232 4 0.02
233 111 0.50
234 104 0.47
235 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (233 bp):
ACTTACTAATGCCCGAAGGACTTACCAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTCCTTA
CTTTTAAAAAAATTCAATTTTCAAATTTAAATGAGAAACGTTTCTCACTTTTTCGAAAAACATAT
GAAAACATCATACCTGAAGGTCTTATGGATAGCCCAAAGGACTTATCATCTTGCAAAAAAGACCT
ATAGATGACCCGAAGAATTTAAGCATCATGAACAAAAA
Found at i:4631021 original size:3 final size:3
Alignment explanation
Indices: 4631013--4631050 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4631003 TGTATAATTT
4631013 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4631051 TTATTAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4637277 original size:133 final size:130
Alignment explanation
Indices: 4636954--4637316 Score: 356
Period size: 133 Copynumber: 2.8 Consensus size: 130
4636944 ATAATTCTAA
* * * *
4636954 GAGAGAAAATGATAATATTAAATTATTTTTGATCGAGAATAACTGACCTCTC-TAGCCTTAAAGC
1 GAGATAAAACGATAATATCAAATTATTTTTAATCGAGAATAA-TGACCTCTCAT-GCCTTAAAGC
* * *** *
4637018 AATCATTTATTACTCCAATCGAAATAAAGAGATATCACAATTTTGTCTTAAAATTCAATATCAAT
64 AATCATTTATTATTCCAATCGAAATGAAGAGATATCACAATTCCATCTTAAAAATCAATATCAAT
4637083 TC
129 TC
* * * ** ** * *
4637085 AAG-TGAAAACAATAATATCTAAGGATTTCCAATCGAGAATAAATGACCTCTCGA-ACCTTAAAT
1 GAGAT-AAAACGATAATATCAAATTATTTTTAATCGAGAAT-AATGACCTCTC-ATGCCTTAAAG
** *
4637148 CAATCATTTATTATTCCAATCGAAATGAAGAGATATCATTATTCCATCTTTAAAAAATCAATATT
63 CAATCATTTATTATTCCAATCGAAATGAAGAGATATCACAATTCCATC-TT-AAAAATCAATATC
*
4637213 GATTC
126 AATTC
* *
4637218 GAGATAAAACGATAATATCGAATTATTTTTAATTGAGAATCAATGACCTCTCATGCCTTAAAGCA
1 GAGATAAAACGATAATATCAAATTATTTTTAATCGAGAAT-AATGACCTCTCATGCCTTAAAGCA
* * * *
4637283 GTCGTTTATTACTT-CAACCGAAATGAAAAGATAT
65 ATCATTTATTA-TTCCAATCGAAATGAAGAGATAT
4637317 TACTATTTTT
Statistics
Matches: 185, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
131 85 0.46
132 5 0.03
133 92 0.50
134 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (130 bp):
GAGATAAAACGATAATATCAAATTATTTTTAATCGAGAATAATGACCTCTCATGCCTTAAAGCAA
TCATTTATTATTCCAATCGAAATGAAGAGATATCACAATTCCATCTTAAAAATCAATATCAATTC
Found at i:4638031 original size:2 final size:2
Alignment explanation
Indices: 4638024--4638058 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4638014 AATATTCATA
4638024 AT AT AT 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 AT AT AT A
4638059 ATAAATGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4639439 original size:3 final size:3
Alignment explanation
Indices: 4639431--4639496 Score: 87
Period size: 3 Copynumber: 21.3 Consensus size: 3
4639421 AGCCTGAAAA
* *
4639431 AAT AAT AAT AAT AAT TAT AACT AAT AAT AAT AAT TAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
*
4639477 AGT AAT AAT AAT AAAT AAT A
1 AAT AAT AAT AAT -AAT AAT A
4639497 TTAAAAACGG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:4639675 original size:21 final size:21
Alignment explanation
Indices: 4639620--4639676 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4639610 CTTAGAAAAA
*
4639620 AATATTGATGTGACAATCTAC
1 AATATTGATGTGATAATCTAC
* *
4639641 AATATTGATGTGATAATTTAT
1 AATATTGATGTGATAATCTAC
*
4639662 AATATTGTTGTGATA
1 AATATTGATGTGATA
4639677 GTTCTCGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (21 bp):
AATATTGATGTGATAATCTAC
Found at i:4640572 original size:16 final size:16
Alignment explanation
Indices: 4640551--4640593 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
4640541 GGCTAAGGAA
4640551 CGACAGAAAATGAGTG
1 CGACAGAAAATGAGTG
4640567 CGACAGAAAATGAGTG
1 CGACAGAAAATGAGTG
*
4640583 CGACCGAAAAT
1 CGACAGAAAAT
4640594 TTTATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (16 bp):
CGACAGAAAATGAGTG
Found at i:4641541 original size:26 final size:29
Alignment explanation
Indices: 4641506--4641559 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 29
4641496 TACTATACCC
4641506 TTAACAAAAT-T-TATAACT-TATAATGA
1 TTAACAAAATATATATAACTATATAATGA
*
4641532 TTAACTAAATATAATATAACTATATAAT
1 TTAACAAAATAT-ATATAACTATATAAT
4641560 TACACTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 9 0.39
27 1 0.04
29 7 0.30
30 6 0.26
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (29 bp):
TTAACAAAATATATATAACTATATAATGA
Found at i:4642629 original size:20 final size:20
Alignment explanation
Indices: 4642604--4642654 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4642594 CTCTTTCAAT
4642604 GATTATTGGTATTATAGACA
1 GATTATTGGTATTATAGACA
4642624 GATTATTGGTATTATAGACA
1 GATTATTGGTATTATAGACA
**
4642644 GGGTATTGGTA
1 GATTATTGGTA
4642655 CTCGTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.39
Consensus pattern (20 bp):
GATTATTGGTATTATAGACA
Found at i:4646617 original size:20 final size:20
Alignment explanation
Indices: 4646592--4646634 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
4646582 TCATTGTGGC
4646592 TTTCCTTATTTTCAATTGGG
1 TTTCCTTATTTTCAATTGGG
4646612 TTTCCTTATTTTCAATTGGG
1 TTTCCTTATTTTCAATTGGG
4646632 TTT
1 TTT
4646635 TCAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (20 bp):
TTTCCTTATTTTCAATTGGG
Found at i:4654893 original size:65 final size:65
Alignment explanation
Indices: 4654754--4654913 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
4654744 TGCACTAAGA
* * *
4654754 GTGCATCGATGCATAAAATGTATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGAATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCAATGAATAGCTG
* * *
4654818 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-A-CTCTGAGTGCATCAATGCATAG-
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCAATGAATAGC
*
4654880 TAT
64 T-G
* *
4654883 GTGCAACGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
4654914 CAATTTATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 28 0.34
65 51 0.62
66 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCAATGAATAGCTG
Found at i:4656841 original size:2 final size:2
Alignment explanation
Indices: 4656834--4656858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4656824 TCAATTTACA
4656834 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
4656859 ATTTATGAAA
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:4676136 original size:26 final size:26
Alignment explanation
Indices: 4676100--4676160 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
4676090 ATGTGTCAAT
4676100 GACACGTCATAATGTACCATGACCTA
1 GACACGTCATAATGTACCATGACCTA
4676126 GACACGTCATAATGTACCATGACCTA
1 GACACGTCATAATGTACCATGACCTA
*
4676152 GACAAGTCA
1 GACACGTCA
4676161 CGATAGTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.21
Consensus pattern (26 bp):
GACACGTCATAATGTACCATGACCTA
Found at i:4677437 original size:24 final size:24
Alignment explanation
Indices: 4677410--4677487 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 24
4677400 CAAAGTGCCA
*
4677410 CGTAGAATTTATCCCGAAGGACCG
1 CGTAGAATTTGTCCCGAAGGACCG
* *
4677434 CGTAGAATTTGTCCCGAATGACCA
1 CGTAGAATTTGTCCCGAAGGACCG
* * *
4677458 CATAG-ATTTGTTCTGAAGGACCG
1 CGTAGAATTTGTCCCGAAGGACCG
4677481 CGTAGAA
1 CGTAGAA
4677488 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (24 bp):
CGTAGAATTTGTCCCGAAGGACCG
Found at i:4678379 original size:21 final size:20
Alignment explanation
Indices: 4678337--4678386 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
4678327 CTTACTCTTG
4678337 GTATCGATACCTCCACATCA
1 GTATCGATACCTCCACATCA
*
4678357 GTATCGATACTACTCTA-ATCA
1 GTATCGATAC--CTCCACATCA
4678378 GTATCGATA
1 GTATCGATA
4678387 ATGTTTATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (20 bp):
GTATCGATACCTCCACATCA
Found at i:4683433 original size:23 final size:24
Alignment explanation
Indices: 4683357--4683434 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 24
4683347 CGAAGTGCCA
*
4683357 CGTAGAATTTGTCCCAAAGGACTG
1 CGTAGAATTTGTCCCAAAGGACCG
* * * *
4683381 CATAGAATTTATCCCCAAGGACCA
1 CGTAGAATTTGTCCCAAAGGACCG
*
4683405 CCTAG-ATTTGTCCCAAAGGACCG
1 CGTAGAATTTGTCCCAAAGGACCG
4683428 CGTAGAA
1 CGTAGAA
4683435 ACCTCGACTC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 19 0.44
24 24 0.56
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (24 bp):
CGTAGAATTTGTCCCAAAGGACCG
Found at i:4694600 original size:26 final size:25
Alignment explanation
Indices: 4694570--4694618 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
4694560 TATGCATTTG
4694570 CATTTACAATTACACTTGCATCTTTT
1 CATTTACAATTACACTTGC-TCTTTT
* * *
4694596 CATTTATATTTATACTTGCTCTT
1 CATTTACAATTACACTTGCTCTT
4694619 GTAACTTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (25 bp):
CATTTACAATTACACTTGCTCTTTT
Found at i:4697741 original size:73 final size:72
Alignment explanation
Indices: 4697452--4698195 Score: 660
Period size: 73 Copynumber: 10.3 Consensus size: 72
4697442 ATTTTTCTAA
* * * *
4697452 AGATAG-TTTCTCTTGAACTAATTTTCACCTCACTCGAGATAGTTTCTCTCGAAACAAAAACTTT
1 AGATAGTTTTCTCTTGAA--AA-TTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTT
*
4697516 ATCTCGCTTA
63 ATCTCGCTTG
* * ****
4697526 AGATAGTTTTCTCTTGAAAATTT-GTCTCACTCGAGACATTTTCTCTC---A-ATTTTTTTTATC
1 AGATAGTTTTCTCTTGAAAATTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTATC
* *
4697586 TCACTTA
66 TCGCTTG
* * * **
4697593 AGATA-TTTTCTCTTGAAATAGATTT-AGTCTCACTCAAGACTATTTCTCTCAAAACAAAAAAAA
1 AGATAGTTTTCTCTTG-AA-A-ATTTCA-TCTCACTCGAGACAATTTCTCTCGAAAC-AAAAATT
*
4697656 TTATCTCACTTG
61 TTATCTCGCTTG
*
4697668 AGATAGTTTTCTCTTGAAAATCTTCATCTCACTCGAGAAAATTTCTCTCGAAACAAAAATTTTAT
1 AGATAGTTTTCTCTTGAAAAT-TTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTAT
4697733 CTCGCTTG
65 CTCGCTTG
* * * * * * **
4697741 AGATAGTTTTCTCTTAAAAAATTTCCTCTCACTCAAGATAGTTTCTCTCGAAGCAAAAAAAATTA
1 AGATAGTTTTCTCTT-GAAAATTTCATCTCACTCGAGACAATTTCTCTCGAAAC-AAAAATTTTA
4697806 --TCGCTTG
64 TCTCGCTTG
* * * * ** * *
4697813 AGATAGTTTTCTCTTAAAAATTTTCTTCTTA-TCGAGACAGTTTCTCTTAAAATAAAACTTTTAT
1 AGATAGTTTTCTCTTGAAAA-TTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTAT
*
4697877 CTTGCTTG
65 CTCGCTTG
* * * *
4697885 AGATAATTTTCTCTTGAAAATTTTCATCTCACTAGAGACAATTTCTCTTGAAACTAAAATTTTAT
1 AGATAGTTTTCTCTTGAAAA-TTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTAT
4697950 CTCGCTTG
65 CTCGCTTG
* * ** * *
4697958 AGATAGTTTTCCCTTGAAATTTTTTGTCTCACTCGAGACATTTTCTCTCAAAAC-AAAATTTTAT
1 AGATAGTTTTCTCTTGAAA-ATTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTAT
*
4698022 CTCACTTG
65 CTCGCTTG
** * * *
4698030 AGATA-TTTTCTCTTGAAATAAATTTTGTCTCACTCGAGA-AAGTTTATCTCAAAACAAATATTT
1 AGATAGTTTTCTCTTG--A-AAATTTCATCTCACTCGAGACAA-TTTCTCTCGAAACAAAAATTT
*
4698093 TATCTCGCTTT
62 TATCTCGCTTG
* * * *
4698104 AGATAGTTTTCTTTTGAAAATTT-GTCTCACTCGAGACAATTTCTCTCGTAAC-AAAGTTTTATC
1 AGATAGTTTTCTCTTGAAAATTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTATC
*
4698167 TCACTT-
66 TCGCTTG
4698173 ATGATA-TTTTCTCTTGAAAATTT
1 A-GATAGTTTTCTCTTGAAAATTT
4698196 TTGTTTCACT
Statistics
Matches: 558, Mismatches: 84, Indels: 61
0.79 0.12 0.09
Matches are distributed among these distances:
66 10 0.02
67 20 0.04
68 2 0.00
69 21 0.04
70 45 0.08
71 73 0.13
72 97 0.17
73 172 0.31
74 68 0.12
75 40 0.07
76 10 0.02
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (72 bp):
AGATAGTTTTCTCTTGAAAATTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAAATTTTATC
TCGCTTG
Found at i:4697887 original size:144 final size:145
Alignment explanation
Indices: 4697452--4698191 Score: 704
Period size: 144 Copynumber: 5.1 Consensus size: 145
4697442 ATTTTTCTAA
* * * ** * **
4697452 AGATAGTTTCTCTTGAACTAATTTTCACCTCACTCGAGATAGTTTCTCTCGAAACAAAAACTTTA
1 AGATATTTTCTCTTGAAATAAATTTCGTCTCACTCAAGATAGTTTCTCTCGAAACAAAAAAATTA
* * **
4697517 TCTCGCTTAAGATAGTTTTCTCTTGAAAA-TTT-GTCTCACTCGAGACATTTTCTCTC--AA-TT
66 -CTCGCTTGAGATAGTTTTCTCTTGAAAATTTTCTTCTCACTCGAGACATTTTCTCTCAAAACAA
** *
4697577 TTTTTTATCTCACTTA
130 AATTTTATCTCACTTG
* * *
4697593 AGATATTTTCTCTTGAAATAGATTTAGTCTCACTCAAGACTA-TTTCTCTCAAAACAAAAAAAAT
1 AGATATTTTCTCTTGAAATAAATTTCGTCTCACTCAAGA-TAGTTTCTCTCGAAAC-AAAAAAAT
* * * * * *
4697657 TATCTCACTTGAGATAGTTTTCTCTTGAAAATCTTCATCTCACTCGAGAAAATTTCTCTCGAAAC
64 TA-CTCGCTTGAGATAGTTTTCTCTTGAAAATTTTCTTCTCACTCGAGACATTTTCTCTCAAAAC
*
4697722 AAAAATTTTATCTCGCTTG
128 -AAAATTTTATCTCACTTG
* *
4697741 AGATAGTTTTCTCTT-AAA-AAATTTCCTCTCACTCAAGATAGTTTCTCTCGAAGCAAAAAAAAT
1 AGATA-TTTTCTCTTGAAATAAATTTCGTCTCACTCAAGATAGTTTCTCTCGAAAC-AAAAAAAT
* * * * *
4697804 TA-TCGCTTGAGATAGTTTTCTCTTAAAAATTTTCTTCTTA-TCGAGACAGTTTCTCTTAAAATA
64 TACTCGCTTGAGATAGTTTTCTCTTGAAAATTTTCTTCTCACTCGAGACATTTTCTCTCAAAACA
**
4697867 AAACTTTTATCTTGCTTG
129 AAA-TTTTATCTCACTTG
* * * * * * **
4697885 AGATAATTTTCTCTTG-AA-AATTTTCATCTCACT-AGAGACAATTTCTCTTGAAACTAAAATTT
1 AGAT-ATTTTCTCTTGAAATAAATTTCGTCTCACTCA-AGATAGTTTCTCTCGAAACAAAAAAAT
* *
4697947 TATCTCGCTTGAGATAGTTTTCCCTTG-AAATTTTTTGTCTCACTCGAGACATTTTCTCTCAAAA
64 TA-CTCGCTTGAGATAGTTTTCTCTTGAAAATTTTCT-TCTCACTCGAGACATTTTCTCTCAAAA
4698011 CAAAATTTTATCTCACTTG
127 CAAAATTTTATCTCACTTG
* * * * * * **
4698030 AGATATTTTCTCTTGAAATAAATTTTGTCTCACTCGAGAAAGTTTATCTCAAAACAAATATTTTA
1 AGATATTTTCTCTTGAAATAAATTTCGTCTCACTCAAGATAGTTTCTCTCGAAACAAAAAAATTA
* * * * **
4698095 TCTCGCTTTAGATAGTTTTCTTTTGAAAA-TTT-GTCTCACTCGAGACAATTTCTCTCGTAACAA
66 -CTCGCTTGAGATAGTTTTCTCTTGAAAATTTTCTTCTCACTCGAGACATTTTCTCTCAAAACAA
*
4698158 AGTTTTATCTCACTT-
130 AATTTTATCTCACTTG
4698173 ATGATATTTTCTCTTGAAA
1 A-GATATTTTCTCTTGAAA
4698192 ATTTTTGTTT
Statistics
Matches: 500, Mismatches: 76, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
141 43 0.09
142 37 0.07
143 15 0.03
144 171 0.34
145 77 0.15
146 86 0.17
147 42 0.08
148 20 0.04
149 9 0.02
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (145 bp):
AGATATTTTCTCTTGAAATAAATTTCGTCTCACTCAAGATAGTTTCTCTCGAAACAAAAAAATTA
CTCGCTTGAGATAGTTTTCTCTTGAAAATTTTCTTCTCACTCGAGACATTTTCTCTCAAAACAAA
ATTTTATCTCACTTG
Found at i:4697930 original size:217 final size:216
Alignment explanation
Indices: 4697452--4698192 Score: 715
Period size: 217 Copynumber: 3.4 Consensus size: 216
4697442 ATTTTTCTAA
* * * *
4697452 AGATAG-TTTCTCTTGAACTAATTTTCACCTCACTCGAGATAGTTTCTCTCGAAACAAAAACTTT
1 AGATAGTTTTCTCTTGAA--AATTTTCATCTCACTCGAGACAATTTCTCTCGAAAC-AAAATTTT
* * * * *
4697516 ATCTCGCTTAAGATAGTTTTCTCTTG-AAAATTT-GTCTCACTCGAGACATTTTCTCTC--AA-T
63 ATCTCGCTTGAGATAGTTTTCTCTTGAAAAATTTCCTCTCACTCAAGACAGTTTCTCTCAAAACA
***** * * * * * *
4697576 TTTTTTTATCTCACTTAAGATATTTTCTCTTGAAATAGATTTAGTCTCACTCAAGACTA-TTTCT
128 AAAAATTA-CTCACTTGAGATATTTTCTCTT-AAATAAATTTTGTCTCACTCGAGA-AAGTTTAT
* ** *
4697640 CTCAAAACAAAAAAAATTATCTCACTTG
190 CTCAAAAC-AAATATTTTATCTCGCTTG
* *
4697668 AGATAGTTTTCTCTTGAAAATCTTCATCTCACTCGAGAAAATTTCTCTCGAAACAAAAATTTTAT
1 AGATAGTTTTCTCTTGAAAATTTTCATCTCACTCGAGACAATTTCTCTCGAAAC-AAAATTTTAT
* *
4697733 CTCGCTTGAGATAGTTTTCTCTTAAAAAATTTCCTCTCACTCAAGATAGTTTCTCTCGAAGCAA-
65 CTCGCTTGAGATAGTTTTCTCTTGAAAAATTTCCTCTCACTCAAGACAGTTTCTCTC-AA--AAC
* * * * *
4697797 AAAAAATTA-TCGCTTGAGATAGTTTTCTCTT-AA-AAATTTTCTTCTTA-TCGAGACAGTTTCT
127 AAAAAATTACTCACTTGAGATA-TTTTCTCTTAAATAAATTTT-GTCTCACTCGAGAAAGTTTAT
* * *
4697858 CTTAAAATAAA-ACTTTTATCTTGCTTG
190 CTCAAAACAAATA-TTTTATCTCGCTTG
* * *
4697885 AGATAATTTTCTCTTGAAAATTTTCATCTCACTAGAGACAATTTCTCTTGAAACTAAAATTTTAT
1 AGATAGTTTTCTCTTGAAAATTTTCATCTCACTCGAGACAATTTCTCTCGAAAC-AAAATTTTAT
* ** ** * *
4697950 CTCGCTTGAGATAGTTTTCCCTTGAAATTTTTTGTCTCACTCGAGACATTTTCTCTCAAAACAAA
65 CTCGCTTGAGATAGTTTTCTCTTGAAAAATTTCCTCTCACTCAAGACAGTTTCTCTCAAAACAAA
**
4698015 ATTTTATCTCACTTGAGATATTTTCTCTTGAAATAAATTTTGTCTCACTCGAGAAAGTTTATCTC
130 AAATTA-CTCACTTGAGATATTTTCTCTT-AAATAAATTTTGTCTCACTCGAGAAAGTTTATCTC
*
4698080 AAAACAAATATTTTATCTCGCTTT
193 AAAACAAATATTTTATCTCGCTTG
* * * *
4698104 AGATAGTTTTCTTTTGAAAA-TTT-GTCTCACTCGAGACAATTTCTCTCGTAACAAAGTTTTATC
1 AGATAGTTTTCTCTTGAAAATTTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAATTTTATC
*
4698167 TCACTT-ATGATA-TTTTCTCTTGAAAA
66 TCGCTTGA-GATAGTTTTCTCTTGAAAA
4698193 TTTTTGTTTC
Statistics
Matches: 437, Mismatches: 67, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
214 2 0.00
215 84 0.19
216 44 0.10
217 188 0.43
218 30 0.07
219 64 0.15
220 11 0.03
221 9 0.02
222 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (216 bp):
AGATAGTTTTCTCTTGAAAATTTTCATCTCACTCGAGACAATTTCTCTCGAAACAAAATTTTATC
TCGCTTGAGATAGTTTTCTCTTGAAAAATTTCCTCTCACTCAAGACAGTTTCTCTCAAAACAAAA
AATTACTCACTTGAGATATTTTCTCTTAAATAAATTTTGTCTCACTCGAGAAAGTTTATCTCAAA
ACAAATATTTTATCTCGCTTG
Found at i:4698112 original size:38 final size:37
Alignment explanation
Indices: 4697656--4698112 Score: 131
Period size: 35 Copynumber: 12.6 Consensus size: 37
4697646 ACAAAAAAAA
***
4697656 TTATCTCACTTGAGATAGTTT-TCTC--TTGAAAATCT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAAT-T
* * * * * *
4697691 TCATCTCACTCGAGAAAATTTCTCTCGAAACAAAAATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAAC-AAAATT
* **
4697729 TTATCTCGCTTGAGATAGTTT-TCTCTTAA-AAAATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
** ** * **
4697764 TCCTCTCACTCAAGATAGTTTCTCTCGAAGCAA-AAAAAA
1 TTATCTCACTTGAGATAGTTTATCTC-AA--AACAAAATT
* **
4697803 TTA--TCGCTTGAGATAGTTT-TCTC-TTA-AAAATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
* * * * * * *
4697835 TTCTTCTTA-TCGAGACAGTTTCTCTTAAAATAAAACTT
1 TT-ATCTCACTTGAGATAGTTTATCTCAAAACAAAA-TT
** * ***
4697873 TTATCTTGCTTGAGATAATTT-TCTC--TTGAAAATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
* * * * **
4697907 TTCATCTCACTAGAGACAATTTCTCTTGAAACTAAAATT
1 TT-ATCTCACTTGAGATAGTTTATCTCAAAAC-AAAATT
* * *** **
4697946 TTATCTCGCTTGAGATAGTTT-TCCCTTGA-AATTTT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
* * * * *
4697981 TTGTCTCACTCGAGACATTTTCTCTCAAAACAAAATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
* * ** *
4698018 TTATCTCACTTGAGATATTTTCTCTTGAAA-TAAATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
* * *
4698054 TTGTCTCACTCGAGAAAGTTTATCTCAAAACAAATATT
1 TTATCTCACTTGAGATAGTTTATCTCAAAACAAA-ATT
* *
4698092 TTATCTCGCTTTAGATAGTTT
1 TTATCTCACTTGAGATAGTTT
4698113 TCTTTTGAAA
Statistics
Matches: 299, Mismatches: 98, Indels: 47
0.67 0.22 0.11
Matches are distributed among these distances:
32 7 0.02
34 14 0.05
35 82 0.27
36 48 0.16
37 64 0.21
38 64 0.21
39 20 0.07
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (37 bp):
TTATCTCACTTGAGATAGTTTATCTCAAAACAAAATT
Found at i:4698892 original size:37 final size:37
Alignment explanation
Indices: 4698838--4698967 Score: 111
Period size: 37 Copynumber: 3.5 Consensus size: 37
4698828 TGAAATTTTA
* *
4698838 TCTCGCTTGAGATAATTTTGCTTGAAACAAAATTCTG
1 TCTCCCTTGAGACAATTTTGCTTGAAACAAAATTCTG
* * ** * *
4698875 TCTCCCTCGAGACAATTTTCCTCAAAAC-AATTTCTTA
1 TCTCCCTTGAGACAATTTTGCTTGAAACAAAATTC-TG
* * *
4698912 TCTCTCTTGAGATAGTTTTGCTTGAAACAAAAATTC-G
1 TCTCCCTTGAGACAATTTTGCTTGAAAC-AAAATTCTG
**
4698949 TCTCGATTGAGACAATTTT
1 TCTCCCTTGAGACAATTTT
4698968 CTTCTGAACA
Statistics
Matches: 69, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
36 5 0.07
37 59 0.86
39 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (37 bp):
TCTCCCTTGAGACAATTTTGCTTGAAACAAAATTCTG
Found at i:4699376 original size:3 final size:3
Alignment explanation
Indices: 4699336--4699474 Score: 66
Period size: 3 Copynumber: 44.3 Consensus size: 3
4699326 TTACCTCTTT
* * * *
4699336 TTA TT- TTA TT- TTA TTA ATA GTA TTTA TTA GTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* ** * * *
4699380 CTAA CAA TTA TCA TTTA TTA TTA TTG TTA GTA TTTA TTA TTA TTA CTTA
1 -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA
* * * *
4699429 GTTA TTA TTA TTTA TCA TTA TTGA TTA TTA CTA GTA TTG TTA TTA T
1 -TTA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
4699475 AATATATATG
Statistics
Matches: 102, Mismatches: 25, Indels: 18
0.70 0.17 0.12
Matches are distributed among these distances:
2 4 0.04
3 78 0.76
4 20 0.20
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4701627 original size:31 final size:31
Alignment explanation
Indices: 4701586--4701658 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
4701576 GCCAATTTTT
* *
4701586 AGTGACCAAATTTTAATCAAATAAAAATAAA
1 AGTGACCAAATCTTAATCAAATAAAAACAAA
* *
4701617 AGTGATCAAATCTTAATTAAATAAAAACAAA
1 AGTGACCAAATCTTAATCAAATAAAAACAAA
*
4701648 AGTGACTAAAT
1 AGTGACCAAAT
4701659 ATTTTTCTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (31 bp):
AGTGACCAAATCTTAATCAAATAAAAACAAA
Found at i:4702047 original size:31 final size:31
Alignment explanation
Indices: 4702012--4702081 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
4702002 TTTTTAAAGT
4702012 ACAAATTGGTCACTAACGTTATCAATTTGTA
1 ACAAATTGGTCACTAACGTTATCAATTTGTA
4702043 ACAAATTGGTCACTAACGTTATCAATTTGTA
1 ACAAATTGGTCACTAACGTTATCAATTTGTA
4702074 ACAAATTG
1 ACAAATTG
4702082 ATGTCACATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (31 bp):
ACAAATTGGTCACTAACGTTATCAATTTGTA
Found at i:4706620 original size:111 final size:110
Alignment explanation
Indices: 4706417--4706627 Score: 325
Period size: 111 Copynumber: 1.9 Consensus size: 110
4706407 TGCACCAAAG
* * * *
4706417 TGTCAAAATGGTCATTGACATTTTATGAATACCATGAGTGCACCTTTTATGCCGATAATGCACTG
1 TGTCAAAATGGTAATTCACATTTTATGAATACCATGAGTGCACCTTTTATGCCAATAATGCACCG
4706482 TTATGCATTTAACAAAATCGATAGATAATCTTTCATACACGAAGTA
66 TTATGCATTTAACAAAATCGATAGATAA-CTTTCATACACGAAGTA
* * *
4706528 TGTCGAAATGGTAATTCACCTTTTATGAATACCATGGGTGGCACCTTTTATGCCAATAATGCACC
1 TGTCAAAATGGTAATTCACATTTTATGAATACCATGAGT-GCACCTTTTATGCCAATAATGCACC
*
4706593 GTTATGC-TTTAACAAAATCGATCGATAACTTTCAT
65 GTTATGCATTTAACAAAATCGATAGATAACTTTCAT
4706628 CAGTGGCACC
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
110 7 0.08
111 54 0.59
112 30 0.33
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (110 bp):
TGTCAAAATGGTAATTCACATTTTATGAATACCATGAGTGCACCTTTTATGCCAATAATGCACCG
TTATGCATTTAACAAAATCGATAGATAACTTTCATACACGAAGTA
Found at i:4710853 original size:15 final size:15
Alignment explanation
Indices: 4710833--4710871 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
4710823 TTAACTTTAT
4710833 TGGAGCCATTTGATA
1 TGGAGCCATTTGATA
4710848 TGGAGCCATTTGATA
1 TGGAGCCATTTGATA
4710863 TGGAGCCAT
1 TGGAGCCAT
4710872 AGAAACAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (15 bp):
TGGAGCCATTTGATA
Found at i:4717242 original size:183 final size:183
Alignment explanation
Indices: 4716934--4717298 Score: 694
Period size: 183 Copynumber: 2.0 Consensus size: 183
4716924 TACACATGGG
*
4716934 AATAGGGTCAACTAATTTTCATATCAACTTATTCGAGCATGACCATGCCTTTCTAGTATCACTCG
1 AATAGGGTCAACTAATTTTCATATCAACTTATTCAAGCATGACCATGCCTTTCTAGTATCACTCG
4716999 ATCAAGTGGTTTGTGATATATTTCCTATTATGTAGGAAGGACAATGCTCATGGTGGGTCAATCCA
66 ATCAAGTGGTTTGTGATATATTTCCTATTATGTAGGAAGGACAATGCTCATGGTGGGTCAATCCA
*
4717064 ATATATTGTTCTCTAATAATATAATCATGTATCAATTCTGACATCTCTATGTC
131 ATATATTGTTCTCTAACAATATAATCATGTATCAATTCTGACATCTCTATGTC
*
4717117 AATAGGGTCAGCTAATTTTCATATCAACTTATTCAAGCATGACCATGCCTTTCTAGTATCACTCG
1 AATAGGGTCAACTAATTTTCATATCAACTTATTCAAGCATGACCATGCCTTTCTAGTATCACTCG
4717182 ATCAAGTGGTTTGTGATATATTTCCTATTATGTAGGAAGGACAATGCTCATGGTGGGTCAATCCA
66 ATCAAGTGGTTTGTGATATATTTCCTATTATGTAGGAAGGACAATGCTCATGGTGGGTCAATCCA
*
4717247 GTATATTGTTCTCTAACAATATAATCATGTATCAATTCTGACATCTCTATGT
131 ATATATTGTTCTCTAACAATATAATCATGTATCAATTCTGACATCTCTATGT
4717299 TAATGACAAC
Statistics
Matches: 178, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (183 bp):
AATAGGGTCAACTAATTTTCATATCAACTTATTCAAGCATGACCATGCCTTTCTAGTATCACTCG
ATCAAGTGGTTTGTGATATATTTCCTATTATGTAGGAAGGACAATGCTCATGGTGGGTCAATCCA
ATATATTGTTCTCTAACAATATAATCATGTATCAATTCTGACATCTCTATGTC
Found at i:4720927 original size:53 final size:53
Alignment explanation
Indices: 4720838--4720942 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
4720828 AACGTGGCAA
* *
4720838 TCAATGGTCCAGGTAAGCGATTAACGGGCTGATAAGCTTTTCGCCACCCACAG
1 TCAATGGTCCAGGTAAGCGATTAACAGGCCGATAAGCTTTTCGCCACCCACAG
*
4720891 TCAATGGTCCAGGTAAGCGATTAACAGGCCGGTAAGCTTTTCGCCACCCACA
1 TCAATGGTCCAGGTAAGCGATTAACAGGCCGATAAGCTTTTCGCCACCCACA
4720943 TTAAATGCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (53 bp):
TCAATGGTCCAGGTAAGCGATTAACAGGCCGATAAGCTTTTCGCCACCCACAG
Found at i:4721235 original size:58 final size:59
Alignment explanation
Indices: 4721121--4721236 Score: 171
Period size: 58 Copynumber: 1.9 Consensus size: 59
4721111 AACTATAATG
** *
4721121 TAGATGTGAACAATGGGAGCTGATTATCATTGAAGGAAAGAACAACAAATCTTCCTATTATA
1 TAGATGTGAACAATGGGAGCTG---ATCATACAACGAAAGAACAACAAATCTTCCTATTATA
4721183 TAGATGTGAACAATGGGAGCTG-TCATACAACGAAAGAACAACAAATCTTCCTAT
1 TAGATGTGAACAATGGGAGCTGATCATACAACGAAAGAACAACAAATCTTCCTAT
4721237 AGAGGGGCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 29 0.57
62 22 0.43
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (59 bp):
TAGATGTGAACAATGGGAGCTGATCATACAACGAAAGAACAACAAATCTTCCTATTATA
Found at i:4722307 original size:25 final size:25
Alignment explanation
Indices: 4722279--4722332 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
4722269 TTCAAATACA
4722279 TTGTTAATAATATTCACATTAAAAC
1 TTGTTAATAATATTCACATTAAAAC
4722304 TTGTTAATAATATTCACATTAAAAC
1 TTGTTAATAATATTCACATTAAAAC
4722329 TTGT
1 TTGT
4722333 AGTCCACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (25 bp):
TTGTTAATAATATTCACATTAAAAC
Found at i:4725456 original size:24 final size:26
Alignment explanation
Indices: 4725412--4725460 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
4725402 GTTCGTGAAC
*
4725412 GTTTGATTATATGTTCGTTTATGTTA
1 GTTTGATTATATGTTCATTTATGTTA
4725438 GTTT-ATT-TATGTTCATTTATGTT
1 GTTTGATTATATGTTCATTTATGTT
4725461 CGAACAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
25 3 0.14
26 4 0.18
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.61
Consensus pattern (26 bp):
GTTTGATTATATGTTCATTTATGTTA
Found at i:4732683 original size:6 final size:7
Alignment explanation
Indices: 4732659--4732688 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4732649 GACCCGACCC
4732659 GACCGTT
1 GACCGTT
4732666 GACCGTT
1 GACCGTT
4732673 GACCG-T
1 GACCGTT
4732679 GACCGTT
1 GACCGTT
4732686 GAC
1 GAC
4732689 TTCCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:4732683 original size:13 final size:14
Alignment explanation
Indices: 4732659--4732688 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4732649 GACCCGACCC
4732659 GACCGTTGACCGTT
1 GACCGTTGACCGTT
4732673 GACCG-TGACCGTT
1 GACCGTTGACCGTT
4732686 GAC
1 GAC
4732689 TTCCTTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:4739413 original size:12 final size:12
Alignment explanation
Indices: 4739396--4739420 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4739386 CTCATCCCGT
4739396 GTGTTCATCTTC
1 GTGTTCATCTTC
4739408 GTGTTCATCTTC
1 GTGTTCATCTTC
4739420 G
1 G
4739421 ACTCGTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.20, T:0.48
Consensus pattern (12 bp):
GTGTTCATCTTC
Found at i:4744241 original size:20 final size:21
Alignment explanation
Indices: 4744218--4744295 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 21
4744208 TTTTTGAAAG
*
4744218 CAAAAATGGA-TTTTAAAAAA
1 CAAAAATGAAGTTTTAAAAAA
4744238 C-AAAATGAAGTTTTAAGAAAA
1 CAAAAATGAAGTTTTAA-AAAA
* * * *
4744259 -AAAATTTGAACTTTCAAAAAT
1 CAAAA-ATGAAGTTTTAAAAAA
* *
4744280 CAAAATTGAAGATTTA
1 CAAAAATGAAGTTTTA
4744296 GAGGAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 7 0.16
20 7 0.16
21 18 0.40
22 13 0.29
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.28
Consensus pattern (21 bp):
CAAAAATGAAGTTTTAAAAAA
Found at i:4744242 original size:19 final size:20
Alignment explanation
Indices: 4744219--4744263 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4744209 TTTTGAAAGC
*
4744219 AAAAATGGA-TTTTAA-AAA
1 AAAAATGAAGTTTTAAGAAA
4744237 ACAAAATGAAGTTTTAAGAAA
1 A-AAAATGAAGTTTTAAGAAA
4744258 AAAAAT
1 AAAAAT
4744264 TTGAACTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 7 0.30
20 11 0.48
21 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAAATGAAGTTTTAAGAAA
Found at i:4744268 original size:22 final size:20
Alignment explanation
Indices: 4744228--4744295 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
4744218 CAAAAATGGA
4744228 TTTTAAAAAACAAAATGAAG
1 TTTTAAAAAACAAAATGAAG
*
4744248 TTTTAAGAAAA-AAAATTTGAAC
1 TTTTAA-AAAACAAAA--TGAAG
* *
4744270 TTTCAAAAATCAAAATTGAAG
1 TTTTAAAAAACAAAA-TGAAG
*
4744291 ATTTA
1 TTTTA
4744296 GAGGAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
20 10 0.26
21 15 0.39
22 13 0.34
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (20 bp):
TTTTAAAAAACAAAATGAAG
Found at i:4746326 original size:19 final size:19
Alignment explanation
Indices: 4746302--4746372 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
4746292 AATGCATTTG
4746302 ATGCATCGATGCACCATCC
1 ATGCATCGATGCACCATCC
4746321 ATGCATCGATGCACCATCC
1 ATGCATCGATGCACCATCC
4746340 ATGCATCGATGCACCATCC
1 ATGCATCGATGCACCATCC
4746359 ATGCATCGATGCAC
1 ATGCATCGATGCAC
4746373 TCTGGCTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGCATCGATGCACCATCC
Found at i:4752927 original size:19 final size:17
Alignment explanation
Indices: 4752899--4752957 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
4752889 CGAAAACCAA
*
4752899 ATATATTATAT-ATATAT
1 ATATATAATATAATA-AT
4752916 ATATATAATATAACGTAAT
1 ATATATAATATAA--TAAT
4752935 ATATATACATATAATACAT
1 ATATATA-ATATAATA-AT
4752954 ATAT
1 ATAT
4752958 GTATTATGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 10 0.28
18 3 0.08
19 15 0.42
20 8 0.22
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATATAATATAATAAT
Found at i:4752953 original size:9 final size:10
Alignment explanation
Indices: 4752905--4752957 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
4752895 CCAAATATAT
*
4752905 TATATATATA
1 TATATATACA
4752915 TATATATA-A
1 TATATATACA
4752924 TATA-ACGTA-A
1 TATATA--TACA
4752934 TATATATACA
1 TATATATACA
4752944 TATA-ATACA
1 TATATATACA
4752953 TATAT
1 TATAT
4752958 GTATTATGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
8 1 0.03
9 16 0.42
10 20 0.53
11 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (10 bp):
TATATATACA
Found at i:4753696 original size:22 final size:21
Alignment explanation
Indices: 4753649--4753702 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
4753639 AAAATTAATC
*
4753649 AAATAATATATTAATATGATTA
1 AAATAATA-ATTAATATAATTA
* *
4753671 AAATAATAATTATTATTAATTT
1 AAATAATAATTAATA-TAATTA
4753693 AAATATATAA
1 AAATA-ATAA
4753703 AAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
23 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATAATAATTAATATAATTA
Found at i:4753717 original size:26 final size:26
Alignment explanation
Indices: 4753688--4753743 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
4753678 AATTATTATT
*
4753688 AATTTAAATATATAAAAATAAAA-TAA
1 AATTGAAATATA-AAAAATAAAATTAA
* * *
4753714 AATTGCAATGTAATAAATAAAATTAA
1 AATTGAAATATAAAAAATAAAATTAA
4753740 AATT
1 AATT
4753744 ATATGATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (26 bp):
AATTGAAATATAAAAAATAAAATTAA
Found at i:4754559 original size:25 final size:24
Alignment explanation
Indices: 4754531--4754595 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
4754521 TTGTATCTTG
4754531 TTTCTGTTTTTTATTT-TTTTTTCT
1 TTTCTGTTTTTT-TTTCTTTTTTCT
4754555 CTTTCTGTTTTTTTTTCTTTTTTCT
1 -TTTCTGTTTTTTTTTCTTTTTTCT
*
4754580 TTTCT-TTTGTTTTTCT
1 TTTCTGTTTTTTTTTCT
4754596 CTGCTCTCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
23 10 0.26
24 8 0.21
25 20 0.53
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.82
Consensus pattern (24 bp):
TTTCTGTTTTTTTTTCTTTTTTCT
Found at i:4754566 original size:44 final size:44
Alignment explanation
Indices: 4754518--4754618 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
4754508 TTTGGTATTT
* * *
4754518 TTTTTGTATCTTGTTTCTGTTT-TTTATTTTTTTTTCT-CTTTCTG
1 TTTTTGTATCTTGTTTCT-TTTCTTT-TGTTTTTCTCTGCTCTCTG
* * *
4754562 TTTTTTTTTCTTTTTTCTTTTCTTTTGTTTTTCTCTGCTCTCTG
1 TTTTTGTATCTTGTTTCTTTTCTTTTGTTTTTCTCTGCTCTCTG
*
4754606 TTTCTGTATCTTG
1 TTTTTGTATCTTG
4754619 GTTGCTCCCC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
43 12 0.27
44 33 0.73
ACGTcount: A:0.03, C:0.15, G:0.09, T:0.73
Consensus pattern (44 bp):
TTTTTGTATCTTGTTTCTTTTCTTTTGTTTTTCTCTGCTCTCTG
Found at i:4754577 original size:28 final size:27
Alignment explanation
Indices: 4754537--4754593 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
4754527 CTTGTTTCTG
4754537 TTTTTTATTTTTT-TTTCTCTTTCTGTTT
1 TTTTTTATTTTTTCTTT-TCTTT-TGTTT
*
4754565 TTTTTTCTTTTTTCTTTTCTTTTGTTT
1 TTTTTTATTTTTTCTTTTCTTTTGTTT
4754592 TT
1 TT
4754594 CTCTGCTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.26
28 17 0.63
29 3 0.11
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.84
Consensus pattern (27 bp):
TTTTTTATTTTTTCTTTTCTTTTGTTT
Found at i:4754587 original size:19 final size:19
Alignment explanation
Indices: 4754531--4754579 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
4754521 TTGTATCTTG
4754531 TTTCTGTTTTT-TATTTTTT
1 TTTCT-TTTTTCTATTTTTT
* *
4754550 TTTC-TCTTTCTGTTTTTT
1 TTTCTTTTTTCTATTTTTT
4754568 TTTCTTTTTTCT
1 TTTCTTTTTTCT
4754580 TTTCTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTCTTTTTTCTATTTTTT
Found at i:4754593 original size:11 final size:11
Alignment explanation
Indices: 4754531--4754595 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 11
4754521 TTGTATCTTG
4754531 TTTCTGTTTTTT
1 TTTCT-TTTTTT
4754543 ATTT-TTTTTTCT
1 -TTTCTTTTTT-T
4754555 CTTTCTGTTTTTT
1 -TTTCT-TTTTTT
4754568 TTTCTTTTTTCT
1 TTTCTTTTTT-T
*
4754580 TTTCTTTTGTT
1 TTTCTTTTTTT
4754591 TTTCT
1 TTTCT
4754596 CTGCTCTCTG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
11 16 0.35
12 20 0.43
13 5 0.11
14 5 0.11
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:4755039 original size:3 final size:3
Alignment explanation
Indices: 4755031--4755161 Score: 104
Period size: 3 Copynumber: 42.7 Consensus size: 3
4755021 TTATTTATTA
* *
4755031 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* *** ** * *
4755078 AAT AAT AAT -TT GGG CCT -GT AAT ATAT AAT AAAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT -AAT AAT AAT AAT AAT
*
4755123 AAC AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
4755162 ATATATAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
2 2 0.02
3 88 0.84
4 15 0.14
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:4755061 original size:19 final size:17
Alignment explanation
Indices: 4755032--4755157 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 17
4755022 TATTTATTAA
4755032 ATAATAATAATATATAAT
1 ATAATAATAATA-ATAAT
*
4755050 ATTAATATTAATAATAAAT
1 A-TAATAATAATAAT-AAT
4755069 AATAATAATAATAATAAT
1 -ATAATAATAATAATAAT
* ** *
4755087 TTGGGCCT-GTAATATATAAT
1 AT---AATAATAATA-ATAAT
*
4755107 A-AATAATAATATTAAT
1 ATAATAATAATAATAAT
*
4755123 AACAATAATAATAATAA-
1 -ATAATAATAATAATAAT
4755140 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
4755157 A
1 A
4755158 ATAAATATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
16 20 0.24
17 8 0.10
18 19 0.23
19 30 0.36
20 7 0.08
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:4755164 original size:22 final size:21
Alignment explanation
Indices: 4755031--4755161 Score: 104
Period size: 22 Copynumber: 6.1 Consensus size: 21
4755021 TTATTTATTA
*
4755031 AATAATAATAATATATAATATT
1 AATAATAATAATA-ATAATAAT
*
4755053 AATATTAATAATAAATAATAAT
1 AATAATAATAAT-AATAATAAT
* *****
4755075 AATAATAATAAT-TTGGGCCT
1 AATAATAATAATAATAATAAT
*
4755095 -GTAATATATAATAAATAATAAT
1 AATAATA-ATAAT-AATAATAAT
* *
4755117 ATTAATAACAATAATAATAAT
1 AATAATAATAATAATAATAAT
4755138 AAATAATAATAATAATAATAAT
1 -AATAATAATAATAATAATAAT
4755160 AA
1 AA
4755162 ATATATAAAT
Statistics
Matches: 83, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
19 5 0.06
20 7 0.08
21 11 0.13
22 54 0.65
23 6 0.07
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
AATAATAATAATAATAATAAT
Found at i:4755171 original size:8 final size:7
Alignment explanation
Indices: 4755096--4755173 Score: 70
Period size: 7 Copynumber: 10.4 Consensus size: 7
4755086 TTTGGGCCTG
*
4755096 TAATATA
1 TAATAAA
4755103 TAATAAA
1 TAATAAA
4755110 TAATAATA
1 TAATAA-A
4755118 TTAATAACAA
1 -TAAT-A-AA
4755128 TAAT-AA
1 TAATAAA
4755134 TAATAAA
1 TAATAAA
4755141 TAAT-AA
1 TAATAAA
4755147 TAATAATAA
1 TAAT-A-AA
4755156 TAATAAA
1 TAATAAA
4755163 TATATAAA
1 TA-ATAAA
4755171 TAA
1 TAA
4755174 AATGGGTAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 18
0.76 0.01 0.22
Matches are distributed among these distances:
6 12 0.20
7 23 0.38
8 9 0.15
9 14 0.23
10 2 0.03
11 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:4755574 original size:73 final size:73
Alignment explanation
Indices: 4755510--4756030 Score: 961
Period size: 73 Copynumber: 7.1 Consensus size: 73
4755500 TTTCTTTTTT
*
4755510 GAGTGAAACTGTCTCGAGCAAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
4755575 GTTGTTTC
66 GTTGTTTC
4755583 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
4755648 GTTGTTTC
66 GTTGTTTC
* * *
4755656 GAATGAAATTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGCGAGATAAATT
1 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
4755721 GTTGTTTC
66 GTTGTTTC
4755729 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
4755794 GTTGTTTC
66 GTTGTTTC
4755802 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
4755867 GTTGTTTC
66 GTTGTTTC
4755875 GAGTGAAACTGTCTCGAGCGAGACAAATTTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
1 GAGTGAAACTGTCTCGAGCGAGACAAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
4755940 TGTTGTTTC
65 TGTTGTTTC
4755949 GAGTGAAACTGTCTCGAGCGAGACAAATTTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
1 GAGTGAAACTGTCTCGAGCGAGACAAA-TTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
* *
4756014 TGCTATTTC
65 TGTTGTTTC
*
4756023 GAGGGAAA
1 GAGTGAAA
4756031 ATGTTTACTA
Statistics
Matches: 437, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
73 312 0.71
74 125 0.29
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (73 bp):
GAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
GTTGTTTC
Found at i:4757433 original size:55 final size:54
Alignment explanation
Indices: 4757255--4757512 Score: 303
Period size: 55 Copynumber: 4.8 Consensus size: 54
4757245 TAACTGGTTC
* * * * * * *
4757255 GTAAAACATTTGACAACACATTCTTCA-TCTCATGTGGTTTCAGTTCAGATGTTT
1 GTAAAGCATTTGACAACACATTCATCATTTTC-TGTGGCTTCTGCTCAGATATTT
* *
4757309 GTAAAGCATTTGACAACACATTCATTA-TCTCATGTGGCTTCTGCTCA-A-A--T
1 GTAAAGCATTTGACAACACATTCATCATTTTC-TGTGGCTTCTGCTCAGATATTT
* *
4757359 GTAAAACATTTGACAACACATTCATCATTTTCTGTAGCTTCTGCTCATGATATTT
1 GTAAAGCATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCA-GATATTT
* *
4757414 GTAAAGCATTTGACAACACATTCATCATTTTCTGTAGCTTCTGCTCATGATGTTT
1 GTAAAGCATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCA-GATATTT
* *
4757469 GTAAAGCATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGC
1 GTAAAGCATTTGACAACACATTCATCATTTTCTGTGGCTTCTGC
4757513 CAAGATTTCT
Statistics
Matches: 182, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
50 40 0.22
51 3 0.02
52 1 0.01
53 2 0.01
54 41 0.23
55 95 0.52
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (54 bp):
GTAAAGCATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCAGATATTT
Found at i:4757436 original size:105 final size:106
Alignment explanation
Indices: 4757255--4757512 Score: 308
Period size: 105 Copynumber: 2.4 Consensus size: 106
4757245 TAACTGGTTC
* * * * * *
4757255 GTAAAACATTTGACAACACATTCTTCA-TCTCATGTGGTTTCAGTTCAGATGTTTGTAAAGCATT
1 GTAAAACATTTGACAACACATTCATCATTTTC-TGTGGCTTCTGCTCAGATATTTGTAAAGCATT
* *
4757319 TGACAACACATTCATTA-TCTCATGTGGCTTCTGCTCA-A-AT
65 TGACAACACATTCATCATTCTC-TGTAGCTTCTGCTCAGATAT
*
4757359 GTAAAACATTTGACAACACATTCATCATTTTCTGTAGCTTCTGCTCATGATATTTGTAAAGCATT
1 GTAAAACATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCA-GATATTTGTAAAGCATT
* *
4757424 TGACAACACATTCATCATTTTCTGTAGCTTCTGCTCATGATGTTT
65 TGACAACACATTCATCATTCTCTGTAGCTTCTGCTCA-GA--TAT
* * *
4757469 GTAAAGCATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGC
1 GTAAAACATTTGACAACACATTCATCATTTTCTGTGGCTTCTGC
4757513 CAAGATTTCT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
104 37 0.28
105 49 0.37
106 3 0.02
107 1 0.01
110 41 0.31
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (106 bp):
GTAAAACATTTGACAACACATTCATCATTTTCTGTGGCTTCTGCTCAGATATTTGTAAAGCATTT
GACAACACATTCATCATTCTCTGTAGCTTCTGCTCAGATAT
Found at i:4764149 original size:14 final size:14
Alignment explanation
Indices: 4764130--4764156 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4764120 AATACGAACG
4764130 TAAAAATGCAAATA
1 TAAAAATGCAAATA
4764144 TAAAAATGCAAAT
1 TAAAAATGCAAAT
4764157 TGTGCAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
TAAAAATGCAAATA
Found at i:4766537 original size:25 final size:22
Alignment explanation
Indices: 4766485--4766555 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 22
4766475 AATTTAATAC
*
4766485 TTGAAAATAAAATAATAAATAT
1 TTGAAAATAAAATAATAAAAAT
4766507 TATGAAAATAATAAATAATAAAAAGT
1 T-TGAAAAT-A-AAATAATAAAAA-T
*
4766533 TTG-AAATAAAAGAATTAAAAAT
1 TTGAAAATAAAATAA-TAAAAAT
4766555 T
1 T
4766556 AAATAAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
22 8 0.19
23 14 0.33
24 5 0.12
25 13 0.31
26 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
TTGAAAATAAAATAATAAAAAT
Found at i:4767344 original size:22 final size:21
Alignment explanation
Indices: 4767297--4767350 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
4767287 AAAATTAATC
*
4767297 AAATAATATATTAATATGATTA
1 AAATAATA-ATTAATATAATTA
* *
4767319 AAATAATAATTATTATTAATTT
1 AAATAATAATTAATA-TAATTA
4767341 AAATATATAA
1 AAATA-ATAA
4767351 CAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
23 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATAATAATTAATATAATTA
Found at i:4768192 original size:22 final size:19
Alignment explanation
Indices: 4768180--4768230 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
4768170 TTGTATCTTG
4768180 TTTCTGTTTTTTTTTTCTC
1 TTTCTGTTTTTTTTTTCTC
4768199 TTTCTG-TTTTTTTTTCT-
1 TTTCTGTTTTTTTTTTCTC
*
4768216 TTTCTCTTTTCTTTT
1 TTTCTGTTTT-TTTT
4768231 GTTTTTCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.17
18 14 0.48
19 10 0.34
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTCTGTTTTTTTTTTCTC
Found at i:4768218 original size:23 final size:23
Alignment explanation
Indices: 4768186--4768238 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
4768176 CTTGTTTCTG
4768186 TTTTTT-TTTTCTC-TTTCTGTTT
1 TTTTTTCTTTTCTCTTTTCT-TTT
4768208 TTTTTTCTTTTCTCTTTTCTTTT
1 TTTTTTCTTTTCTCTTTTCTTTT
*
4768231 GTTTTTCT
1 TTTTTTCT
4768239 CTGCTCTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 6 0.21
23 17 0.61
24 5 0.18
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (23 bp):
TTTTTTCTTTTCTCTTTTCTTTT
Found at i:4768219 original size:17 final size:17
Alignment explanation
Indices: 4768180--4768235 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
4768170 TTGTATCTTG
4768180 TTTCTGTTTTTTTTTTCT
1 TTTCTG-TTTTTTTTTCT
4768198 CTTTCTGTTTTTTTTTCT
1 -TTTCTGTTTTTTTTTCT
* * *
4768216 TTTCTCTTTTCTTTTGT
1 TTTCTGTTTTTTTTTCT
4768233 TTT
1 TTT
4768236 TCTCTGCTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 17 0.50
18 11 0.32
19 6 0.18
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTCTGTTTTTTTTTCT
Found at i:4768245 original size:23 final size:24
Alignment explanation
Indices: 4768180--4768245 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 24
4768170 TTGTATCTTG
4768180 TTTCTGTTT-TTTTT-T-T-CTC-
1 TTTCTGTTTGTTTTTCTCTGCTCT
* * *
4768199 TTTCTGTTTTTTTTTCTTTTCTCT
1 TTTCTGTTTGTTTTTCTCTGCTCT
4768223 TTTCT-TTTGTTTTTCTCTGCTCT
1 TTTCTGTTTGTTTTTCTCTGCTCT
4768246 CTGTTTCTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.23
20 5 0.13
21 1 0.03
22 1 0.03
23 18 0.46
24 5 0.13
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTCTGTTTGTTTTTCTCTGCTCT
Found at i:4768682 original size:3 final size:3
Alignment explanation
Indices: 4768674--4768819 Score: 141
Period size: 3 Copynumber: 46.7 Consensus size: 3
4768664 TTATTTATTA
* *
4768674 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* ** ** *
4768721 AAT AAT AAT AAT -TT GGGCT TGT AAT ATAT AAT AAAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT --AAT AAT AAT A-AT AAT -AAT AAT AAT AAT AAT
*
4768769 AAC AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4768815 AAT AA
1 AAT AA
4768820 ATATATAAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
2 1 0.01
3 104 0.86
4 15 0.12
5 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:4768829 original size:8 final size:7
Alignment explanation
Indices: 4768742--4768831 Score: 86
Period size: 6 Copynumber: 13.4 Consensus size: 7
4768732 TTTGGGCTTG
*
4768742 TAATATA
1 TAATAAA
4768749 TAATAAA
1 TAATAAA
4768756 TAATAATA
1 TAATAA-A
4768764 TTAAT-AA
1 -TAATAAA
*
4768771 CAAT-AA
1 TAATAAA
4768777 TAATAAA
1 TAATAAA
4768784 TAAT-AA
1 TAATAAA
4768790 TAAT-AA
1 TAATAAA
4768796 TAAT-AA
1 TAATAAA
4768802 TAAT-AA
1 TAATAAA
4768808 TAAT-AA
1 TAATAAA
4768814 TAATAAA
1 TAATAAA
4768821 TATATAAA
1 TA-ATAAA
4768829 TAA
1 TAA
4768832 AATGGGTAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
6 38 0.51
7 24 0.32
8 9 0.12
9 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:4769775 original size:23 final size:22
Alignment explanation
Indices: 4769739--4769789 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
4769729 CTAACCAAAA
*
4769739 AACTACTGCTAACAAATC-AACT
1 AACTACTGATAACAAA-CAAACT
4769761 AACTATCTGATAACAAACAAACT
1 AACTA-CTGATAACAAACAAACT
4769784 AACTAC
1 AACTAC
4769790 AAGATGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (22 bp):
AACTACTGATAACAAACAAACT
Found at i:4774316 original size:23 final size:23
Alignment explanation
Indices: 4774281--4774330 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
4774271 CTAACCAAAA
*
4774281 AACT-ACTGCTAACAAATC-AACT
1 AACTAACTGATAACAAA-CAAACT
4774303 AACTAACTGATAACAAACAAACT
1 AACTAACTGATAACAAACAAACT
4774326 AACTA
1 AACTA
4774331 CAAGTTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.52, C:0.24, G:0.04, T:0.20
Consensus pattern (23 bp):
AACTAACTGATAACAAACAAACT
Found at i:4774327 original size:19 final size:19
Alignment explanation
Indices: 4774264--4774329 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
4774254 GCTATAAAGT
4774264 TAACTGACTAACCAAA-AAAC
1 TAACTGA-TAA-CAAACAAAC
*
4774284 T-ACTGCTAACAAATCAACTAAC
1 TAACTGATAACAAA-C-A--AAC
4774306 TAACTGATAACAAACAAAC
1 TAACTGATAACAAACAAAC
4774325 TAACT
1 TAACT
4774330 ACAAGTTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
17 4 0.11
18 3 0.08
19 12 0.32
20 2 0.05
21 1 0.03
22 5 0.13
23 11 0.29
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.20
Consensus pattern (19 bp):
TAACTGATAACAAACAAAC
Found at i:4776047 original size:32 final size:33
Alignment explanation
Indices: 4776011--4776088 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
4776001 TCTGAATGGT
4776011 TATATTTTTTATTATCGGTTCGATTAACTC-A-A
1 TATATTTTTTATTAT-GGTTCGATTAACTCAACA
4776043 TATATTTTTTCA-T-TGGTTCGATTAACTCAACA
1 TATATTTTTT-ATTATGGTTCGATTAACTCAACA
*
4776075 TATATTTTTCATTA
1 TATATTTTTTATTA
4776089 ATATAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 14 0.35
31 3 0.08
32 22 0.55
33 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (33 bp):
TATATTTTTTATTATGGTTCGATTAACTCAACA
Found at i:4776063 original size:30 final size:31
Alignment explanation
Indices: 4776027--4776087 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
4776017 TTTTATTATC
*
4776027 GGTTCGATTAACTCAATATAT-TTTTTCATT
1 GGTTCGATTAACTCAACATATATTTTTCATT
4776057 GGTTCGATTAACTCAACATATATTTTTCATT
1 GGTTCGATTAACTCAACATATATTTTTCATT
4776088 AATATAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 20 0.69
31 9 0.31
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.48
Consensus pattern (31 bp):
GGTTCGATTAACTCAACATATATTTTTCATT
Found at i:4776833 original size:20 final size:19
Alignment explanation
Indices: 4776800--4776849 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4776790 TGAATGAGTA
*
4776800 TCGATACTCAACCACCGGTC
1 TCGATACTGAACCA-CGGTC
* *
4776820 TCGATACTGGACCATGGTC
1 TCGATACTGAACCACGGTC
*
4776839 TCGAGACTGAA
1 TCGATACTGAA
4776850 AAGCCTTCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGATACTGAACCACGGTC
Found at i:4777257 original size:15 final size:16
Alignment explanation
Indices: 4777215--4777248 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4777205 TCCCCCTAAG
*
4777215 TAAAATAATTTTTGGC
1 TAAAACAATTTTTGGC
4777231 TAAAACAATTTTTGGC
1 TAAAACAATTTTTGGC
4777247 TA
1 TA
4777249 GTAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (16 bp):
TAAAACAATTTTTGGC
Found at i:4782795 original size:21 final size:21
Alignment explanation
Indices: 4782775--4782813 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4782765 CATTACAAGA
*
4782775 ATTT-ATGGCCTCGACAAAAG
1 ATTTCATGGCCTCAACAAAAG
*
4782795 ATTTCATGGCTTCAACAAA
1 ATTTCATGGCCTCAACAAA
4782814 GACTTTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (21 bp):
ATTTCATGGCCTCAACAAAAG
Found at i:4788481 original size:10 final size:10
Alignment explanation
Indices: 4788468--4788496 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
4788458 AAAACCCACT
4788468 AAAAAATGAA
1 AAAAAATGAA
4788478 AAAAAATG-A
1 AAAAAATGAA
4788487 AAAAAATGAA
1 AAAAAATGAA
4788497 GTTGTGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:4799425 original size:15 final size:15
Alignment explanation
Indices: 4799405--4799435 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4799395 TTTAGTTTCC
*
4799405 TCATCATCATTGTTG
1 TCATCATCATCGTTG
4799420 TCATCATCATCGTTG
1 TCATCATCATCGTTG
4799435 T
1 T
4799436 TACCATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (15 bp):
TCATCATCATCGTTG
Found at i:4800405 original size:18 final size:18
Alignment explanation
Indices: 4800386--4800471 Score: 127
Period size: 18 Copynumber: 4.6 Consensus size: 18
4800376 TATTTATCCC
*
4800386 GAAGGACCACTATGTCCC
1 GAAGGACCACTATGTCCT
4800404 GAAGGACCACTGATTTGTCCT
1 GAAGGACCACT-A--TGTCCT
4800425 GAAGGACCACTATGTCCT
1 GAAGGACCACTATGTCCT
*
4800443 GAAGGACCACTATGTACT
1 GAAGGACCACTATGTCCT
4800461 GAAGGACCACT
1 GAAGGACCACT
4800472 CCATAAGAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
18 45 0.71
19 1 0.02
20 1 0.02
21 16 0.25
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (18 bp):
GAAGGACCACTATGTCCT
Found at i:4800429 original size:39 final size:38
Alignment explanation
Indices: 4800376--4800471 Score: 133
Period size: 39 Copynumber: 2.6 Consensus size: 38
4800366 GGGCACTGTA
* *
4800376 TATTTATCCCGAAGGACCACTATGTCCCGAAGGACCAC
1 TATTTGTCCTGAAGGACCACTATGTCCCGAAGGACCAC
*
4800414 TGATTTGTCCTGAAGGACCACTATGTCCTGAAGGACCAC
1 T-ATTTGTCCTGAAGGACCACTATGTCCCGAAGGACCAC
*
4800453 TA--TGTACTGAAGGACCACT
1 TATTTGTCCTGAAGGACCACT
4800472 CCATAAGAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
36 16 0.30
38 2 0.04
39 35 0.66
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (38 bp):
TATTTGTCCTGAAGGACCACTATGTCCCGAAGGACCAC
Found at i:4805055 original size:18 final size:18
Alignment explanation
Indices: 4805032--4805096 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
4805022 TTATCCTGAA
4805032 GGACCACTATGTCCCGAT
1 GGACCACTATGTCCCGAT
*
4805050 GGACCATTGATTTGTCCCGAAT
1 GGACCACT-A--TGTCCCG-AT
*
4805072 -GACCACTATGTCCCGAA
1 GGACCACTATGTCCCGAT
4805089 GGACCACT
1 GGACCACT
4805097 CCTTAAAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 21 0.54
19 1 0.03
20 1 0.03
21 13 0.33
22 2 0.05
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (18 bp):
GGACCACTATGTCCCGAT
Found at i:4812510 original size:24 final size:24
Alignment explanation
Indices: 4812478--4812525 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4812468 AAGAAACTAT
4812478 ATGAGTCGTAAGACAATCAACAAC
1 ATGAGTCGTAAGACAATCAACAAC
4812502 ATGAGTCGTAAGACAATCAACAAC
1 ATGAGTCGTAAGACAATCAACAAC
4812526 CTAAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.17
Consensus pattern (24 bp):
ATGAGTCGTAAGACAATCAACAAC
Found at i:4813456 original size:15 final size:15
Alignment explanation
Indices: 4813438--4813467 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4813428 CGGCCAACTC
*
4813438 TTTATTTCCATTTAA
1 TTTACTTCCATTTAA
4813453 TTTACTTCCATTTAA
1 TTTACTTCCATTTAA
4813468 CCATTCTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTACTTCCATTTAA
Found at i:4815408 original size:2 final size:2
Alignment explanation
Indices: 4815403--4815431 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4815393 TATATATATA
4815403 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4815432 AATAATATGT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4815798 original size:41 final size:41
Alignment explanation
Indices: 4815741--4815845 Score: 165
Period size: 41 Copynumber: 2.6 Consensus size: 41
4815731 TATGCTTCAC
4815741 TGCTCTTTAGGGTAGGTCAAATCAAGATAGATTTGCTCTAT
1 TGCTCTTTAGGGTAGGTCAAATCAAGATAGATTTGCTCTAT
* *
4815782 TGCTCTTTAGGGTAGGTCAGATCAAGATAGATTTGCTTTAT
1 TGCTCTTTAGGGTAGGTCAAATCAAGATAGATTTGCTCTAT
* * *
4815823 TTCTCTTCAAGGTAGGTCAAATC
1 TGCTCTTTAGGGTAGGTCAAATC
4815846 TAGAGAAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (41 bp):
TGCTCTTTAGGGTAGGTCAAATCAAGATAGATTTGCTCTAT
Found at i:4817951 original size:19 final size:19
Alignment explanation
Indices: 4817927--4818015 Score: 90
Period size: 19 Copynumber: 4.4 Consensus size: 19
4817917 TTCTCTTGCA
*
4817927 AGGGTATCGGTACCTCTAT
1 AGGGTATCGATACCTCTAT
4817946 AGGGTATCGATACCTCTAT
1 AGGGTATCGATACCTCTAT
* *
4817965 AGGGTATCTGTAAATCC-CTTCAC
1 AGGGTATC-G-ATA-CCTC-T-AT
4817988 AGAGGTATCGATACCTCTAT
1 AG-GGTATCGATACCTCTAT
4818008 AGGGTATC
1 AGGGTATC
4818016 TGTACATCCC
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
19 32 0.55
20 4 0.07
21 6 0.10
22 6 0.10
23 4 0.07
24 6 0.10
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (19 bp):
AGGGTATCGATACCTCTAT
Found at i:4818045 original size:24 final size:24
Alignment explanation
Indices: 4817978--4818045 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
4817968 GTATCTGTAA
4817978 ATCCCTTCACAGAGGTATCGATAC
1 ATCCCTTCACAGAGGTATCGATAC
* *
4818002 --CTC-T-ATAG-GGTATCTG-TAC
1 ATCCCTTCACAGAGGTATC-GATAC
4818021 ATCCCTTCACAGAGGTATCGATAC
1 ATCCCTTCACAGAGGTATCGATAC
4818045 A
1 A
4818046 CTGCCTAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
19 9 0.27
20 4 0.12
21 3 0.09
22 3 0.09
23 4 0.12
24 10 0.30
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (24 bp):
ATCCCTTCACAGAGGTATCGATAC
Found at i:4818058 original size:43 final size:43
Alignment explanation
Indices: 4817948--4818044 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
4817938 ACCTCTATAG
4817948 GGTATCGATACCTCTATAGGGTATCTGTAAATCCCTTCACAGA
1 GGTATCGATACCTCTATAGGGTATCTGTAAATCCCTTCACAGA
*
4817991 GGTATCGATACCTCTATAGGGTATCTGTACATCCCTTCACAGA
1 GGTATCGATACCTCTATAGGGTATCTGTAAATCCCTTCACAGA
4818034 GGTATCGATAC
1 GGTATCGATAC
4818045 ACTGCCTAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
GGTATCGATACCTCTATAGGGTATCTGTAAATCCCTTCACAGA
Found at i:4819065 original size:92 final size:90
Alignment explanation
Indices: 4818915--4819253 Score: 324
Period size: 92 Copynumber: 3.7 Consensus size: 90
4818905 TTCCTCTTTA
* * *
4818915 AGGTAGGTCAAATCTAAAGAAAATAAAGGGA-ATGTTCTTTACTGCTCTCCAGGGTAGGTCAGAT
1 AGGTAGGTCAAATCTAAAGAAAAAAAAAGGATATG--CTTTACTGCTCTCTAGGGTAGGTCAGAT
* *
4818979 CGGGGTATATTTGCTCCGCTACTATTC
64 CGGGGTATATTTGCTCCACTACTATTT
** * * *
4819006 ATGGTAGGTCAAATCTAAAGAAAAAAATAAGGATATGCTTTGTTTCTCTTTAGGATAGGTCAGAT
1 A-GGTAGGTCAAATCTAAAGAAAAAAA-AAGGATATGCTTTACTGCTCTCTAGGGTAGGTCAGAT
* * * *
4819071 CGGGGTAGATTTGCTCCATTTCTGTTT
64 CGGGGTATATTTGCTCCACTACTATTT
* ** * * * *
4819098 AGGATAGGTCAAATCTAGAGAAAATAAAGGGGATGTGCTCTACTGCTCTCTAGGGTAGTTCATAT
1 AGG-TAGGTCAAATCTAAAGAAAA-AAAAAGGATATGCTTTACTGCTCTCTAGGGTAGGTCAGAT
* **
4819163 CGGGGTATAATTATTCCACTACTATTT
64 CGGGGTATATTTGCTCCACTACTATTT
* * * *
4819190 AGGGTAGGTCAAATCTAGAGAAAAAAAGAGGATATG-TTCTATTGCTCT-TCAGGGTAAGTCAGA
1 A-GGTAGGTCAAATCTAAAGAAAAAAAAAGGATATGCTT-TACTGCTCTCT-AGGGTAGGTCAGA
4819253 T
63 T
4819254 ATAGATATAA
Statistics
Matches: 200, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
90 2 0.01
91 32 0.16
92 154 0.77
93 9 0.05
94 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (90 bp):
AGGTAGGTCAAATCTAAAGAAAAAAAAAGGATATGCTTTACTGCTCTCTAGGGTAGGTCAGATCG
GGGTATATTTGCTCCACTACTATTT
Found at i:4819201 original size:184 final size:183
Alignment explanation
Indices: 4818892--4819225 Score: 481
Period size: 184 Copynumber: 1.8 Consensus size: 183
4818882 AATGTTACAC
* * *
4818892 TAGATTTGCTCTATTCCTCTTTAAGGTAGGTCAAATCTAAAGAAAATAAAGGGAATGTTCTTTAC
1 TAGATTTGCTCCATTCCTCTTTAAGGTAGGTCAAATCTAAAGAAAATAAAGGGAATGTGCTCTAC
* * * *
4818957 TGCTCTCCAGGGTAGGTCAGATCGGGGTATATTTGCTCCGCTACTATTCATGGTAGGTCAAATCT
66 TGCTCTCCAGGGTAGGTCAGATCGGGGTATAATTACTCCACTACTATTCAGGGTAGGTCAAATCT
4819022 AAAGAAAAAAATAAGGATATGCTTTGTTTCTCTTTAGGATAGGTCAGATCGGGG
131 AAAGAAAAAAA-AAGGATATGCTTTGTTTCTCTTTAGGATAGGTCAGATCGGGG
* * * *
4819076 TAGATTTGCTCCATTTCTGTTT-AGGATAGGTCAAATCTAGAGAAAATAAAGGGGATGTGCTCTA
1 TAGATTTGCTCCATTCCTCTTTAAGG-TAGGTCAAATCTAAAGAAAATAAAGGGAATGTGCTCTA
* * * * *
4819140 CTGCTCTCTAGGGTAGTTCATATCGGGGTATAATTATTCCACTACTATTTAGGGTAGGTCAAATC
65 CTGCTCTCCAGGGTAGGTCAGATCGGGGTATAATTACTCCACTACTATTCAGGGTAGGTCAAATC
* *
4819205 TAGAGAAAAAAAGAGGATATG
130 TAAAGAAAAAAAAAGGATATG
4819226 TTCTATTGCT
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
183 11 0.08
184 120 0.92
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (183 bp):
TAGATTTGCTCCATTCCTCTTTAAGGTAGGTCAAATCTAAAGAAAATAAAGGGAATGTGCTCTAC
TGCTCTCCAGGGTAGGTCAGATCGGGGTATAATTACTCCACTACTATTCAGGGTAGGTCAAATCT
AAAGAAAAAAAAAGGATATGCTTTGTTTCTCTTTAGGATAGGTCAGATCGGGG
Found at i:4819454 original size:51 final size:50
Alignment explanation
Indices: 4819362--4819462 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 50
4819352 AATCTAGAGA
* * * * *
4819362 AAAGAAAAGAAAAAGATATTCTCCACTACTCTTTAGGGTAGGTCGGATCT
1 AAAGAAAAGAAAAAGATATGCCCCACTACTCTTCAGAGTAGGTCAGATCT
* * *
4819412 AAAGAAAAGAAAAGGGATATGCCCCGCTTCTCTTCAGAGTAGGTCAGATCT
1 AAAGAAAAGAAAA-AGATATGCCCCACTACTCTTCAGAGTAGGTCAGATCT
4819463 GAAAATCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 13 0.31
51 29 0.69
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (50 bp):
AAAGAAAAGAAAAAGATATGCCCCACTACTCTTCAGAGTAGGTCAGATCT
Found at i:4820073 original size:76 final size:75
Alignment explanation
Indices: 4819980--4820156 Score: 212
Period size: 76 Copynumber: 2.3 Consensus size: 75
4819970 AGGTTTTTAG
* * * * * * *
4819980 GGAAACAGTCTTTAGGAAGACTAAACTAAGCTTTTTATGATATAAATCC-TAAGAGAGGCAAGAT
1 GGAAACAATCTTAAGGAAGACTAAACTAAGCTTTCTAGGATA-AAAGCCATAAAAGAAGCAAGAT
4820044 TGATGTTTCTA
65 TGATGTTTCTA
* * * *
4820055 GGAAAACAATCTTAAGGAAGACTAAATTGAGCTTTCTAGGATACAAGCCATAAAAGAATCAAGAT
1 GG-AAACAATCTTAAGGAAGACTAAACTAAGCTTTCTAGGATAAAAGCCATAAAAGAAGCAAGAT
4820120 TGATGTTTCTA
65 TGATGTTTCTA
*
4820131 TGGAAACAATCTTAAAGAAGACTAAA
1 -GGAAACAATCTTAAGGAAGACTAAA
4820157 TTGAGATTTC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
75 6 0.07
76 79 0.91
77 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (75 bp):
GGAAACAATCTTAAGGAAGACTAAACTAAGCTTTCTAGGATAAAAGCCATAAAAGAAGCAAGATT
GATGTTTCTA
Found at i:4820093 original size:38 final size:35
Alignment explanation
Indices: 4820042--4820167 Score: 110
Period size: 38 Copynumber: 3.3 Consensus size: 35
4820032 GAGAGGCAAG
4820042 ATTGATGTTTCTAGGAAAACAATCTTAAGGAAGACTAA
1 ATTGA-GTTTCTAGG-AAACAATCTTAA-GAAGACTAA
* * * *
4820080 ATTGAGCTTTCTAGGATACAAGCCATAA-AAGAATCAA
1 ATTGAG-TTTCTAGGAAACAA-TCTTAAGAAGACT-AA
4820117 GATTGATGTTTCTATGGAAACAATCTTAAAGAAGACTAA
1 -ATTGA-GTTTCTA-GGAAACAATCTT-AAGAAGACTAA
4820156 ATTGAGATTTCT
1 ATTGAG-TTTCT
4820168 CAAAAGAGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
36 5 0.07
37 9 0.13
38 40 0.56
39 12 0.17
40 5 0.07
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (35 bp):
ATTGAGTTTCTAGGAAACAATCTTAAGAAGACTAA
Found at i:4821965 original size:13 final size:14
Alignment explanation
Indices: 4821945--4821980 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
4821935 TTTTAAAATT
4821945 ACAAATAAATAATC
1 ACAAATAAATAATC
4821959 A-AAATAAATAATC
1 ACAAATAAATAATC
4821972 ACAAATAAA
1 ACAAATAAA
4821981 AATGATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (14 bp):
ACAAATAAATAATC
Found at i:4823232 original size:179 final size:179
Alignment explanation
Indices: 4822966--4823378 Score: 579
Period size: 177 Copynumber: 2.3 Consensus size: 179
4822956 ATTAAAATTT
* * * *
4822966 GAATAAAATCCTAATAATCATGATCTT-TTT-AATGAG-GATCTTTTAAAATATTTTAAAAATTA
1 GAATAAAATCTTAATAATTACGATATTGTTTAAATGAGTGATCTTTTAAAATATTTTAAAAATTA
4823028 TAACTTTTATAAAAGATAATTGAATCTCCTAATAATTGGGAGTTTTTAAATACGATTTTTTTTAA
66 TAACTTTTATAAAAGATAATTGAATCTCCTAATAATTGGGAGTTTTTAAATACGA--TTTTTTAA
*
4823093 TTAACATCTTTTAATTTAGGATATTTTAGGTTTTTTATTTATTCAA-T-TAA
129 TTAACATCTTTTAATTTAGGATATTTTAGG-TTTCTATTTATTCAATTATAA
* * **
4823143 GAATCAAATTTTAATAATTGTGAATATTGTTTAAATGAGTGATCTTTTAAAATATTTT-AAAATT
1 GAATAAAATCTTAATAATTACG-ATATTGTTTAAATGAGTGATCTTTTAAAATATTTTAAAAATT
* * *
4823207 ATAA-TTTTATAAAAGATAATTGAATCTCCTGATAATTGGGATTTTTTAACTACGATTTTTTAAT
65 ATAACTTTTATAAAAGATAATTGAATCTCCTAATAATTGGGAGTTTTTAAATACGATTTTTTAAT
4823271 TAACATCTTTTAATTTAGGATATTTTAGGTTTCTATTTATTCAATTAAAATAA
130 TAACATCTTTTAATTTAGGATATTTTAGGTTTCTATTTATTCAATT---ATAA
* * *
4823324 GAATAAAATCTTAATAATTACGATATTTTTTTAATGAATGATCTTTTAAAATATT
1 GAATAAAATCTTAATAATTACGATATTGTTTAAATGAGTGATCTTTTAAAATATT
4823379 AATTACCGTC
Statistics
Matches: 210, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
176 14 0.07
177 56 0.27
178 4 0.02
179 51 0.24
180 46 0.22
181 39 0.19
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (179 bp):
GAATAAAATCTTAATAATTACGATATTGTTTAAATGAGTGATCTTTTAAAATATTTTAAAAATTA
TAACTTTTATAAAAGATAATTGAATCTCCTAATAATTGGGAGTTTTTAAATACGATTTTTTAATT
AACATCTTTTAATTTAGGATATTTTAGGTTTCTATTTATTCAATTATAA
Found at i:4823428 original size:15 final size:15
Alignment explanation
Indices: 4823410--4823466 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
4823400 AATATTTTAA
* *
4823410 TATCACTTTTTAAAT
1 TATCATTTTTTAAGT
*
4823425 TATCATTTTTTTAGT
1 TATCATTTTTTAAGT
*
4823440 TATCGTTTTTT-AGT
1 TATCATTTTTTAAGT
4823454 TATCATTTTTTAA
1 TATCATTTTTTAA
4823467 TTACCATCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (15 bp):
TATCATTTTTTAAGT
Found at i:4823436 original size:29 final size:29
Alignment explanation
Indices: 4823404--4823464 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
4823394 ATTTAAAATA
4823404 TTTTA-ATATCACTTTTTAAATTATCATTT
1 TTTTAGATATC-CTTTTTAAATTATCATTT
* * * *
4823433 TTTTAGTTATCGTTTTTTAGTTATCATTT
1 TTTTAGATATCCTTTTTAAATTATCATTT
4823462 TTT
1 TTT
4823465 AATTACCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (29 bp):
TTTTAGATATCCTTTTTAAATTATCATTT
Found at i:4823448 original size:14 final size:14
Alignment explanation
Indices: 4823410--4823465 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
4823400 AATATTTTAA
* *
4823410 TATCACTTTTTAAAT
1 TATCA-TTTTTTAGT
4823425 TATCATTTTTTTAGT
1 TATCA-TTTTTTAGT
*
4823440 TATCGTTTTTTAGT
1 TATCATTTTTTAGT
4823454 TATCATTTTTTA
1 TATCATTTTTTA
4823466 ATTACCATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 20 0.56
15 16 0.44
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.62
Consensus pattern (14 bp):
TATCATTTTTTAGT
Found at i:4823478 original size:29 final size:31
Alignment explanation
Indices: 4823415--4823478 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 31
4823405 TTTAATATCA
* * *
4823415 CTTTTTAAATTATCATTTTTTTAGTTATCGT
1 CTTTTTAAATTATCATTTTTTTAATTACCAT
*
4823446 -TTTTT-AGTTATCA-TTTTTTAATTACCAT
1 CTTTTTAAATTATCATTTTTTTAATTACCAT
4823474 CTTTT
1 CTTTT
4823479 CTTAATTCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 12 0.43
29 11 0.39
30 5 0.18
ACGTcount: A:0.22, C:0.11, G:0.05, T:0.62
Consensus pattern (31 bp):
CTTTTTAAATTATCATTTTTTTAATTACCAT
Found at i:4823485 original size:17 final size:15
Alignment explanation
Indices: 4823416--4823500 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 15
4823406 TTAATATCAC
* *
4823416 TTTTTAAATTATCAT
1 TTTTTTAATTACCAT
* * *
4823431 TTTTTTAGTTATC-G
1 TTTTTTAATTACCAT
* *
4823445 TTTTTTAGTTATCA-
1 TTTTTTAATTACCAT
4823459 TTTTTTAATTACCAT
1 TTTTTTAATTACCAT
*
4823474 CTTTTCTTAATTCCCAT
1 -TTTT-TTAATTACCAT
*
4823491 TTTTTAAATT
1 TTTTTTAATT
4823501 TAAAACATTG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
14 25 0.42
15 16 0.27
16 8 0.14
17 10 0.17
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (15 bp):
TTTTTTAATTACCAT
Found at i:4824683 original size:3 final size:3
Alignment explanation
Indices: 4824675--4824748 Score: 94
Period size: 3 Copynumber: 24.7 Consensus size: 3
4824665 CATATTAATG
* * * * * *
4824675 TAT TAT TAT TAT AAT TAT AAT TAT CAT TAT TAT AAT TAT TAT AAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4824723 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
4824749 AATACATTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:4824898 original size:16 final size:16
Alignment explanation
Indices: 4824877--4824916 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
4824867 CCGCCTCTAA
4824877 TCCAGCCGCCTCTGCC
1 TCCAGCCGCCTCTGCC
*
4824893 TCCAGCCACCTCTGCC
1 TCCAGCCGCCTCTGCC
4824909 TCCA-CCGC
1 TCCAGCCGC
4824917 TGCCACGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.10, C:0.57, G:0.15, T:0.17
Consensus pattern (16 bp):
TCCAGCCGCCTCTGCC
Found at i:4826265 original size:20 final size:20
Alignment explanation
Indices: 4826240--4826279 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4826230 CTAGAAGTCT
*
4826240 TTTTTTGAT-ATTTTTAAATA
1 TTTTTT-ATAATTTTGAAATA
4826260 TTTTTTATAATTTTGAAATA
1 TTTTTTATAATTTTGAAATA
4826280 ATAGGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTTATAATTTTGAAATA
Found at i:4837201 original size:1 final size:1
Alignment explanation
Indices: 4837195--4837259 Score: 85
Period size: 1 Copynumber: 65.0 Consensus size: 1
4837185 ATGCTTGAAG
* * * * *
4837195 AAAAAAAAAAAGATAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4837260 TGGAGGGTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.92, C:0.00, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:4838796 original size:82 final size:82
Alignment explanation
Indices: 4838346--4839040 Score: 1005
Period size: 81 Copynumber: 8.7 Consensus size: 82
4838336 ACATTAACTA
*
4838346 AAGATGAAT-TGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGCAGA
1 AAGATGAATGTGTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
4838409 ACCAATCATTGAATTTAG
65 ACCAATCATTGAATTTAG
* *
4838427 -AGATGAATGTGTTCATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGC-GA
1 AAGATGAATGTG-TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
4838490 ACCAATCATTGAATTTAG
65 ACCAATCATTGAATTTAG
*
4838508 AAGATGAAT-TGCCAATAGCATCTTCTGGAAGTG---TTTGAGTTA-CTGATCTGGTTTGGCAGA
1 AAGATGAATGTGTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
4838568 ACC-ATCATTGAATTTAG
65 ACCAATCATTGAATTTAG
4838585 AAGATGAATGTGTTCATAGCATCTTC-GGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTG-TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
4838649 ACCAATCATTGAATTTAA
65 ACCAATCATTGAATTTAG
*
4838667 AAGA-GAAT-TGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC-GA
1 AAGATGAATGTGTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
4838729 ACCAATCATTGAATTTAG
65 ACCAATCATTGAATTTAG
*
4838747 AAGACGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTG-TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
4838812 ACCAATCATTGAA-TTAG
65 ACCAATCATTGAATTTAG
4838829 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATGTG-TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
4838894 ACC-ATCATTGAATTTAG
65 ACCAATCATTGAATTTAG
* *
4838911 -A-ATGAATGTG-CATAG---CTTCTGGAAGTGTTCTTTGAG-TATCTAATCTGGTTTGGCTGAA
1 AAGATGAATGTGTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
*
4838969 CCAATCATTGAA-TTAA
66 CCAATCATTGAATTTAG
* * * *
4838985 AAGATGAATTTGCCA-A-TATCTTCTGGAA--GTTCTTTGAGTTATTTGATCTGGTTTGG
1 AAGATGAATGTGTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
4839041 TAAGAACTAC
Statistics
Matches: 568, Mismatches: 18, Indels: 60
0.88 0.03 0.09
Matches are distributed among these distances:
74 25 0.04
75 31 0.05
76 19 0.03
77 61 0.11
78 41 0.07
79 2 0.00
80 63 0.11
81 155 0.27
82 155 0.27
83 16 0.03
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (82 bp):
AAGATGAATGTGTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
CCAATCATTGAATTTAG
Found at i:4838932 original size:239 final size:239
Alignment explanation
Indices: 4838360--4839040 Score: 1025
Period size: 239 Copynumber: 2.8 Consensus size: 239
4838350 TGAATTGCCA
4838360 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
4838424 TAGAGATGAATGTGTTCATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCG
66 TAGA-ATGAATGTG-TCAT---AGCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCG
4838489 AACCAATCATTGAATTTAGAAGATGAATTGCCAATAGCATCTTCTGGAAGTG---TTTGAGTTA-
126 AACCAATCATTGAATTTAGAAGATGAATTGCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
4838550 CTGATCTGGTTTGGCAGAACCATCATTGAATTTAGAAGATGAATGTGTTC
190 CTGATCTGGTTTGGCAGAACCATCATTGAATTTAGAAGATGAATGTGTTC
4838600 ATAGCATCTTC-GGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
* * * *
4838664 TAAAAGAGAAT-TGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCG
66 TAGAA-TGAATGTGTC-ATAG---CTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCG
* *
4838728 AACCAATCATTGAATTTAGAAGACGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
126 AACCAATCATTGAATTTAGAAGATGAAT-TG-CCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
4838793 TCTGATCTGGTTTGGCAGAACCAATCATTGAA-TTAGAAGATGAATGTGTTC
189 TCTGATCTGGTTTGGCAGAACC-ATCATTGAATTTAGAAGATGAATGTGTTC
4838844 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC-ATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
4838908 TAGAATGAATGTG-CATAGCTTCTGGAAGTGTTCTTTGAG-TATCTAATCTGGTTTGGCTGAACC
66 TAGAATGAATGTGTCATAGCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGC-GAACC
* * *
4838971 AATCATTGAA-TTAAAAGATGAATTTGCCA-A-TATCTTCTGGAA--GTTCTTTGAGTTATTTGA
130 AATCATTGAATTTAGAAGATGAA-TTGCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
4839031 TCTGGTTTGG
194 TCTGGTTTGG
4839041 TAAGAACTAC
Statistics
Matches: 410, Mismatches: 14, Indels: 41
0.88 0.03 0.09
Matches are distributed among these distances:
233 27 0.07
235 11 0.03
236 3 0.01
237 2 0.00
238 30 0.07
239 138 0.34
240 62 0.15
241 1 0.00
242 4 0.01
243 14 0.03
244 68 0.17
245 50 0.12
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (239 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
TAGAATGAATGTGTCATAGCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCGAACCA
ATCATTGAATTTAGAAGATGAATTGCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGCAGAACCATCATTGAATTTAGAAGATGAATGTGTTC
Found at i:4839924 original size:113 final size:113
Alignment explanation
Indices: 4839737--4840158 Score: 535
Period size: 113 Copynumber: 3.6 Consensus size: 113
4839727 TGGATTGACA
* *
4839737 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
*
4839802 AGAATTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
* * *
4839850 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAATAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
*
4839915 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCA
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
*
4839963 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
* * * *
4840027 AGAACTTGTTCAACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAGCATCAGCCT
66 AGAACTTGTTCAACCTTTTACATGAATTC-AT--C------A-ATTGA-T-GGATCAG-CT
* * * * *
4840087 TTTCTAGTGGAAAGTTCATAATGAGAAGAACTCATC-GAAAGAAGGATGAAAAAGTTCATAATGA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTG-AAGAAGGAAGAAGAAGTTCATAATAA
4840151 GAAGAACT
64 GAAGAACT
4840159 CATCAAAAGC
Statistics
Matches: 271, Mismatches: 22, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
111 5 0.02
112 74 0.27
113 115 0.42
114 1 0.00
120 1 0.00
121 4 0.01
122 1 0.00
123 6 0.02
124 7 0.03
125 2 0.01
126 55 0.20
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (113 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAGCT
Done.