Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008011.1 Hibiscus syriacus cultivar Beakdansim tig00110474_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: 1648842
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:805307 original size:26 final size:26
Alignment explanation
Indices: 805227--805300 Score: 139
Period size: 26 Copynumber: 2.8 Consensus size: 26
805217 ATTCCCCATC
*
805227 TTCTTTTTCTTCACTTTTCTTCTTCT
1 TTCTTTCTCTTCACTTTTCTTCTTCT
805253 TTCTTTCTCTTCACTTTTCTTCTTCT
1 TTCTTTCTCTTCACTTTTCTTCTTCT
805279 TTCTTTCTCTTCACTTTTCTTC
1 TTCTTTCTCTTCACTTTTCTTC
805301 ACTTTTCCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (26 bp):
TTCTTTCTCTTCACTTTTCTTCTTCT
Found at i:813927 original size:21 final size:20
Alignment explanation
Indices: 813885--813923 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
813875 AAAAATGTTA
813885 AAAAATATTAATATTTTAGT
1 AAAAATATTAATATTTTAGT
813905 AAAAATATTAATATTTTAG
1 AAAAATATTAATATTTTAG
813924 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAAATATTAATATTTTAGT
Found at i:823537 original size:113 final size:113
Alignment explanation
Indices: 823332--823908 Score: 955
Period size: 113 Copynumber: 5.1 Consensus size: 113
823322 GATACTTATA
* * * * *
823332 ATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTACTTGTTTTGTTATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
823397 TTTGTCATTTTTTTTACCTATTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
823445 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
823510 TTTGTCATTTTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
823558 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
823623 TTTGTCA--TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
823669 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
823734 TTTGTCA-TTTTTTTACCTGTTATATTGTTATAGATAGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
823781 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
823846 TTTGAT-ATTTTTTTTACTTGTTATATTGTTATGCATCAATATATTTTT
66 TTTG-TCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
823894 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
823909 AAACCGACAA
Statistics
Matches: 440, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
111 108 0.25
112 105 0.24
113 227 0.52
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.45
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:824719 original size:34 final size:33
Alignment explanation
Indices: 824643--824749 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 33
824633 GTGGTAAGAA
* *
824643 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
824677 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
824712 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
824746 ATTT
1 ATTT
824750 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 33 0.54
35 9 0.15
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:824731 original size:36 final size:34
Alignment explanation
Indices: 824676--824754 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
824666 TTTAAATAGT
*
824676 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
824708 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
824742 TATTATTTATTTA
1 TATTATTTTTTTA
824755 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:826512 original size:21 final size:21
Alignment explanation
Indices: 826482--826529 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
826472 GCAGGGGTAC
* *
826482 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
826503 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
826524 ATGCCA
1 ATGCCA
826530 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:826559 original size:21 final size:21
Alignment explanation
Indices: 826533--826626 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
826523 TATGCCATCT
* *
826533 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
826554 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
826575 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
*
826596 CTGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
826617 CCGCAGGGTT
1 CCGCAGGGTT
826627 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:827205 original size:33 final size:34
Alignment explanation
Indices: 827146--827242 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
827136 AAATGTTTTT
*
827146 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
827180 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
827213 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
827243 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:827249 original size:34 final size:33
Alignment explanation
Indices: 827144--827249 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
827134 ATAAATGTTT
*
827144 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
827178 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
827210 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
827245 TTAAA
1 TTAAA
827250 TTTTAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:828053 original size:126 final size:126
Alignment explanation
Indices: 827629--828230 Score: 1147
Period size: 126 Copynumber: 4.8 Consensus size: 126
827619 TTTAAGTTAT
* *
827629 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATAGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
827694 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
827755 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
827820 GCGCCCTC-GGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
827880 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
827945 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828006 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
828071 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAA-AATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
828131 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
828196 GCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
828231 CCGATTATAG
Statistics
Matches: 470, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
124 31 0.07
125 215 0.46
126 224 0.48
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:828072 original size:251 final size:251
Alignment explanation
Indices: 827629--828230 Score: 1145
Period size: 251 Copynumber: 2.4 Consensus size: 251
827619 TTTAAGTTAT
* *
827629 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATAGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
827694 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
827759 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
*
827824 CCTC-GGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
196 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAA-AATAGGTACTGATATATCTAGTG
827880 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
827945 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
828010 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
131 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
828075 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAAAATAGGTACTGATATATCTAGTG
196 CCCCGGGAACGCGCCTTCACGTGAATAGTGAAAAATAGGTACTGATATATCTAGTG
828131 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
828196 GCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
828231 CCGATTATAG
Statistics
Matches: 346, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
250 31 0.09
251 287 0.83
252 28 0.08
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (251 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
CCCCGGGAACGCGCCTTCACGTGAATAGTGAAAAATAGGTACTGATATATCTAGTG
Found at i:828311 original size:8 final size:8
Alignment explanation
Indices: 828298--828338 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
828288 TCACAATCTT
828298 TCAAATTC
1 TCAAATTC
828306 TCAAATTC
1 TCAAATTC
* *
828314 CCAAACTC
1 TCAAATTC
828322 T-AAATTC
1 TCAAATTC
828329 TCAAATTC
1 TCAAATTC
828337 TC
1 TC
828339 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:831348 original size:13 final size:13
Alignment explanation
Indices: 831330--831369 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
831320 TACATAAATA
831330 TATTTAATATAAT
1 TATTTAATATAAT
831343 TATTTAATATAA-
1 TATTTAATATAAT
*
831355 TATTTAATATTAT
1 TATTTAATATAAT
831368 TA
1 TA
831370 GTTATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTAATATAAT
Found at i:840286 original size:21 final size:21
Alignment explanation
Indices: 840257--840303 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
840247 ATTAAGATAC
*
840257 TTTTATAATGAGAATAAT-AAT
1 TTTTTTAAT-AGAATAATGAAT
* *
840278 TTTTTTAATATAATTATGAAT
1 TTTTTTAATAGAATAATGAAT
840299 TTTTT
1 TTTTT
840304 ATATATAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
TTTTTTAATAGAATAATGAAT
Found at i:843398 original size:29 final size:29
Alignment explanation
Indices: 843357--843431 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
843347 TATGGTCAAA
**
843357 AATCAATGTGACCACCAAACT-TTCAATTG
1 AATCAATCAGACCACC-AACTATTCAATTG
*
843386 AATCAATCAGACCACTCAACTATTTAATTG
1 AATCAATCAGACCAC-CAACTATTCAATTG
* *
843416 ATTCAATCAAACCACC
1 AATCAATCAGACCACC
843432 GACTGTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 18 0.46
30 21 0.54
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (29 bp):
AATCAATCAGACCACCAACTATTCAATTG
Found at i:844834 original size:29 final size:30
Alignment explanation
Indices: 844781--844837 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
844771 CGGTTTTTTG
844781 ATTGATTAAATTAAATAGTTAGGTAGTCTT
1 ATTGATTAAATTAAATAGTTAGGTAGTCTT
* * *
844811 ATTGATTCAATTGAA-AGTTTGGTAGTC
1 ATTGATTAAATTAAATAGTTAGGTAGTC
844838 AAATTGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.42
Consensus pattern (30 bp):
ATTGATTAAATTAAATAGTTAGGTAGTCTT
Found at i:844843 original size:29 final size:30
Alignment explanation
Indices: 844781--844845 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
844771 CGGTTTTTTG
**
844781 ATTGATTAAATTAAATAGTTAGGTAGTCTT
1 ATTGATTAAATTAAATAGTTAGGTAGTCAA
* * *
844811 ATTGATTCAATTGAA-AGTTTGGTAGTCAA
1 ATTGATTAAATTAAATAGTTAGGTAGTCAA
844840 ATTGAT
1 ATTGAT
844846 ATTTTAGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (30 bp):
ATTGATTAAATTAAATAGTTAGGTAGTCAA
Found at i:846052 original size:21 final size:21
Alignment explanation
Indices: 846005--846045 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
845995 TTTTTTTCTT
846005 GCTTTCATATATTTACATTGC
1 GCTTTCATATATTTACATTGC
846026 GCTTTCATATATTTACATTG
1 GCTTTCATATATTTACATTG
846046 GAGTTTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (21 bp):
GCTTTCATATATTTACATTGC
Found at i:852318 original size:16 final size:16
Alignment explanation
Indices: 852294--852325 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
852284 TATTGCCGAC
*
852294 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
852310 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
852326 TGTAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:855306 original size:7 final size:7
Alignment explanation
Indices: 855294--855319 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
855284 AAGTACAATG
855294 ATGGCTA
1 ATGGCTA
855301 ATGGCTA
1 ATGGCTA
855308 ATGGCTA
1 ATGGCTA
855315 ATGGC
1 ATGGC
855320 AGCCCTGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (7 bp):
ATGGCTA
Found at i:859077 original size:22 final size:22
Alignment explanation
Indices: 859012--859079 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 22
859002 TATTTATTCT
*
859012 AATTATAAAATTAGAAA-TTTAA
1 AATTAT-AAATTATAAAGTTTAA
* *
859034 TAATT-T-AATTTTAGAGTGTTAA
1 -AATTATAAATTATAAAGT-TTAA
859056 AATTATAAATTATAAAGTTTAA
1 AATTATAAATTATAAAGTTTAA
859078 AA
1 AA
859080 GGAAATTAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 12 0.33
23 13 0.36
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
AATTATAAATTATAAAGTTTAA
Found at i:860323 original size:20 final size:21
Alignment explanation
Indices: 860298--860349 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
860288 TTTTCCCAAT
*
860298 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
860318 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
860339 TCGCAATGCGA
1 TCGCAATGCGA
860350 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:860363 original size:20 final size:20
Alignment explanation
Indices: 860338--860472 Score: 110
Period size: 20 Copynumber: 6.7 Consensus size: 20
860328 AATTGGGAAA
860338 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
860358 ATCGCAATACGATACTGACT
1 ATCGCAATGCGATACTGACT
* * **
860378 ATCGCAATGCGATAATAAAAA
1 ATCGCAATGCGATACT-GACT
* * *
860399 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
860419 TTCGCAACGCGATACTGTCT
1 ATCGCAATGCGATACTGACT
* * *
860439 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
860459 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
860473 TTTCAAAGCG
Statistics
Matches: 92, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
19 1 0.01
20 66 0.72
21 25 0.27
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:860384 original size:61 final size:61
Alignment explanation
Indices: 860335--860466 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 61
860325 GCGAATTGGG
* * * *
860335 AAAATCGCAATGCGATACTGACTATCGCAATACGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATACTGACTATCGCAACGCGATAATAA
* * * * * *
860396 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGTCTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATACTGACTATCGCAACGCGATAATAA
*
860457 ATAATCGCAA
1 AAAATCGCAA
860467 TGCGATTTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATACTGACTATCGCAACGCGATAATAA
Found at i:860668 original size:22 final size:22
Alignment explanation
Indices: 860640--860683 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
860630 CACTCTCTCA
860640 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
860662 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
860684 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:860972 original size:20 final size:20
Alignment explanation
Indices: 860947--860984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
860937 CGATTCTCTC
860947 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
860967 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
860985 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:862330 original size:18 final size:18
Alignment explanation
Indices: 862304--862348 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
862294 TCCACTTCGG
*
862304 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
862322 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
862340 GAGCCATCA
1 GAGCCATCA
862349 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:862875 original size:19 final size:20
Alignment explanation
Indices: 862821--862887 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
862811 TAGTTTACTT
* *
862821 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
862841 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
862861 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
862880 TCGCAACG
1 TCGCAACG
862888 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:862895 original size:14 final size:14
Alignment explanation
Indices: 862876--862933 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
862866 ATGCGAAATG
862876 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
862890 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
862906 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
862922 AAAATCGCAACG
1 AAAATCGCAACG
862934 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:862918 original size:32 final size:33
Alignment explanation
Indices: 862860--862950 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
862850 GGAAATGGCT
862860 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
862893 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
862925 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
862951 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:862990 original size:14 final size:14
Alignment explanation
Indices: 862967--863024 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
862957 TTGTGTTTCG
862967 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
862981 CGTTGTGATTTCATTT
1 CGTTGCGATTT--TGT
862997 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
863013 CGTTGCGATTTT
1 CGTTGCGATTTT
863025 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:862998 original size:32 final size:33
Alignment explanation
Indices: 862962--863040 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
862952 GCGATTTGTG
*
862962 TTTCGCGTTGCGATTTTGTCGTTGTGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
862994 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
863027 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
863041 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:863039 original size:19 final size:19
Alignment explanation
Indices: 863013--863079 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
863003 GCGATTTTGT
**
863013 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
863032 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
863052 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
863071 CGTTGCGAT
1 CGTTGCGAT
863080 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:863059 original size:20 final size:19
Alignment explanation
Indices: 863025--863079 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
863015 TTGCGATTTT
*
863025 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
863044 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
863064 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
863080 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:865114 original size:33 final size:32
Alignment explanation
Indices: 865099--865212 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 32
865089 TCGCAACGAA
*
865099 AAAATCGCAATGCGAAAATCGCAATGCGAAATG
1 AAAATCGCAATGCG-AAATCGCAATGCGAAACG
*
865132 AAAATCGCAATGCGAAAATCGCAATGCGAAATG
1 AAAATCGCAATGCG-AAATCGCAATGCGAAACG
* *
865165 AAAATCGCAATGCGAAAT-GAAAAT-CGCAACGAG
1 AAAATCGCAATGCGAAATCG-CAATGCGAAAC--G
865198 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
865213 TTTTCATTTC
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
31 5 0.07
32 7 0.09
33 63 0.84
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (32 bp):
AAAATCGCAATGCGAAATCGCAATGCGAAACG
Found at i:865136 original size:19 final size:19
Alignment explanation
Indices: 865112--865212 Score: 132
Period size: 19 Copynumber: 5.8 Consensus size: 19
865102 ATCGCAATGC
865112 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
865131 GAAAATCGCAATGC-----
1 GAAAATCGCAATGCGAAAT
865145 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
865164 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
865183 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
865197 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
865213 TTTTCATTTC
Statistics
Matches: 74, Mismatches: 0, Indels: 18
0.80 0.00 0.20
Matches are distributed among these distances:
14 25 0.34
15 1 0.01
16 2 0.03
17 2 0.03
19 44 0.59
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:865181 original size:14 final size:14
Alignment explanation
Indices: 865099--865162 Score: 83
Period size: 14 Copynumber: 4.2 Consensus size: 14
865089 TCGCAACGAA
865099 AAAATCGCAATGCG
1 AAAATCGCAATGCG
865113 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGC-----G
865132 AAAATCGCAATGCG
1 AAAATCGCAATGCG
865146 AAAATCGCAATGCG
1 AAAATCGCAATGCG
865160 AAA
1 AAA
865163 TGAAAATCGC
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
14 31 0.69
19 14 0.31
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (14 bp):
AAAATCGCAATGCG
Found at i:865231 original size:52 final size:52
Alignment explanation
Indices: 865112--865212 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
865102 ATCGCAATGC
* *
865112 GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
865164 GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGA
865213 TTTTCATTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
Found at i:865288 original size:20 final size:20
Alignment explanation
Indices: 865231--865288 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
865221 TCGCATTGCG
* *
865231 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
865251 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
865271 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
865289 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:866375 original size:24 final size:24
Alignment explanation
Indices: 866348--866401 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
866338 GTATTCGAAA
* *
866348 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATATTGGTCAATACACAGAC
*
866372 TTTGATATTGGTCAATACACAGAT
1 TTTGATATTGGTCAATACACAGAC
866396 TTTGAT
1 TTTGAT
866402 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACAGAC
Found at i:866592 original size:12 final size:12
Alignment explanation
Indices: 866575--866599 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
866565 ATATAATCCT
866575 GAAGAAGAAAAA
1 GAAGAAGAAAAA
866587 GAAGAAGAAAAA
1 GAAGAAGAAAAA
866599 G
1 G
866600 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:868914 original size:19 final size:19
Alignment explanation
Indices: 868892--868950 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
868882 GGAAATTACT
868892 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
868911 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
*
868925 ATAGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
868944 ATCGCAA
1 ATCGCAA
868951 CGCTAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:868915 original size:39 final size:35
Alignment explanation
Indices: 868872--868953 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 35
868862 CTTAATGTCC
*
868872 ATCGCAACGCGGAAATTACTATCGCAATGCGAAATGAAA
1 ATCGCAACGC-GAAA-TA--ATAGCAATGCGAAATGAAA
*
868911 ATCGCAA--CGAGATAATAGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATAATAGCAATGCGAAATGAAA
868944 ATCGCAACGC
1 ATCGCAACGC
868954 TAATTTCGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
33 25 0.64
35 3 0.08
36 3 0.08
37 1 0.03
39 7 0.18
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.16
Consensus pattern (35 bp):
ATCGCAACGCGAAATAATAGCAATGCGAAATGAAA
Found at i:869096 original size:14 final size:14
Alignment explanation
Indices: 869077--869127 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
869067 CATCAATTAA
869077 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
869091 ACAAATCACCTTTT
1 ACAAATCAACTTTT
* *
869105 ACAAATCACCTTTA
1 ACAAATCAACTTTT
869119 ACAAATCAA
1 ACAAATCAA
869128 TTAAACAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:869134 original size:13 final size:13
Alignment explanation
Indices: 869068--869139 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 13
869058 TTATGTTAAC
*
869068 ATCAATTAAACAA
1 ATCAATTTAACAA
*
869081 ATCAACTTTTACAA
1 ATCAA-TTTAACAA
* *
869095 ATCACCTTTTACAA
1 ATCA-ATTTAACAA
*
869109 ATCACCTTTAACAA
1 ATCA-ATTTAACAA
*
869123 ATCAATTAAAC-A
1 ATCAATTTAACAA
869135 ATCAA
1 ATCAA
869140 AAAATAAGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
12 6 0.12
13 10 0.20
14 35 0.69
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (13 bp):
ATCAATTTAACAA
Found at i:870551 original size:21 final size:21
Alignment explanation
Indices: 870485--870551 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
870475 GTGAATCGGG
*
870485 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
870505 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
870527 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
870548 CTCT
1 CTCT
870552 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:870570 original size:42 final size:41
Alignment explanation
Indices: 870485--870607 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
870475 GTGAATCGGG
* * * * *
870485 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
870527 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
870569 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
870608 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:872687 original size:33 final size:33
Alignment explanation
Indices: 872638--872715 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 33
872628 ATGAGAATTT
* *
872638 CAACGCGGAAATGACTATCGCAACGAGAGAATCG
1 CAACGC-GAAATGACTATCGCAACCAGACAATCG
*
872672 CAACGCGAAATGACTATCGCGACCAGACAATCG
1 CAACGCGAAATGACTATCGCAACCAGACAATCG
872705 CAACGCGAAAT
1 CAACGCGAAAT
872716 AAAAATCGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 35 0.85
34 6 0.15
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (33 bp):
CAACGCGAAATGACTATCGCAACCAGACAATCG
Found at i:872722 original size:19 final size:19
Alignment explanation
Indices: 872700--872769 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
872690 GCGACCAGAC
*
872700 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
872719 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
872738 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
872757 AATCGCAATGCGA
1 AATCGCAACGCGA
872770 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:873429 original size:20 final size:20
Alignment explanation
Indices: 873344--873437 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
873334 CGCTATGTAA
*
873344 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
873364 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* * ** * *
873384 ATCTCGTTTCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
873405 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
873425 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
873438 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 46 0.79
21 12 0.21
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:873438 original size:41 final size:41
Alignment explanation
Indices: 873363--873440 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
873353 CGAAAGTCAG
* * * *
873363 TATCGCGTTGCGAAAGTAAGTATCTCGTTTCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
873404 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
873441 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.41
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:873455 original size:21 final size:21
Alignment explanation
Indices: 873426--873518 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
873416 ATAGTCAGTA
873426 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
873447 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
873467 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
873488 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
873508 TCGCATTGCGA
1 TCGCATTGCGA
873519 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:873456 original size:41 final size:41
Alignment explanation
Indices: 873426--873518 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
873416 ATAGTCAGTA
* *
873426 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
873467 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
873508 TCGCATTGCGA
1 TCGCATTGCGA
873519 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:873824 original size:31 final size:31
Alignment explanation
Indices: 873768--873832 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
873758 ACTTTTAAAA
* ** *
873768 TTTGTAATACAGTCTCTTAACATTTAGTCTG
1 TTTGTAATACAGTCCCCCAACATTTAGTCCG
*
873799 TTTGTAATACAGTCCCCCAATATTTAGTCCG
1 TTTGTAATACAGTCCCCCAACATTTAGTCCG
873830 TTT
1 TTT
873833 ACAGTATGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (31 bp):
TTTGTAATACAGTCCCCCAACATTTAGTCCG
Found at i:893265 original size:229 final size:227
Alignment explanation
Indices: 892860--893308 Score: 783
Period size: 229 Copynumber: 2.0 Consensus size: 227
892850 GTAAATTATC
* * *
892860 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
892925 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
892990 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTG
893055 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
893088 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
893153 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-ATAAT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-AT
* * *
893217 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAT
893282 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
893309 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
228 42 0.20
229 168 0.80
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:893398 original size:20 final size:19
Alignment explanation
Indices: 893375--893420 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
893365 CGATATACCA
893375 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
893395 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
893415 GGTAAA
1 GGTAAA
893421 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:893565 original size:20 final size:20
Alignment explanation
Indices: 893542--893589 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
893532 CGATATAACA
*
893542 GGTAAAATTATGATAAAACC
1 GGTAAAATAATGATAAAACC
893562 GGTAACAA-AATGATAAAACC
1 GGTAA-AATAATGATAAAACC
893582 GGTAAAAT
1 GGTAAAAT
893590 GATACCGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (20 bp):
GGTAAAATAATGATAAAACC
Found at i:895868 original size:21 final size:21
Alignment explanation
Indices: 895821--895885 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
895811 AAGACAATCA
* *
895821 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
895843 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
895863 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
895884 AG
1 AG
895886 GAATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:895961 original size:33 final size:33
Alignment explanation
Indices: 895919--895984 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
895909 AAATAGATGG
*
895919 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
895952 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
895985 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:897802 original size:19 final size:19
Alignment explanation
Indices: 897778--897826 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
897768 AATGTCGAGT
897778 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
897797 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
897816 TATTTTTGTAT
1 TAATTTTGTAT
897827 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:898482 original size:198 final size:198
Alignment explanation
Indices: 897945--899899 Score: 3804
Period size: 198 Copynumber: 9.9 Consensus size: 198
897935 CAATATGGCC
* *
897945 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
898010 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
898075 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
898140 TGGAA
195 TGG-A
898145 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
898210 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
898275 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
898340 GGA
196 GGA
898343 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
898408 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
898473 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
898538 GGA
196 GGA
898541 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
898606 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
898671 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
898736 GGA
196 GGA
898739 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
898804 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
898869 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
898934 GGA
196 GGA
898937 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
899002 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
899067 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
899132 GGA
196 GGA
899135 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
899200 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTACACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
899265 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAAAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
899330 GGA
196 GGA
899333 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
899398 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
899463 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
899528 GGA
196 GGA
899531 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
899595 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
899660 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
899725 GGAA
196 GG-A
*
899729 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCCAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
899794 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
899859 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGT
899900 AAATACTAAT
Statistics
Matches: 1741, Mismatches: 12, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
197 160 0.09
198 1253 0.72
199 294 0.17
200 34 0.02
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGA
Found at i:901347 original size:3 final size:3
Alignment explanation
Indices: 901339--901410 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
901329 TCTTTTAACA
* * * ** * *
901339 GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT GAC GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
901387 GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
901411 CCAAACAAGT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:902949 original size:183 final size:183
Alignment explanation
Indices: 902608--903485 Score: 1571
Period size: 183 Copynumber: 4.8 Consensus size: 183
902598 CAAAGTTTTC
* * * *
902608 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
902673 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
*
902736 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
902792 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
902857 AAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
* *
902922 AACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
902975 ACACTTTCTAAGATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
903040 AAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
903105 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
903158 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
903223 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
903288 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
903341 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
903406 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
903471 AACCGGTATAAAAAT
131 AACCGGTATAAAAAT
903486 GTGTCGATAC
Statistics
Matches: 677, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
183 601 0.89
184 73 0.11
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:903514 original size:22 final size:23
Alignment explanation
Indices: 903481--903523 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
903471 AACCGGTATA
903481 AAAATGTGTCGATACCTTTTTAT
1 AAAATGTGTCGATACCTTTTTAT
*
903504 AAAA-GTGTCGATACTTTTTT
1 AAAATGTGTCGATACCTTTTT
903524 CACTGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (23 bp):
AAAATGTGTCGATACCTTTTTAT
Found at i:906681 original size:23 final size:23
Alignment explanation
Indices: 906650--906712 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
906640 ATAGGTAAAC
*
906650 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTACCCCTT
* **
906673 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTACCCCTT
906696 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
906713 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTACCCCTT
Found at i:906720 original size:23 final size:23
Alignment explanation
Indices: 906650--906722 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
906640 ATAGGTAAAC
* * **
906650 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
906673 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
906696 ATATAATGTAATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
906719 ATAT
1 ATAT
906723 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:907112 original size:23 final size:23
Alignment explanation
Indices: 907081--907144 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
907071 ATAGGTAAAC
*
907081 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
907104 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
907127 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
907145 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:907151 original size:23 final size:23
Alignment explanation
Indices: 907081--907153 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
907071 ATAGGTAAAC
* **
907081 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
907104 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
907127 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
907150 ATAT
1 ATAT
907154 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:907544 original size:23 final size:23
Alignment explanation
Indices: 907513--907576 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
907503 ATAGGTAAAC
*
907513 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
907536 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
907559 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
907577 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:907583 original size:23 final size:23
Alignment explanation
Indices: 907513--907585 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
907503 ATAGGTAAAC
* **
907513 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
907536 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
907559 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
907582 ATAT
1 ATAT
907586 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:907683 original size:432 final size:431
Alignment explanation
Indices: 906551--907822 Score: 2472
Period size: 431 Copynumber: 2.9 Consensus size: 431
906541 AATTCGCAGT
906551 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
906616 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
906681 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
906746 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
*
906811 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTCTTACGTTACGATATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
906876 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
906941 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
906982 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
907047 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
907112 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
907177 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
*
907242 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
907307 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
907372 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
907413 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAAGTATCGATCCTTTTTAT
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAAGTATCGATCCTTTTTAT
907478 AAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAAT
65 AAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAAT
907543 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTA
130 GTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTA
907608 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
195 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
*
907673 TAAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTAT
260 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTAT
* *
907738 TATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
325 TATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGC
907803 AAATGAAATTATTAAATCAA
390 AAATGAAATTATTAAATCAA
907823 ATAATTCAAA
Statistics
Matches: 832, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
431 467 0.56
432 365 0.44
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:907888 original size:25 final size:25
Alignment explanation
Indices: 907854--907904 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
907844 ACAATAAATC
*
907854 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
907879 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
907904 A
1 A
907905 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:908174 original size:18 final size:18
Alignment explanation
Indices: 908153--908189 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
908143 GTAATTGGAG
908153 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
908171 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
908189 T
1 T
908190 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:908197 original size:24 final size:24
Alignment explanation
Indices: 908145--908191 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
908135 TTTCATATGT
* *
908145 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
908169 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
908192 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:908491 original size:39 final size:39
Alignment explanation
Indices: 908448--908573 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
908438 TCCGATGCTC
* *
908448 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
908487 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
908526 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
908565 ATCAAAATC
1 ATCAAAATC
908574 TACAACTTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:909006 original size:23 final size:23
Alignment explanation
Indices: 908975--909038 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
908965 ATAGGTAAAC
*
908975 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
908998 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
909021 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
909039 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:909045 original size:23 final size:23
Alignment explanation
Indices: 908975--909047 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
908965 ATAGGTAAAC
* **
908975 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
908998 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
909021 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
909044 ATAT
1 ATAT
909048 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:914964 original size:14 final size:15
Alignment explanation
Indices: 914923--914968 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
914913 AATTATTAGA
*
914923 ACTGAAAAATGAATT
1 ACTGGAAAATGAATT
**
914938 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
914953 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
914967 AC
1 AC
914969 ATTTCCGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:915008 original size:14 final size:14
Alignment explanation
Indices: 914970--915010 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
914960 ATGAATTACA
*
914970 TTTCCGGAAAACGT
1 TTTCCGGAAAATGT
*
914984 TTTTCGGAAAATGT
1 TTTCCGGAAAATGT
*
914998 TTTCCGTAAAATG
1 TTTCCGGAAAATG
915011 AATTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (14 bp):
TTTCCGGAAAATGT
Found at i:915361 original size:23 final size:23
Alignment explanation
Indices: 915313--915374 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
915303 GTGTTATATT
**
915313 ATATTTTAAA-ATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
915335 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
915358 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
915375 AAATAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.31
23 11 0.34
24 1 0.03
25 10 0.31
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:915402 original size:19 final size:20
Alignment explanation
Indices: 915350--915402 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
915340 TTAAATATCT
915350 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
915369 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
915390 TTATTAAATATAT
1 TTATTAAATATAT
915403 AAAGAAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:915696 original size:15 final size:16
Alignment explanation
Indices: 915658--915711 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
915648 ATAATATCTT
915658 ATATTATTATAATATA
1 ATATTATTATAATATA
*
915674 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
915691 ATATTA--AAAATATA
1 ATATTATTATAATATA
915705 ATATTAT
1 ATATTAT
915712 ATTATTATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.35
15 4 0.13
16 2 0.06
17 8 0.26
18 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:919118 original size:42 final size:41
Alignment explanation
Indices: 919072--919185 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 41
919062 TACATTCCAG
* * * *
919072 AAAACCAATTACGTGAAACAAATACAAGAAAATATTTTTTGA
1 AAAACGAATTACGTGAAACAAACACAA-AAAATATTTTATAA
919114 AAAACGAATTACGTGAAACAAACACGAAAAAATATTTTATAA
1 AAAACGAATTACGTGAAACAAACAC-AAAAAATATTTTATAA
* *
919156 AAAACGAATTACATTAAACAAACACAAAAA
1 AAAACGAATTACGTGAAACAAACACAAAAA
919186 TTCGAGAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 5 0.08
42 58 0.89
43 2 0.03
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (41 bp):
AAAACGAATTACGTGAAACAAACACAAAAAATATTTTATAA
Found at i:930059 original size:2 final size:2
Alignment explanation
Indices: 930052--930076 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
930042 AGTCCCCCTC
930052 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
930077 ATTTTTTGTT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:932346 original size:31 final size:31
Alignment explanation
Indices: 932308--932463 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
932298 CCCGAAGGAC
* * *
932308 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
932339 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
932370 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
932401 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
932432 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
932463 C
1 C
932464 CCTCGACCCT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:933418 original size:21 final size:21
Alignment explanation
Indices: 933394--933438 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
933384 TGTTGTTCGT
* *
933394 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
933415 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
933436 TTG
1 TTG
933439 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:953906 original size:20 final size:21
Alignment explanation
Indices: 953881--953920 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
953871 TCTATTAGTT
*
953881 ATTAGATAGGATCA-TTTTTA
1 ATTAGATAGAATCAGTTTTTA
953901 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTT
953921 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:953937 original size:53 final size:52
Alignment explanation
Indices: 953848--953977 Score: 244
Period size: 53 Copynumber: 2.5 Consensus size: 52
953838 ATCTAAATTA
953848 AATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATCATTTTT
1 AATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATCATTTTT
953900 AATTAGATAGAATCAGTTTTTTATTCTATTAGTTATTAGATAGGATCATTTTT
1 AATTAGATAGAATCAG-TTTTTATTCTATTAGTTATTAGATAGGATCATTTTT
953953 AATTAGATAGAATCA-TTTTTATTCT
1 AATTAGATAGAATCAGTTTTTATTCT
953978 GTTGCTAATT
Statistics
Matches: 77, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
51 10 0.13
52 16 0.21
53 51 0.66
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (52 bp):
AATTAGATAGAATCAGTTTTTATTCTATTAGTTATTAGATAGGATCATTTTT
Found at i:953959 original size:20 final size:20
Alignment explanation
Indices: 953934--953973 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
953924 TCTATTAGTT
*
953934 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
953954 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
953974 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:960917 original size:20 final size:21
Alignment explanation
Indices: 960892--960931 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
960882 TCTATTAATT
*
960892 ATTAGATAGGATCA-TTTTTA
1 ATTAGATAGAATCAGTTTTTA
960912 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTT
960932 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
ATTAGATAGAATCAGTTTTTA
Found at i:970389 original size:80 final size:80
Alignment explanation
Indices: 970256--970416 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
970246 ATTATTGTTC
*
970256 AACTATGGTTGACATCAGACACTCCATATAGTTTAGGTAAACTAACCTTGAAATTAAAACGAGCA
1 AACTATGGTTAACATCAGACACTCCATATAGTTTAGGTAAACTAACCTTGAAATTAAAACGAGCA
970321 AGAGTCTGCAAAGCA
66 AGAGTCTGCAAAGCA
*
970336 AACTATGGTTAACATCAGACACTCCATATAGTTTCGGTAAACTAACCTTGAAATTAAAACGAGCA
1 AACTATGGTTAACATCAGACACTCCATATAGTTTAGGTAAACTAACCTTGAAATTAAAACGAGCA
970401 AGAGTCTGCAAAGCA
66 AGAGTCTGCAAAGCA
970416 A
1 A
970417 GCTGAACAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (80 bp):
AACTATGGTTAACATCAGACACTCCATATAGTTTAGGTAAACTAACCTTGAAATTAAAACGAGCA
AGAGTCTGCAAAGCA
Found at i:982799 original size:20 final size:19
Alignment explanation
Indices: 982741--982801 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
982731 AAATCAATCA
* *
982741 TATAATTTAAAATTTAAAA
1 TATAATTTCAAATTTAAAT
*
982760 TATAA-TACATAATTTGAAAT
1 TATAATTTCA-AATTT-AAAT
982780 TATAATTTCTAAATTTAAAT
1 TATAATTTC-AAATTTAAAT
982800 TA
1 TA
982802 CTTTATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 2 0.06
19 10 0.29
20 14 0.41
21 7 0.21
22 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (19 bp):
TATAATTTCAAATTTAAAT
Found at i:987655 original size:19 final size:19
Alignment explanation
Indices: 987633--987670 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
987623 ATAATTTGAT
987633 AAATTTAAAATAA-ATTTTA
1 AAATTT-AAATAATATTTTA
*
987652 AAATTTTAATAATATTTTA
1 AAATTTAAATAATATTTTA
987671 TAATATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTTAAATAATATTTTA
Found at i:987659 original size:20 final size:21
Alignment explanation
Indices: 987615--987665 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
987605 TTCAAATATT
*
987615 ATTTTATAAT-AATTTGATAA
1 ATTTTAAAATAAATTTGATAA
*
987635 A-TTTAAAATAAATTTTA-AA
1 ATTTTAAAATAAATTTGATAA
987654 ATTTTAATAATA
1 ATTTTAA-AATA
987666 TTTTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTTTAAAATAAATTTGATAA
Found at i:1005016 original size:104 final size:101
Alignment explanation
Indices: 1004821--1005022 Score: 302
Period size: 98 Copynumber: 2.0 Consensus size: 101
1004811 CGAGTATGAA
* *
1004821 GTAGTTCGTTTCTACTTGTTAAGAACTCGAATCAAGCTTGAGTTCGAGTCCGAGCTCAAGTCGAA
1 GTAGCTCGTTTCTACTTGTTAAAAACTCGAATCAAGCTTGAGTT---GTCCGAGCTCAAGTCGAA
* *
1004886 TATTTATCAAGCTTTGATCGAGTCAAACTCAAATAACTT
63 TATTTATAAAACTTTGATCGAGTCAAACTCAAATAACTT
* *
1004925 GTAGCTCGTTTCTACTTGTTAAAAACTCGAATCGAGCTTGAG-T-T-CGAGCTCGAGTCGAATAT
1 GTAGCTCGTTTCTACTTGTTAAAAACTCGAATCAAGCTTGAGTTGTCCGAGCTCAAGTCGAATAT
1004987 TTATAAAACTTTGATCGAGTCAAACTCAAATAACTT
66 TTATAAAACTTTGATCGAGTCAAACTCAAATAACTT
1005023 ACAATCTGAT
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
98 51 0.55
99 1 0.01
103 1 0.01
104 39 0.42
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (101 bp):
GTAGCTCGTTTCTACTTGTTAAAAACTCGAATCAAGCTTGAGTTGTCCGAGCTCAAGTCGAATAT
TTATAAAACTTTGATCGAGTCAAACTCAAATAACTT
Found at i:1021602 original size:62 final size:62
Alignment explanation
Indices: 1021524--1021647 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
1021514 TGTTTTTCTA
1021524 ATCTTGGTGCAAGGGTCAATCGGCCTATGGCCATGTGCATATTTTGTCATCTTTGATTTCCT
1 ATCTTGGTGCAAGGGTCAATCGGCCTATGGCCATGTGCATATTTTGTCATCTTTGATTTCCT
* * * *
1021586 ATCTTGGTGTAGGGGTCAATTGGCCTATGGCCATGTGCATATTTTGTCGTCTTTGATTTCCT
1 ATCTTGGTGCAAGGGTCAATCGGCCTATGGCCATGTGCATATTTTGTCATCTTTGATTTCCT
1021648 TGTCACGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.40
Consensus pattern (62 bp):
ATCTTGGTGCAAGGGTCAATCGGCCTATGGCCATGTGCATATTTTGTCATCTTTGATTTCCT
Found at i:1023086 original size:2 final size:2
Alignment explanation
Indices: 1023076--1023456 Score: 112
Period size: 2 Copynumber: 195.5 Consensus size: 2
1023066 AATTTAAAAA
* * *
1023076 AT AT A- AT AT AT AT AT AT AT A- AT AT AA AT TT AT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
1023117 AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT AA ACT GT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * **
1023157 A- AT -T AT -T AT AA ACC AT AT AT AT AA AT -T AT AT TT AT AT GC
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1023196 ACT AT AT AT AT AA ACT AT GT AT AT A- AA AT -T AT AA ACT AT AT
1 A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * *
1023237 TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT A- AG AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
1023275 AT AT AT AT -T AT GT TT AT GT GA- ACT GT AT AT AT AA ACT AT GT
1 AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT A-T AT AT
* * * * * *
1023316 AT AT AA ACT AT AT AT GT AT AA ACT AT TT A- AA AT AT AT AGT TT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT
* * *
1023358 AT AT GT -T AT A- AT TT AT AT -T A- AT AT AGT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
1023397 GT AT A- ACT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1023438 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1023457 GAAACACTAT
Statistics
Matches: 271, Mismatches: 66, Indels: 84
0.64 0.16 0.20
Matches are distributed among these distances:
1 26 0.10
2 231 0.85
3 14 0.05
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1023096 original size:15 final size:15
Alignment explanation
Indices: 1023076--1023139 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
1023066 AATTTAAAAA
*
1023076 ATATAATATATATAT
1 ATATAATATAAATAT
1023091 ATATAATATAAAT-T
1 ATATAATATAAATAT
1023105 -TAT-ATATAAACTAT
1 ATATAATATAAA-TAT
*
1023119 ATTTATATTATAAACTAT
1 A--TATAATATAAA-TAT
1023137 ATA
1 ATA
1023140 ATTATTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.17
13 4 0.10
14 2 0.05
15 12 0.29
16 2 0.05
17 3 0.07
18 11 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATATAAATAT
Found at i:1023110 original size:17 final size:16
Alignment explanation
Indices: 1023076--1023131 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
1023066 AATTTAAAAA
*
1023076 ATATAATAT-ATATAT
1 ATATAATATAATTTAT
1023091 ATATAATATAAATTTAT
1 ATATAATAT-AATTTAT
1023108 ATATAA-ACTATATTTAT
1 ATATAATA-TA-ATTTAT
1023125 ATTATAA
1 A-TATAA
1023132 ACTATATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 9 0.26
16 2 0.06
17 19 0.54
18 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATATAATTTAT
Found at i:1023181 original size:13 final size:13
Alignment explanation
Indices: 1023163--1023341 Score: 66
Period size: 13 Copynumber: 13.8 Consensus size: 13
1023153 GTATAATTAT
*
1023163 TATAAACCATATA
1 TATAAACTATATA
*
1023176 TATAAATTATATTTA
1 TATAAACTATA--TA
**
1023191 TATGCACTATATA
1 TATAAACTATATA
*
1023204 TATAAACTATGTA
1 TATAAACTATATA
*
1023217 TATAAAAT-TATA
1 TATAAACTATATA
* * *
1023229 AACTATA-TTTATA
1 TA-TAAACTATATA
1023242 TTATAAACTATATA
1 -TATAAACTATATA
* *
1023256 -AT-TATTATA-A
1 TATAAACTATATA
* *
1023266 GATATA-TATATA
1 TATAAACTATATA
* * *
1023278 TATATTA-TGTTTA
1 TATA-AACTATATA
* * *
1023291 TGTGAACTGTATA
1 TATAAACTATATA
*
1023304 TATAAACTATGTA
1 TATAAACTATATA
1023317 TATAAACTATATA
1 TATAAACTATATA
1023330 TGTATAAACTAT
1 --TATAAACTAT
1023342 TTAAAATATA
Statistics
Matches: 124, Mismatches: 29, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
10 1 0.01
11 11 0.09
12 14 0.11
13 72 0.58
14 6 0.05
15 20 0.16
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:1023241 original size:21 final size:18
Alignment explanation
Indices: 1023081--1023278 Score: 131
Period size: 18 Copynumber: 10.6 Consensus size: 18
1023071 AAAAAATATA
1023081 ATATATATA-TATATAA-T
1 ATATATATATTATA-AACT
* *
1023098 ATAAATTTATATATAAACT
1 ATATATATAT-TATAAACT
*
1023117 ATATTTATATTATAAACT
1 ATATATATATTATAAACT
1023135 ATATA-ATTATTATAAACT
1 ATATATA-TATTATAAACT
*
1023153 GTATA-ATTATTATAAACCAT
1 ATATATA-TATTATAAA-C-T
* **
1023173 ATATATAAATTAT-ATTT
1 ATATATATATTATAAACT
1023190 ATATGCACTATATATATAAACT
1 ATAT--A-TATAT-TATAAACT
*
1023212 ATGTATATAAAATTATAAACT
1 A--TATAT-ATATTATAAACT
*
1023233 ATATTTATATTATAAACT
1 ATATATATATTATAAACT
1023251 ATATA-ATTATTATAAGA-T
1 ATATATA-TATTATAA-ACT
1023269 ATATATATAT
1 ATATATATAT
1023279 ATATTATGTT
Statistics
Matches: 145, Mismatches: 18, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
17 14 0.10
18 72 0.50
19 21 0.14
20 14 0.10
21 14 0.10
22 7 0.05
24 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATATATATTATAAACT
Found at i:1023249 original size:98 final size:100
Alignment explanation
Indices: 1023076--1023322 Score: 289
Period size: 98 Copynumber: 2.5 Consensus size: 100
1023066 AATTTAAAAA
* * * * *
1023076 ATATA-ATATATA-TATATATAATAT-AAATTTATATATAAACTA--TAT-TTATATTATAAACT
1 ATATATATATATATTATAT-TTATATGAACTATATATATAAACTATGTATATAAAATTATAAACT
*
1023135 ATATAATTATTATAAACTGTATAATTATTATAA-ACC
65 ATATAATTATTATAAACTATATAATTATTATAAGA-C
*
1023171 ATATATATA-A-ATTATATTTATATGCACTATATATATAAACTATGTATATAAAATTATAAACTA
1 ATATATATATATATTATATTTATATGAACTATATATATAAACTATGTATATAAAATTATAAACTA
* *
1023234 TAT-TTATATTATAAACTATATAATTATTATAAGAT
66 TATAAT-TATTATAAACTATATAATTATTATAAGAC
* * *
1023269 ATATATATATATATTATGTTTATGTGAACTGTATATATAAACTATGTATATAAA
1 ATATATATATATATTATATTTATATGAACTATATATATAAACTATGTATATAAA
1023323 CTATATATGT
Statistics
Matches: 129, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
94 6 0.05
95 26 0.20
96 3 0.02
97 4 0.03
98 50 0.39
99 2 0.02
100 38 0.29
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (100 bp):
ATATATATATATATTATATTTATATGAACTATATATATAAACTATGTATATAAAATTATAAACTA
TATAATTATTATAAACTATATAATTATTATAAGAC
Found at i:1023318 original size:15 final size:15
Alignment explanation
Indices: 1023298--1023341 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
1023288 TTATGTGAAC
1023298 TGTATATATAAACTA
1 TGTATATATAAACTA
1023313 TG--TATATAAACTA
1 TGTATATATAAACTA
* *
1023326 TATATGTATAAACTA
1 TGTATATATAAACTA
1023341 T
1 T
1023342 TTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
TGTATATATAAACTA
Found at i:1023684 original size:6 final size:6
Alignment explanation
Indices: 1023675--1023712 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
1023665 TATAAAAAAA
1023675 AAACCC AAACCC AAACCC TAAACCC AAACCC TAAACCC
1 AAACCC AAACCC AAACCC -AAACCC AAACCC -AAACCC
1023713 TCAACCTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.05
Consensus pattern (6 bp):
AAACCC
Found at i:1023699 original size:7 final size:7
Alignment explanation
Indices: 1023675--1023736 Score: 60
Period size: 7 Copynumber: 9.4 Consensus size: 7
1023665 TATAAAAAAA
1023675 AAACCC-
1 AAACCCT
1023681 AAACCC-
1 AAACCCT
1023687 AAACCCT
1 AAACCCT
1023694 AAACCC-
1 AAACCCT
1023700 AAACCCT
1 AAACCCT
1023707 AAACCCT
1 AAACCCT
*
1023714 CAA-CCT
1 AAACCCT
* **
1023720 AGACTTT
1 AAACCCT
1023727 AAACCCT
1 AAACCCT
1023734 AAA
1 AAA
1023737 TCAATCCATA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
6 22 0.49
7 23 0.51
ACGTcount: A:0.45, C:0.40, G:0.02, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:1023720 original size:13 final size:13
Alignment explanation
Indices: 1023675--1023712 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1023665 TATAAAAAAA
1023675 AAACCC-AAACCC
1 AAACCCTAAACCC
1023687 AAACCCTAAACCC
1 AAACCCTAAACCC
1023700 AAACCCTAAACCC
1 AAACCCTAAACCC
1023713 TCAACCTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.05
Consensus pattern (13 bp):
AAACCCTAAACCC
Found at i:1023804 original size:2 final size:2
Alignment explanation
Indices: 1023797--1023861 Score: 94
Period size: 2 Copynumber: 31.5 Consensus size: 2
1023787 TAGCTACATG
* *
1023797 TA TA TA TA AA CTA TG TA TA GTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
1023841 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
1023862 CGTTAAACAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 54 0.95
3 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1024541 original size:21 final size:23
Alignment explanation
Indices: 1024502--1024544 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
1024492 CGTCCATTTA
1024502 AAATATTATATAGTTTATATATAC
1 AAATATTATATAG-TTATATATAC
1024526 AAATA-TATATAG-TATATAT
1 AAATATTATATAGTTATATAT
1024545 GGTTTAGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (23 bp):
AAATATTATATAGTTATATATAC
Found at i:1024561 original size:14 final size:13
Alignment explanation
Indices: 1024542--1024620 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 13
1024532 ATATAGTATA
1024542 TATGGTTTAGGATT
1 TATGGTTTAGG-TT
1024556 TATGGTTTATGGTT
1 TATGGTTTA-GGTT
1024570 TA-GGATTTAGGGTT
1 TATGG-TTTA-GGTT
*
1024584 TATGGTTTAATGTT
1 TATGGTTT-AGGTT
1024598 TAAT-GTTTAGGGTT
1 T-ATGGTTTA-GGTT
*
1024612 TAGGGTTTA
1 TATGGTTTA
1024621 TATTTATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.07
14 43 0.80
15 7 0.13
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (13 bp):
TATGGTTTAGGTT
Found at i:1024568 original size:21 final size:21
Alignment explanation
Indices: 1024542--1024592 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1024532 ATATAGTATA
*
1024542 TATGGTTTAGGATTTATGGTT
1 TATGGTTTAGGATTTAGGGTT
1024563 TATGGTTTAGGATTTAGGGTT
1 TATGGTTTAGGATTTAGGGTT
1024584 TATGGTTTA
1 TATGGTTTA
1024593 ATGTTTAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (21 bp):
TATGGTTTAGGATTTAGGGTT
Found at i:1024587 original size:28 final size:27
Alignment explanation
Indices: 1024545--1024626 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
1024535 TAGTATATAT
*
1024545 GGTTTAGGATTTATGGTTTATGGTTT-A
1 GGTTTAGGGTTTATGGTTTAT-GTTTAA
1024572 GGATTTAGGGTTTATGGTTTAATGTTTAA
1 GG-TTTAGGGTTTATGGTTT-ATGTTTAA
* * *
1024601 TGTTTAGGGTTTAGGGTTTATATTTA
1 GGTTTAGGGTTTATGGTTTATGTTTA
1024627 TATTTATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.17
28 36 0.75
29 4 0.08
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (27 bp):
GGTTTAGGGTTTATGGTTTATGTTTAA
Found at i:1024619 original size:21 final size:21
Alignment explanation
Indices: 1024542--1024620 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
1024532 ATATAGTATA
1024542 TATGGTTTAGGATTT-ATGGTT
1 TATGGTTTAGGATTTAAT-GTT
**
1024563 TATGGTTTAGGATTTAGGGTT
1 TATGGTTTAGGATTTAATGTT
*
1024584 TATGGTTTAATG-TTTAATGTT
1 TATGGTTT-AGGATTTAATGTT
* *
1024605 TAGGGTTTAGGGTTTA
1 TATGGTTTAGGATTTA
1024621 TATTTATATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (21 bp):
TATGGTTTAGGATTTAATGTT
Found at i:1024726 original size:33 final size:32
Alignment explanation
Indices: 1024667--1024733 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
1024657 ATTTGTATAC
* *
1024667 TATATTTTATATTATTTATATAAACTATAGTT
1 TATATTTTATACTATATATATAAACTATAGTT
* *
1024699 TATATTTATATACTATATATATGAACTATATTT
1 TATATTT-TATACTATATATATAAACTATAGTT
1024732 TA
1 TA
1024734 CATATAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (32 bp):
TATATTTTATACTATATATATAAACTATAGTT
Found at i:1024747 original size:38 final size:37
Alignment explanation
Indices: 1024705--1024832 Score: 132
Period size: 38 Copynumber: 3.3 Consensus size: 37
1024695 AGTTTATATT
1024705 TATATACTATATATATGAACTATATTTTACATATAAAC
1 TATATA-TATATATATGAACTATATTTTACATATAAAC
* * *
1024743 TATATAGTTTATATACT-AACTATAGTTTACATATAAAT
1 TATATA-TATATATA-TGAACTATATTTTACATATAAAC
* *
1024781 TATAGTTAATATTTACATATGAACTATATTTTACATATGAAC
1 TATA--T-ATA--TATATATGAACTATATTTTACATATAAAC
1024823 TATATATATA
1 TATATATATA
1024833 AACTATATAG
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
37 2 0.03
38 36 0.49
39 4 0.05
40 3 0.04
41 2 0.03
42 27 0.36
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (37 bp):
TATATATATATATATGAACTATATTTTACATATAAAC
Found at i:1024815 original size:18 final size:18
Alignment explanation
Indices: 1024717--1024827 Score: 89
Period size: 18 Copynumber: 5.7 Consensus size: 18
1024707 TATACTATAT
1024717 ATATGAACTATATTTTAC
1 ATATGAACTATATTTTAC
* *
1024735 ATATAAACTATATAGTTTAT
1 ATATGAACTATAT--TTTAC
*
1024755 ATACT-AACTATAGTTTAC
1 ATA-TGAACTATATTTTAC
* *
1024773 ATATAAATTATAGTTAATATTTAC
1 ATATGAA--CTA--T-AT-TTTAC
1024797 ATATGAACTATATTTTAC
1 ATATGAACTATATTTTAC
1024815 ATATGAACTATAT
1 ATATGAACTATAT
1024828 ATATAAACTA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.01
18 39 0.52
19 2 0.03
20 17 0.23
21 1 0.01
22 3 0.04
23 1 0.01
24 11 0.15
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATGAACTATATTTTAC
Found at i:1024830 original size:2 final size:2
Alignment explanation
Indices: 1024823--1024985 Score: 80
Period size: 2 Copynumber: 76.0 Consensus size: 2
1024813 ACATATGAAC
* * *
1024823 TA TA TA TA TA AA CTA TA TA GTT TA CA TA TGA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA
* *
1024866 TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA TA -A TT TA
1 TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA TA TA
* ** * *
1024908 CA TA TGA CC TA TA TA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA
1 TA TA T-A TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA
*
1024952 T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
1024986 ATTTACATAT
Statistics
Matches: 122, Mismatches: 22, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
1 3 0.02
2 98 0.80
3 21 0.17
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1024928 original size:49 final size:49
Alignment explanation
Indices: 1024868--1024978 Score: 170
Period size: 49 Copynumber: 2.3 Consensus size: 49
1024858 TATATATATA
* *
1024868 TATATATACTATAGTTGATATTTATATACTATATAATT-TACATATGACC
1 TATATATACTATAGTTGATATTTATATACTATAT-ATTATACATATAAAC
* *
1024917 TATATATACTATAGTTTATATTTATATACTATATATTATATATATAAAC
1 TATATATACTATAGTTGATATTTATATACTATATATTATACATATAAAC
1024966 TATATATACTATA
1 TATATATACTATA
1024979 TAGTATAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 3 0.05
49 54 0.95
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (49 bp):
TATATATACTATAGTTGATATTTATATACTATATATTATACATATAAAC
Found at i:1025002 original size:34 final size:36
Alignment explanation
Indices: 1024939--1025007 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
1024929 AGTTTATATT
*
1024939 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
1024975 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
1025008 AAAACCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:1025006 original size:49 final size:49
Alignment explanation
Indices: 1024791--1025007 Score: 123
Period size: 49 Copynumber: 4.4 Consensus size: 49
1024781 TATAGTTAAT
* * *
1024791 ATTTACATATGAACTATATTTTACATATGAACTATATATA-TAAACTA-TATA
1 ATTTACATATGAA-TATA---TATATATAAACTATATATACTATACTAGTATA
* * * *
1024842 GTTTACATATG-ATATATATATATATA-TATATATACTATAGTTG-AT-
1 ATTTACATATGAATATATATATATAAACTATATATACTATACTAGTATA
* * * * * * *
1024887 ATTTATATACT-ATATAATTTACATATGACCTATATATACTATAGT-TTAT-
1 ATTTACATA-TGA-AT-ATATATATATAAACTATATATACTATACTAGTATA
*
1024936 ATTTATATACT-ATATATTATATATATAAACTATATATACTATA-TAGTATA
1 ATTTACATA-TGA-ATA-TATATATATAAACTATATATACTATACTAGTATA
1024986 ATTTACATATGAACTATATATA
1 ATTTACATATGAA-TATATATA
1025008 AAAACCCTAA
Statistics
Matches: 132, Mismatches: 21, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
45 15 0.11
46 14 0.11
47 2 0.02
48 10 0.08
49 69 0.52
50 12 0.09
51 10 0.08
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (49 bp):
ATTTACATATGAATATATATATATAAACTATATATACTATACTAGTATA
Found at i:1025133 original size:33 final size:33
Alignment explanation
Indices: 1025022--1025131 Score: 157
Period size: 33 Copynumber: 3.3 Consensus size: 33
1025012 CCCTAAACCC
* * *
1025022 TAAACTATACATTATATAGTTTATCAGTGTATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
1025055 TAAACTATACATTATATGTAGTTCATTAGTATATA
1 TAAACTATACATTATA--TAGTTCATTAGTATATA
* *
1025090 TAAACTATATATTATATAGTTCATTAATATATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
1025123 TAAACTATA
1 TAAACTATA
1025132 TAGTGTATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
33 41 0.59
35 29 0.41
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (33 bp):
TAAACTATACATTATATAGTTCATTAGTATATA
Done.