Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 42
Found at i:4126454 original size:18 final size:18
Alignment explanation
Indices: 4126295--4126474 Score: 87
Period size: 18 Copynumber: 10.0 Consensus size: 18
4126285 CCTTTAGCGC
*
4126295 ACTTTCGGTTTTTCAGGT
1 ACTTTCGGTTTTTCGGGT
* *
4126313 TCTTTAGGCTTTTT-GTGG-
1 ACTTTCGG-TTTTTCG-GGT
* * * *
4126331 GCTTTGGGCTTCTCGGGT
1 ACTTTCGGTTTTTCGGGT
* * * *
4126349 TCCTTCGGCTTTTCGGGC
1 ACTTTCGGTTTTTCGGGT
4126367 ACTTTCGGTTTTTCGGGTT
1 ACTTTCGGTTTTTCGGG-T
* * *
4126386 CCTTT-GGCTTTTCGGGC
1 ACTTTCGGTTTTTCGGGT
* *
4126403 GCTTTGGGTTTTTCGGGT
1 ACTTTCGGTTTTTCGGGT
* * * *
4126421 TCCTTCGGCTTCTCGGGT
1 ACTTTCGGTTTTTCGGGT
* *
4126439 ACTTTGGGTTTTTCGGTT
1 ACTTTCGGTTTTTCGGGT
* **
4126457 TCTTTTTGTTTTTCGGGT
1 ACTTTCGGTTTTTCGGGT
4126475 GCAGGTAGTT
Statistics
Matches: 119, Mismatches: 37, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
17 9 0.08
18 99 0.83
19 11 0.09
ACGTcount: A:0.03, C:0.19, G:0.29, T:0.49
Consensus pattern (18 bp):
ACTTTCGGTTTTTCGGGT
Found at i:4126470 original size:72 final size:72
Alignment explanation
Indices: 4126293--4126473 Score: 231
Period size: 72 Copynumber: 2.5 Consensus size: 72
4126283 CTCCTTTAGC
* *
4126293 GCACTTTCGGTTTTTCAGGTT-CTTTAGGCTTTTTGTGG-GCTTTGGGCTTCTCGGGTTCCTTCG
1 GCACTTTCGGTTTTTCGGGTTCCTTT-GGCTTTTCG-GGCGCTTTGGGCTTCTCGGGTTCCTTCG
*
4126356 GCTTTTCGG
64 GCTTCTCGG
* *
4126365 GCACTTTCGGTTTTTCGGGTTCCTTTGGCTTTTCGGGCGCTTTGGGTTTTTCGGGTTCCTTCGGC
1 GCACTTTCGGTTTTTCGGGTTCCTTTGGCTTTTCGGGCGCTTTGGGCTTCTCGGGTTCCTTCGGC
4126430 TTCTCGG
66 TTCTCGG
* * * * * *
4126437 GTACTTTGGGTTTTTCGGTTTCTTTTTGTTTTTCGGG
1 GCACTTTCGGTTTTTCGGGTTCCTTTGGCTTTTCGGG
4126474 TGCAGGTAGT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 2 0.02
72 90 0.94
73 4 0.04
ACGTcount: A:0.03, C:0.20, G:0.29, T:0.48
Consensus pattern (72 bp):
GCACTTTCGGTTTTTCGGGTTCCTTTGGCTTTTCGGGCGCTTTGGGCTTCTCGGGTTCCTTCGGC
TTCTCGG
Found at i:4126474 original size:36 final size:36
Alignment explanation
Indices: 4126293--4126473 Score: 186
Period size: 36 Copynumber: 5.0 Consensus size: 36
4126283 CTCCTTTAGC
* * *
4126293 GCACTTTCGGTTTTTCAGGTT-CTTTAGGCTTTTTGTG
1 GCACTTTGGGTTTTTCGGGTTCCTTT-GGCTTTTCG-G
* * * *
4126330 G-GCTTTGGGCTTCTCGGGTTCCTTCGGCTTTTCGG
1 GCACTTTGGGTTTTTCGGGTTCCTTTGGCTTTTCGG
*
4126365 GCACTTTCGGTTTTTCGGGTTCCTTTGGCTTTTCGG
1 GCACTTTGGGTTTTTCGGGTTCCTTTGGCTTTTCGG
* * *
4126401 GCGCTTTGGGTTTTTCGGGTTCCTTCGGCTTCTCGG
1 GCACTTTGGGTTTTTCGGGTTCCTTTGGCTTTTCGG
* * * * *
4126437 GTACTTTGGGTTTTTCGGTTTCTTTTTGTTTTTCGG
1 GCACTTTGGGTTTTTCGGGTTCCTTTGGCTTTTCGG
4126473 G
1 G
4126474 TGCAGGTAGT
Statistics
Matches: 118, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
35 2 0.02
36 112 0.95
37 4 0.03
ACGTcount: A:0.03, C:0.20, G:0.29, T:0.48
Consensus pattern (36 bp):
GCACTTTGGGTTTTTCGGGTTCCTTTGGCTTTTCGG
Found at i:4130823 original size:2 final size:2
Alignment explanation
Indices: 4130816--4130875 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
4130806 TATGTTATTA
4130816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4130858 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
4130876 GAGATTCATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4134531 original size:29 final size:29
Alignment explanation
Indices: 4134499--4134573 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
4134489 TTTTTTATCT
*
4134499 AAGTACCTAAAGTAT-TTTTTTGTCAAAGA
1 AAGTACCTAAAGTATATTTTTAGTCAAA-A
* **
4134528 AAGTATCTAATTTATATTTTTAGTCAAAA
1 AAGTACCTAAAGTATATTTTTAGTCAAAA
*
4134557 CAGATACCTAAAGTATA
1 AAG-TACCTAAAGTATA
4134574 ATCAAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (29 bp):
AAGTACCTAAAGTATATTTTTAGTCAAAA
Found at i:4134587 original size:24 final size:24
Alignment explanation
Indices: 4134551--4134596 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4134541 ATATTTTTAG
4134551 TCAAAACAGATACCTAAAGTATAA
1 TCAAAACAGATACCTAAAGTATAA
* * *
4134575 TCAAAATATATACTTAAAGTAT
1 TCAAAACAGATACCTAAAGTAT
4134597 TCATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (24 bp):
TCAAAACAGATACCTAAAGTATAA
Found at i:4136668 original size:51 final size:51
Alignment explanation
Indices: 4136608--4136711 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
4136598 ACTTCCTTCC
* *
4136608 AACATGAGAATTTTAACAAAAATTGAAACATTCGGAGAAAAATACTCCAAA
1 AACATGAGAATTTTAACAAAAATTAAAACATTCGGAGAAAAATAATCCAAA
*
4136659 AACATGAGAATTTTAACGAAAATTAAAACATTCGGAGAAAAATAATCCAAA
1 AACATGAGAATTTTAACAAAAATTAAAACATTCGGAGAAAAATAATCCAAA
4136710 AA
1 AA
4136712 TAAAAATAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (51 bp):
AACATGAGAATTTTAACAAAAATTAAAACATTCGGAGAAAAATAATCCAAA
Found at i:4143518 original size:29 final size:29
Alignment explanation
Indices: 4143483--4143564 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
4143473 AAACTAAATT
*
4143483 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTACTTACATCATTTAAGTAAA
* *
4143512 GATGTCATTTCTTACATCATTTAAGTAAT
1 GATGTCATTACTTACATCATTTAAGTAAA
* *
4143541 GATGTCATTGCTTATATCAATTTA
1 GATGTCATTACTTACATC-ATTTA
4143565 GTTAGGTGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 42 0.89
30 5 0.11
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (29 bp):
GATGTCATTACTTACATCATTTAAGTAAA
Found at i:4144826 original size:24 final size:24
Alignment explanation
Indices: 4144799--4144849 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
4144789 AACGTGGCCA
*
4144799 AGGTAGAGGTAGAGGCCATGGACG
1 AGGTAGAAGTAGAGGCCATGGACG
* * * *
4144823 AGGTGGAAGTCGAGGTCGTGGACG
1 AGGTAGAAGTAGAGGCCATGGACG
4144847 AGG
1 AGG
4144850 CTGGAATTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.49, T:0.14
Consensus pattern (24 bp):
AGGTAGAAGTAGAGGCCATGGACG
Found at i:4145476 original size:15 final size:15
Alignment explanation
Indices: 4145456--4145484 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4145446 TGTTCTTGAT
4145456 CATCTCAATTTTGGG
1 CATCTCAATTTTGGG
4145471 CATCTCAATTTTGG
1 CATCTCAATTTTGG
4145485 AGGTCTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (15 bp):
CATCTCAATTTTGGG
Found at i:4148222 original size:29 final size:29
Alignment explanation
Indices: 4148187--4148268 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
4148177 AAACTAAATT
* *
4148187 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
4148216 GATGTCATTGTTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
4148245 GATGTCATTGCTTATATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
4148269 GTTAGGTGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 41 0.89
30 5 0.11
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:4158892 original size:13 final size:13
Alignment explanation
Indices: 4158874--4158898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4158864 GATGAGTTAT
4158874 ATTTTATAATTTA
1 ATTTTATAATTTA
4158887 ATTTTATAATTT
1 ATTTTATAATTT
4158899 TTTATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTATAATTTA
Found at i:4159230 original size:13 final size:15
Alignment explanation
Indices: 4159198--4159238 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4159188 AAGAACCATT
*
4159198 AATATTTAATATATA
1 AATAATTAATATATA
4159213 AATAATTAAT-TA-A
1 AATAATTAATATATA
4159226 AATAA-TAATATAT
1 AATAATTAATATAT
4159239 CATAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 2 0.09
15 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATTAATATATA
Found at i:4169421 original size:21 final size:22
Alignment explanation
Indices: 4169388--4169430 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4169378 CATATAAATG
*
4169388 TTAATATTGTTAATAA-TTTAAT
1 TTAAAATTGTTAA-AAGTTTAAT
4169410 TTAAAATT-TTAAAAGTTTAAT
1 TTAAAATTGTTAAAAGTTTAAT
4169431 ATATTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
TTAAAATTGTTAAAAGTTTAAT
Found at i:4169621 original size:31 final size:31
Alignment explanation
Indices: 4169583--4169641 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4169573 CTTAAATATC
*
4169583 TCGTGATTTGTCTC-TCTCATCTACAATCCTA
1 TCGTGA-TTGTCTCGTATCATCTACAATCCTA
*
4169614 TCGTGATTGTCTCGTATTATCTACAATC
1 TCGTGATTGTCTCGTATCATCTACAATC
4169642 TTAGCATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.42
Consensus pattern (31 bp):
TCGTGATTGTCTCGTATCATCTACAATCCTA
Found at i:4184912 original size:33 final size:33
Alignment explanation
Indices: 4184851--4184957 Score: 135
Period size: 33 Copynumber: 3.3 Consensus size: 33
4184841 GCCCTAAGCC
* * *
4184851 TCCTGATCATACACG-TTCTTTATTTGAAAGGG
1 TCCTGATCACACACGTTTTTTTATCTGAAAGGG
4184883 TCCTGATCACACACGTTTTTTTATCTGAAAGGG
1 TCCTGATCACACACGTTTTTTTATCTGAAAGGG
**** *
4184916 TCCTGATCACATGTTTTTTTTTATCTGAACGGG
1 TCCTGATCACACACGTTTTTTTATCTGAAAGGG
4184949 TCCTGATCA
1 TCCTGATCA
4184958 TACGTTGGGA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
32 14 0.21
33 52 0.79
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (33 bp):
TCCTGATCACACACGTTTTTTTATCTGAAAGGG
Found at i:4195091 original size:128 final size:128
Alignment explanation
Indices: 4194863--4195213 Score: 648
Period size: 128 Copynumber: 2.7 Consensus size: 128
4194853 ACTATTCATA
*
4194863 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
4194928 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
4194991 TGAAGGCGTGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
4195056 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * *
4195119 TGAAGGCGCGTTCCCGAGGGCGCGCCTTCCATTATTTTGTCATAGAATATATTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
4195184 TTATGTCACTTATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
4195214 GATGGATTGT
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 216 1.00
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:4195655 original size:34 final size:34
Alignment explanation
Indices: 4195617--4195717 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
4195607 AAATTTAATG
*
4195617 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
4195651 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
4195685 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
4195718 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:4196954 original size:23 final size:23
Alignment explanation
Indices: 4196898--4196955 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
4196888 ACTGAAACTG
*
4196898 AAATATAAATATAC-AATTCAAAT
1 AAATA-AAATATTCTAATTCAAAT
4196921 AAATAAAATATTCTAATT-AAAT
1 AAATAAAATATTCTAATTCAAAT
*
4196943 AAGTAAACATATT
1 AAATAAA-ATATT
4196956 TAAAAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAAAATATTCTAATTCAAAT
Found at i:4197896 original size:17 final size:17
Alignment explanation
Indices: 4197860--4197914 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
4197850 TACATTATAA
* * *
4197860 AAATTTAAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
4197877 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
4197894 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
4197911 AAAT
1 AAAT
4197915 ATTAACAGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:4198118 original size:32 final size:37
Alignment explanation
Indices: 4198059--4198138 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 37
4198049 TAATAATTCT
*
4198059 AAATAAATAATAATTATATAAATATTATTTTAATA-A
1 AAATAAATAATAATTATATAAATATTATATTAATATA
*
4198095 AAATAAA-AAT-ATT-TATATA-ATTATATTAATATA
1 AAATAAATAATAATTATATAAATATTATATTAATATA
4198128 AAATATAATAA
1 AAATA-AATAA
4198139 CTATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 11 0.28
33 11 0.28
34 5 0.13
35 5 0.13
36 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
AAATAAATAATAATTATATAAATATTATATTAATATA
Found at i:4201020 original size:31 final size:31
Alignment explanation
Indices: 4200983--4201043 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
4200973 CTAAAATTCA
4200983 ATATTGATACTTTTGTAGCATCAAATTAAGC
1 ATATTGATACTTTTGTAGCATCAAATTAAGC
4201014 ATATTGATACTTTTGTAGCATCAAATTAAG
1 ATATTGATACTTTTGTAGCATCAAATTAAG
4201044 TATCATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (31 bp):
ATATTGATACTTTTGTAGCATCAAATTAAGC
Found at i:4202874 original size:45 final size:47
Alignment explanation
Indices: 4202814--4202935 Score: 133
Period size: 52 Copynumber: 2.5 Consensus size: 47
4202804 AGATGTACGT
* *
4202814 ACTTACTCCGATGTAAGTTTGTATTG-AGAT-TTTTTTATTTTATTC
1 ACTTACACCGATGTAAGTATGTATTGCAGATATTTTTTATTTTATTC
* *
4202859 ACTTACACCTG-TGTAAGTACGTGTTAAGTGCTATATATTTTTTATTTTATTC
1 ACTTACACC-GATGTAAGTA--TG-T-ATTGC-AGATATTTTTTATTTTATTC
4202911 ACTTACACCGATGTAAGTATGTATT
1 ACTTACACCGATGTAAGTATGTATT
4202936 AAGTGCTACA
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
45 15 0.24
46 1 0.02
47 2 0.03
48 3 0.05
49 4 0.06
50 2 0.03
51 4 0.06
52 32 0.51
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (47 bp):
ACTTACACCGATGTAAGTATGTATTGCAGATATTTTTTATTTTATTC
Found at i:4202977 original size:52 final size:52
Alignment explanation
Indices: 4202843--4203002 Score: 205
Period size: 52 Copynumber: 3.1 Consensus size: 52
4202833 TGTATTGAGA
** * *
4202843 TTTTTTTATTTTATTCACTTACACCTGTGTAAGTACGTGTTAAGTGCTATA-
1 TTTTTTTATTTTATTCACTTACACCAATGTAAGTATGTGTTAAGTGCTACAC
* *
4202894 TATTTTTTATTTTATTCACTTACACCGATGTAAGTATGTATTAAGTGCTACAC
1 T-TTTTTTATTTTATTCACTTACACCAATGTAAGTATGTGTTAAGTGCTACAC
* ** * *
4202947 TTTTTTTATTTTATTCACTTATAAAAATGTAAGTATGTGCTAAGTTCTACAC
1 TTTTTTTATTTTATTCACTTACACCAATGTAAGTATGTGTTAAGTGCTACAC
4202999 TTTT
1 TTTT
4203003 CTGTAACATG
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
51 1 0.01
52 93 0.98
53 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (52 bp):
TTTTTTTATTTTATTCACTTACACCAATGTAAGTATGTGTTAAGTGCTACAC
Found at i:4206534 original size:12 final size:12
Alignment explanation
Indices: 4206519--4206548 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4206509 ACACCTTATG
4206519 ACCTTTAGAATC
1 ACCTTTAGAATC
*
4206531 ACCTTTAGCATC
1 ACCTTTAGAATC
4206543 ACCTTT
1 ACCTTT
4206549 TCCACTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.37
Consensus pattern (12 bp):
ACCTTTAGAATC
Found at i:4206645 original size:13 final size:14
Alignment explanation
Indices: 4206627--4206655 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4206617 ATCACCATCC
4206627 TTGTGTAAAAT-AT
1 TTGTGTAAAATCAT
4206640 TTGTGTAAAATCAT
1 TTGTGTAAAATCAT
4206654 TT
1 TT
4206656 TCGCACCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (14 bp):
TTGTGTAAAATCAT
Found at i:4206991 original size:29 final size:28
Alignment explanation
Indices: 4206941--4206995 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
4206931 TATATTTCTT
* *
4206941 ATCTTATATTCATTCAATTAAACTAATA
1 ATCTTACATTCATTCAAATAAACTAATA
*
4206969 ATCTTACATTTATGTCAAATAAACTAA
1 ATCTTACATTCAT-TCAAATAAACTAA
4206996 ACATGATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (28 bp):
ATCTTACATTCATTCAAATAAACTAATA
Found at i:4213577 original size:3 final size:3
Alignment explanation
Indices: 4213566--4213600 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
4213556 TGTTATAATA
4213566 ATT ATTT ATT ATT ATT ATT ATT AATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
4213601 TCTATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4213585 original size:16 final size:16
Alignment explanation
Indices: 4213566--4213600 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4213556 TGTTATAATA
*
4213566 ATTATTTATTATTATT
1 ATTATTAATTATTATT
4213582 ATTATTAATTATTATT
1 ATTATTAATTATTATT
4213598 ATT
1 ATT
4213601 TCTATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTAATTATTATT
Found at i:4213598 original size:13 final size:13
Alignment explanation
Indices: 4213561--4213600 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
4213551 ATATATGTTA
*
4213561 TAATAATTATTTAT
1 TAATTATTA-TTAT
4213575 T-ATTATTATTAT
1 TAATTATTATTAT
4213587 TAATTATTATTAT
1 TAATTATTATTAT
4213600 T
1 T
4213601 TCTATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 18 0.75
14 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAATTATTATTAT
Found at i:4213606 original size:19 final size:19
Alignment explanation
Indices: 4213566--4213610 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4213556 TGTTATAATA
*
4213566 ATTATTTATTATTATTATT
1 ATTAATTATTATTATTATT
4213585 ATTAATTATTATTATT-TCT
1 ATTAATTATTATTATTAT-T
4213604 ATTAATT
1 ATTAATT
4213611 TTTTATGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTAATTATTATTATTATT
Found at i:4214577 original size:21 final size:21
Alignment explanation
Indices: 4214553--4214593 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4214543 CATTTTTAAC
4214553 ATTTTTC-CTCACAATTTATTT
1 ATTTTTCTCT-ACAATTTATTT
*
4214574 ATTTTTCTCTTCAATTTATT
1 ATTTTTCTCTACAATTTATT
4214594 CAGTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTCTCTACAATTTATTT
Found at i:4215699 original size:22 final size:21
Alignment explanation
Indices: 4215673--4215729 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
4215663 CAAGATGATT
4215673 TTTAATTTAAAATATTATTATA
1 TTTAATTTAAAATATT-TTATA
*
4215695 TTTAATCTAAAA-A-TTTATA
1 TTTAATTTAAAATATTTTATA
*
4215714 -TTAATTTATAATATTT
1 TTTAATTTAAAATATTT
4215730 GTAATTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 9 0.30
19 6 0.20
20 3 0.10
21 1 0.03
22 11 0.37
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATTTAAAATATTTTATA
Found at i:4215714 original size:19 final size:19
Alignment explanation
Indices: 4215690--4215754 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
4215680 TAAAATATTA
4215690 TTATATTTAATCTAAAAAT
1 TTATATTTAATCTAAAAAT
* *
4215709 TTATA-TTAATTTATAATAT
1 TTATATTTAATCTA-AAAAT
* *
4215728 TTGTAATTGTAATC-AAAAAA
1 TTAT-ATT-TAATCTAAAAAT
4215748 TTATATT
1 TTATATT
4215755 ACGATAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 7 0.20
19 15 0.43
20 7 0.20
21 2 0.06
22 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TTATATTTAATCTAAAAAT
Found at i:4215741 original size:40 final size:39
Alignment explanation
Indices: 4215674--4215755 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
4215664 AAGATGATTT
*
4215674 TTAATTTAAAATATTATTATATTTAATCTAAAAATTTATA
1 TTAATTTAAAATATTATTATATTTAATC-AAAAAATTATA
*
4215714 TTAATTTATAATATT-TGTA-ATTGTAATCAAAAAATTATA
1 TTAATTTAAAATATTAT-TATATT-TAATCAAAAAATTATA
4215753 TTA
1 TTA
4215756 CGATAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (39 bp):
TTAATTTAAAATATTATTATATTTAATCAAAAAATTATA
Found at i:4216075 original size:5 final size:5
Alignment explanation
Indices: 4216065--4216089 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4216055 TTTGATCTTA
4216065 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
4216090 GACATGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4218097 original size:35 final size:35
Alignment explanation
Indices: 4218049--4218124 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
4218039 AAAACAGTCC
* *
4218049 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
4218084 TTAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
4218119 TCAATT
1 TCAATT
4218125 AAATTCAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:4218723 original size:23 final size:21
Alignment explanation
Indices: 4218678--4218724 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
4218668 AATTAATCAT
4218678 TTAACCATGATCTGACATGTG
1 TTAACCATGATCTGACATGTG
*
4218699 TTAACACATGATCATGATATGTG
1 TTAAC-CATGATC-TGACATGTG
4218722 TTA
1 TTA
4218725 TTGGTGACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 11 0.48
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (21 bp):
TTAACCATGATCTGACATGTG
Found at i:4218782 original size:130 final size:129
Alignment explanation
Indices: 4218524--4218782 Score: 290
Period size: 130 Copynumber: 2.0 Consensus size: 129
4218514 TTATATAATC
* ** *
4218524 AATAGAATTTAATAAATTAATCATTTAATTAGAATCTGACATGTGTTAGCACATGATCATGACAC
1 AATAAAATTTAATAAATTAATCATTTAACCAGAATCTGACATGTGTTAACACATGATCATGACAC
*** * * **** *
4218589 GTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCTAAATTA
66 GTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CAAAATTA
*
4218654 AATAAAATTTAATAAATTAATCATTTAACCATG-ATCTGACATGTGTTAACACATGATCATGATA
1 AATAAAATTTAATAAATTAATCATTTAACCA-GAATCTGACATGTGTTAACACATGATCATGACA
* * *
4218718 TGTGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT-AAAA
65 CGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGTCAAAA
4218781 TT
127 TT
4218783 TGGGTCTTGG
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
130 93 0.87
131 1 0.01
132 8 0.07
133 5 0.05
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AATAAAATTTAATAAATTAATCATTTAACCAGAATCTGACATGTGTTAACACATGATCATGACAC
GTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCAAAATTA
Found at i:4219243 original size:16 final size:18
Alignment explanation
Indices: 4219222--4219255 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
4219212 ATTTCTTATT
4219222 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
4219238 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
4219256 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:4220928 original size:18 final size:18
Alignment explanation
Indices: 4220905--4220942 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4220895 CGAGTTCCGG
4220905 CCAACGAAGCGAAAGACA
1 CCAACGAAGCGAAAGACA
4220923 CCAACGAAGCGAAAGACA
1 CCAACGAAGCGAAAGACA
4220941 CC
1 CC
4220943 GGATGTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.32, G:0.21, T:0.00
Consensus pattern (18 bp):
CCAACGAAGCGAAAGACA
Found at i:4221421 original size:31 final size:31
Alignment explanation
Indices: 4221385--4221443 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
4221375 AACTTAAAAG
*
4221385 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
4221416 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
4221444 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:4221492 original size:22 final size:22
Alignment explanation
Indices: 4221467--4221545 Score: 142
Period size: 22 Copynumber: 3.6 Consensus size: 22
4221457 ATAATACATT
4221467 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
4221489 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
4221511 TTTTAAAATAAATCAATAT-ATA
1 TTTTAAAATAAATCAAT-TCATA
4221533 TTTTAAAATAAAT
1 TTTTAAAATAAAT
4221546 TTTAAAATAG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
22 55 0.98
23 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:4221562 original size:11 final size:12
Alignment explanation
Indices: 4221510--4221559 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
4221500 ATCAATTCAT
4221510 ATTTTAAAATAA
1 ATTTTAAAATAA
* * *
4221522 A--TCAATATAT
1 ATTTTAAAATAA
4221532 ATTTTAAAATAA
1 ATTTTAAAATAA
*
4221544 ATTTTAAAATAG
1 ATTTTAAAATAA
4221556 ATTT
1 ATTT
4221560 AAATGATATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:4236333 original size:11 final size:10
Alignment explanation
Indices: 4236312--4236344 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
4236302 ATGCTATTCG
4236312 AAAAAGAAAA
1 AAAAAGAAAA
4236322 AAAAAGAGAAA
1 AAAAAGA-AAA
4236333 AAAAAGAAAA
1 AAAAAGAAAA
4236343 AA
1 AA
4236345 TACATGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:4236333 original size:12 final size:11
Alignment explanation
Indices: 4236312--4236344 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4236302 ATGCTATTCG
4236312 AAAAAG-AAAA
1 AAAAAGAAAAA
*
4236322 AAAAAGAGAAA
1 AAAAAGAAAAA
4236333 AAAAAGAAAAA
1 AAAAAGAAAAA
4236344 A
1 A
4236345 TACATGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:4237436 original size:7 final size:6
Alignment explanation
Indices: 4237393--4237435 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
4237383 TTATAAAAGC
4237393 TTTTTA TTTTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
4237436 TCCTTTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.64
7 13 0.36
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:4238543 original size:31 final size:31
Alignment explanation
Indices: 4238508--4238574 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
4238498 AAAAAAAATA
4238508 TAAGATATAATCACCTTCATTTTCATTTAAT
1 TAAGATATAATCACCTTCATTTTCATTTAAT
* * * *
4238539 TAAGATGTAATCACTTTCGTTTTTATTTAAT
1 TAAGATATAATCACCTTCATTTTCATTTAAT
4238570 TAAGA
1 TAAGA
4238575 CGTAATCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAGATATAATCACCTTCATTTTCATTTAAT
Found at i:4238580 original size:31 final size:31
Alignment explanation
Indices: 4238515--4238582 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
4238505 ATATAAGATA
*
4238515 TAATCACCTTCATTTTCATTTAATTAAGATG
1 TAATCACCTTCATTTTCATTTAATTAAGACG
* * *
4238546 TAATCACTTTCGTTTTTATTTAATTAAGACG
1 TAATCACCTTCATTTTCATTTAATTAAGACG
4238577 TAATCA
1 TAATCA
4238583 TTGCATGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (31 bp):
TAATCACCTTCATTTTCATTTAATTAAGACG
Found at i:4243316 original size:10 final size:10
Alignment explanation
Indices: 4243301--4243327 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4243291 GGAAGAAGAG
4243301 GAGGGGTGTT
1 GAGGGGTGTT
4243311 GAGGGGTGTT
1 GAGGGGTGTT
4243321 GAGGGGT
1 GAGGGGT
4243328 ATTATCGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.63, T:0.26
Consensus pattern (10 bp):
GAGGGGTGTT
Found at i:4246941 original size:2 final size:2
Alignment explanation
Indices: 4246932--4246961 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4246922 TTTCTTTATT
4246932 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4246962 TTAATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4249879 original size:16 final size:16
Alignment explanation
Indices: 4249858--4249892 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4249848 GGTGAGTGCA
*
4249858 ATACATGCATGACATT
1 ATACATACATGACATT
4249874 ATACATACATGACATT
1 ATACATACATGACATT
4249890 ATA
1 ATA
4249893 TATGGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (16 bp):
ATACATACATGACATT
Found at i:4250257 original size:40 final size:40
Alignment explanation
Indices: 4250202--4250362 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
4250192 TGCAGGTTTA
*
4250202 TAATACACTTCGGTGTATATGGTGGGCATAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
4250242 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
4250282 TAATACACTT-GGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
4250321 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
4250361 TA
1 TA
4250363 GCACTACGGT
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
39 38 0.32
40 80 0.68
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
Found at i:4250308 original size:79 final size:80
Alignment explanation
Indices: 4250202--4250362 Score: 288
Period size: 79 Copynumber: 2.0 Consensus size: 80
4250192 TGCAGGTTTA
*
4250202 TAATACACTTCGGTGTATATGGTGGGCATAACCTTATGTGTAATACACTTCGGTGTATATGGTGG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAATACACTTCGGTGTATATGGTGG
4250267 GCACAACCTTATGTG
66 GCACAACCTTATGTG
*
4250282 TAATACACTT-GGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAATACACTTCGGTGTATATGGTGG
*
4250346 GCACGACCTTATGTG
66 GCACAACCTTATGTG
4250361 TA
1 TA
4250363 GCACTACGGT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 68 0.87
80 10 0.13
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (80 bp):
TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAATACACTTCGGTGTATATGGTGG
GCACAACCTTATGTG
Found at i:4250531 original size:45 final size:45
Alignment explanation
Indices: 4250467--4250816 Score: 549
Period size: 45 Copynumber: 7.8 Consensus size: 45
4250457 GTAAGAATGC
* *
4250467 AAATAATCTTTCGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
4250512 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
4250557 AAATAAGCTTACGAACTTATGAAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
4250602 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGGA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4250647 AAATAAGCCTACGAACTTATGGAATAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
4250692 AAATAAGCTTACGAGCTTATGGAATAAATGGTTAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
4250737 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4250782 GAATAAGCTTACGAGTTTATAGGAA-AAATGATAAG
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAG
4250817 AAATTTTATA
Statistics
Matches: 283, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 279 0.99
46 4 0.01
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:4252353 original size:44 final size:45
Alignment explanation
Indices: 4252234--4252358 Score: 171
Period size: 47 Copynumber: 2.8 Consensus size: 45
4252224 TATAATCATT
* *
4252234 TTACCGTTTATCCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
4252279 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTT--ATTCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
*
4252326 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCAAAAGCTCGTAAGCTTATTT
4252359 GTATGCTTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 24 0.34
45 8 0.11
46 2 0.03
47 37 0.52
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (45 bp):
TTACCATTTATTCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:4252507 original size:40 final size:40
Alignment explanation
Indices: 4252463--4252544 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
4252453 ACCGTAGTGC
4252463 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4252503 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4252543 TA
1 TA
4252545 TAAACCTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4252802 original size:28 final size:27
Alignment explanation
Indices: 4252761--4252865 Score: 174
Period size: 27 Copynumber: 3.9 Consensus size: 27
4252751 TTTTTCGGAT
*
4252761 AAAAAACCAGTTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTTATCCGGTTTGA
4252788 AAAAAACCGGTTTTTTATCCGGTTTGAA
1 AAAAAACCGGTTTTTTATCCGGTTTG-A
*
4252816 AAAAAAACGGTTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTTATCCGGTTTGA
*
4252843 AAAAAACCGGTTTTTAATCCGGT
1 AAAAAACCGGTTTTTTATCCGGT
4252866 AAAAAAACCA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 47 0.64
28 26 0.36
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (27 bp):
AAAAAACCGGTTTTTTATCCGGTTTGA
Found at i:4252831 original size:55 final size:55
Alignment explanation
Indices: 4252761--4252865 Score: 183
Period size: 55 Copynumber: 1.9 Consensus size: 55
4252751 TTTTTCGGAT
* *
4252761 AAAAAACCAGTTTTTTATCCGGTTTGAAAAAAACCGGTTTTTTATCCGGTTTGAA
1 AAAAAAACAGTTTTTTATCCGGTTTGAAAAAAACCGGTTTTTAATCCGGTTTGAA
*
4252816 AAAAAAACGGTTTTTTATCCGGTTTGAAAAAAACCGGTTTTTAATCCGGT
1 AAAAAAACAGTTTTTTATCCGGTTTGAAAAAAACCGGTTTTTAATCCGGT
4252866 AAAAAAACCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (55 bp):
AAAAAAACAGTTTTTTATCCGGTTTGAAAAAAACCGGTTTTTAATCCGGTTTGAA
Found at i:4257933 original size:6 final size:6
Alignment explanation
Indices: 4257922--4257950 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4257912 ATCATAATCG
4257922 TGACCA TGACCA TGACCA TGACCA TGACC
1 TGACCA TGACCA TGACCA TGACCA TGACC
4257951 TATGGGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
TGACCA
Found at i:4259775 original size:44 final size:45
Alignment explanation
Indices: 4259656--4259780 Score: 171
Period size: 47 Copynumber: 2.8 Consensus size: 45
4259646 TATAATCATT
* *
4259656 TTACCGTTTATCCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
4259701 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTT--ATTCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
*
4259748 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCAAAAGCTCGTAAGCTTATTT
4259781 GTATGCTTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 24 0.34
45 8 0.11
46 2 0.03
47 37 0.52
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (45 bp):
TTACCATTTATTCCAAAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:4259929 original size:40 final size:40
Alignment explanation
Indices: 4259885--4260006 Score: 244
Period size: 40 Copynumber: 3.0 Consensus size: 40
4259875 ACCGTAGTGC
4259885 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4259925 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4259965 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4260005 TA
1 TA
4260007 TAAACCTGCA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4266213 original size:20 final size:20
Alignment explanation
Indices: 4266176--4266214 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4266166 AGATTGAGTG
* * *
4266176 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
4266196 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
4266215 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:4266422 original size:20 final size:21
Alignment explanation
Indices: 4266369--4266430 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 21
4266359 CCAGAACCCC
* **
4266369 AGGGGGGTATCGATTCCCCTGT
1 AGGGGGGAATCGATT-CCCTCA
* *
4266391 GGGGGGGAATCGGTTCCCTCA
1 AGGGGGGAATCGATTCCCTCA
4266412 AGGGGGG-ATCGATTCCCTC
1 AGGGGGGAATCGATTCCCTC
4266431 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 11 0.33
21 10 0.30
22 12 0.36
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.23
Consensus pattern (21 bp):
AGGGGGGAATCGATTCCCTCA
Found at i:4270200 original size:21 final size:21
Alignment explanation
Indices: 4270176--4270228 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
4270166 GAGTTTGTTT
*
4270176 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTTCATATTTT-AAAAA
4270197 TCATTTTT-ATATTTTAAAAA
1 TCATTTTTCATATTTTAAAAA
*
4270217 TAATTTTTCATA
1 TCATTTTTCATA
4270229 ATCCGAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (21 bp):
TCATTTTTCATATTTTAAAAA
Found at i:4272209 original size:11 final size:10
Alignment explanation
Indices: 4272195--4272271 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
4272185 TAAAAAATAT
*
4272195 AAAAAAACAG
1 AAAAAAAAAG
4272205 AAAAAAAAAG
1 AAAAAAAAAG
4272215 AAAAAAAAA-
1 AAAAAAAAAG
* *
4272224 AGAGAAAAGAG
1 A-AAAAAAAAG
* *
4272235 AAAGAAAACG
1 AAAAAAAAAG
*
4272245 AAGAAAAAATG
1 AA-AAAAAAAG
*
4272256 AAAATGAAAAG
1 AAAA-AAAAAG
4272267 AAAAA
1 AAAAA
4272272 GGGAAAAAAG
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
9 1 0.02
10 33 0.65
11 17 0.33
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4272221 original size:23 final size:24
Alignment explanation
Indices: 4272195--4272242 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
4272185 TAAAAAATAT
4272195 AAAAAAACAGAAAA-AAAAAGAAA
1 AAAAAAACAGAAAAGAAAAAGAAA
* *
4272218 AAAAAAAGAGAAAAGAGAAAGAAA
1 AAAAAAACAGAAAAGAAAAAGAAA
4272242 A
1 A
4272243 CGAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAAAAACAGAAAAGAAAAAGAAA
Found at i:4272266 original size:28 final size:29
Alignment explanation
Indices: 4272203--4272272 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
4272193 ATAAAAAAAC
4272203 AGAAAA-AAAAAGAAAAAAAAAAGAGAAA
1 AGAAAAGAAAAAGAAAAAAAAAAGAGAAA
* * *
4272231 AGAGAAAGAAAACGAAGAAAAAATGA-AAA
1 AGA-AAAGAAAAAGAAAAAAAAAAGAGAAA
*
4272260 TGAAAAGAAAAAG
1 AGAAAAGAAAAAG
4272273 GGAAAAAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.34
29 8 0.23
30 15 0.43
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (29 bp):
AGAAAAGAAAAAGAAAAAAAAAAGAGAAA
Found at i:4272271 original size:6 final size:6
Alignment explanation
Indices: 4272205--4272272 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
4272195 AAAAAAACAG
* * *
4272205 AAAA-A AAAAGA AAAA-A AAAAGA GAAAAGA GAAAGA AAACGA AGAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA
* *
4272251 AAATGA AAATG- AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAG
4272273 GGAAAAAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
5 16 0.32
6 28 0.56
7 6 0.12
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:4274572 original size:2 final size:2
Alignment explanation
Indices: 4274565--4274626 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
4274555 AATAGAAGTA
4274565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4274607 AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
4274627 GTTTATAAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4274633 original size:8 final size:8
Alignment explanation
Indices: 4274565--4274639 Score: 78
Period size: 8 Copynumber: 9.4 Consensus size: 8
4274555 AATAGAAGTA
*
4274565 ATATATAT
1 ATATATGT
*
4274573 ATATATAT
1 ATATATGT
*
4274581 ATATATAT
1 ATATATGT
*
4274589 ATATATAT
1 ATATATGT
*
4274597 ATATATAT
1 ATATATGT
*
4274605 ATATATAT
1 ATATATGT
4274613 ATATATGT
1 ATATATGT
4274621 ATATATGT
1 ATATATGT
* *
4274629 TTATAAGT
1 ATATATGT
4274637 ATA
1 ATA
4274640 ATATAGGTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 63 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (8 bp):
ATATATGT
Found at i:4275280 original size:31 final size:32
Alignment explanation
Indices: 4275195--4275284 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 32
4275185 AGTCGAGGGT
*
4275195 TTACCTATGTTCTACGGAACATATGGACATAA
1 TTACCTATGTTCTAAGGAACATATGGACATAA
***
4275227 TTACCTATG-TCTTTTGAGACATATGGAC--AA
1 TTACCTATGTTCTAAGGA-ACATATGGACATAA
4275257 TATACCTATGTTCTAAGGAACATATGGA
1 T-TACCTATGTTCTAAGGAACATATGGA
4275285 TAGTTTACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
30 3 0.06
31 22 0.45
32 24 0.49
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACATAA
Found at i:4275294 original size:31 final size:31
Alignment explanation
Indices: 4275193--4275301 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
4275183 AGAGTCGAGG
*
4275193 GTTTACCTATGTTCTACGGAACATATGGACATA
1 GTTTACCTATGTTCTAAGGAACATATGG--ATA
* *** *
4275226 -ATTACCTATG-TCTTTTGAGACATATGGACA
1 GTTTACCTATGTTCTAAGGA-ACATATGGATA
* *
4275256 ATATACCTATGTTCTAAGGAACATATGGATA
1 GTTTACCTATGTTCTAAGGAACATATGGATA
*
4275287 GTTTACCTAGGTTCT
1 GTTTACCTATGTTCT
4275302 TTGGGACCTA
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
30 2 0.03
31 35 0.59
32 22 0.37
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGATA
Found at i:4275303 original size:63 final size:61
Alignment explanation
Indices: 4275196--4275317 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 61
4275186 GTCGAGGGTT
* *
4275196 TACCTATGTTCTACGGAACATATGGACATAATTACCTATGTCTTTTGAGACATATGGACAATA
1 TACCTATGTTCTAAGGAACATATGGA-ATAATTACCTAGGTC-TTTGAGACATATGGACAATA
* * *
4275259 TACCTATGTTCTAAGGAACATATGG-ATAGTTTACCTAGGTTCTTTGGGACCTATGGACA
1 TACCTATGTTCTAAGGAACATATGGAATA-ATTACCTAGG-TCTTTGAGACATATGGACA
4275318 GTTGCTGAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 3 0.06
62 23 0.44
63 26 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (61 bp):
TACCTATGTTCTAAGGAACATATGGAATAATTACCTAGGTCTTTGAGACATATGGACAATA
Found at i:4275314 original size:31 final size:30
Alignment explanation
Indices: 4275279--4275353 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
4275269 CTAAGGAACA
*
4275279 TATGGATAGTTTACCT-AGGTTCTTTGGGACC
1 TATGGATAG-TT-CCTGAGGTTCTTTAGGACC
* * *
4275310 TATGGACAGTTGCTGAGGTTCTTTATGACC
1 TATGGATAGTTCCTGAGGTTCTTTAGGACC
*
4275340 TATGGATAGGTCCT
1 TATGGATAGTTCCT
4275354 TCAGGACATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.06
30 26 0.72
31 8 0.22
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.37
Consensus pattern (30 bp):
TATGGATAGTTCCTGAGGTTCTTTAGGACC
Found at i:4278835 original size:40 final size:40
Alignment explanation
Indices: 4278787--4278988 Score: 377
Period size: 40 Copynumber: 5.0 Consensus size: 40
4278777 TGCAGGTTTA
*
4278787 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATATG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4278827 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4278867 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4278907 TAATACACTTCGGTGTATATGGTGGACACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4278947 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4278987 TA
1 TA
4278989 GCACTACGGT
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 158 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4279144 original size:45 final size:45
Alignment explanation
Indices: 4279093--4279392 Score: 431
Period size: 45 Copynumber: 6.7 Consensus size: 45
4279083 GTAAGTATGC
* *
4279093 AAATAAGCTTCCGAGTTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
4279138 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGGA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
4279183 AAATAAGCTTACGAGCTTATGGAATAAATAGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4279228 AAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTATATAGGGA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * * * *
4279273 AAATAAGCTTACGAACTTATGTAATAAATGGTAATTGTATTTGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4279318 AAATAATCTTGCGAGCTTATGGAATAAATTGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
4279363 GAATAAACTTACGAGCTTATAGGAA-AAATG
1 AAATAAGCTTACGAGCTTAT-GGAATAAATG
4279393 ATAAAAAAAA
Statistics
Matches: 225, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 221 0.98
46 4 0.02
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:4288790 original size:27 final size:28
Alignment explanation
Indices: 4288760--4288819 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
4288750 TTCTTTTATA
*
4288760 TATTTTGACCACTCTT-TTCGTTCCTTT
1 TATTTTGACCACTCTTATTCCTTCCTTT
* * *
4288787 TA-TTTGACCTCTTTTATTCCTTTCTTT
1 TATTTTGACCACTCTTATTCCTTCCTTT
4288814 TATTTT
1 TATTTT
4288820 AGTCCCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 11 0.41
27 13 0.48
28 3 0.11
ACGTcount: A:0.12, C:0.22, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTTTGACCACTCTTATTCCTTCCTTT
Found at i:4289708 original size:17 final size:17
Alignment explanation
Indices: 4289681--4289719 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4289671 AATTTACAAT
4289681 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
4289697 TAATTATAAATAATATC
1 TAATTATAAATAATATC
4289714 TAATTA
1 TAATTA
4289720 ATTTAATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:4289799 original size:11 final size:11
Alignment explanation
Indices: 4289783--4289807 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4289773 TTGATTTGGG
4289783 TTTTAAATAGA
1 TTTTAAATAGA
4289794 TTTTAAATAGA
1 TTTTAAATAGA
4289805 TTT
1 TTT
4289808 GGGCCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
TTTTAAATAGA
Found at i:4294072 original size:21 final size:21
Alignment explanation
Indices: 4294043--4294084 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4294033 CCTAATATTG
*
4294043 CAATGTCAAAATTAGGTGCAA
1 CAATATCAAAATTAGGTGCAA
4294064 CAATATCAAAATTAGGTGCAA
1 CAATATCAAAATTAGGTGCAA
4294085 TAATGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (21 bp):
CAATATCAAAATTAGGTGCAA
Found at i:4298723 original size:21 final size:21
Alignment explanation
Indices: 4298698--4298745 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
4298688 CCTAATATTG
4298698 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
4298719 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
4298740 TAATGT
1 CAATGT
4298746 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:4300502 original size:33 final size:32
Alignment explanation
Indices: 4300464--4300529 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
4300454 GAATAAGTTT
* *
4300464 TTAAAAAATAAAAATCTATAAAAGTATTAAAAA
1 TTAAAAAATAAAAATCTA-AAAAATACTAAAAA
*
4300497 TTAAAAATTAAAAATCTAAAAAATACTAAAAA
1 TTAAAAAATAAAAATCTAAAAAATACTAAAAA
4300529 T
1 T
4300530 GACGAGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (32 bp):
TTAAAAAATAAAAATCTAAAAAATACTAAAAA
Found at i:4300508 original size:14 final size:15
Alignment explanation
Indices: 4300465--4300518 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 15
4300455 AATAAGTTTT
*
4300465 TAAAAAATAAAAATC
1 TAAAAATTAAAAATC
4300480 TATAAAAGTATTAAAAAT-
1 --TAAAA--ATTAAAAATC
4300498 TAAAAATTAAAAATC
1 TAAAAATTAAAAATC
4300513 TAAAAA
1 TAAAAA
4300519 ATACTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 9 0.27
15 6 0.18
16 5 0.15
17 5 0.15
19 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (15 bp):
TAAAAATTAAAAATC
Found at i:4300510 original size:8 final size:7
Alignment explanation
Indices: 4300489--4300518 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
4300479 CTATAAAAGT
4300489 ATTAAAA
1 ATTAAAA
4300496 ATTAAAA
1 ATTAAAA
4300503 ATTAAAA
1 ATTAAAA
4300510 ATCTAAAA
1 AT-TAAAA
4300518 A
1 A
4300519 ATACTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.73
8 6 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (7 bp):
ATTAAAA
Found at i:4302766 original size:31 final size:31
Alignment explanation
Indices: 4302731--4302789 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4302721 GTTTAATTCA
*
4302731 TTTAGGTATTTAACATTATAAACATTATTAC
1 TTTAGGTACTTAACATTATAAACATTATTAC
** *
4302762 TTTAGGTACTTAATGTTATAAATATTAT
1 TTTAGGTACTTAACATTATAAACATTAT
4302790 CATTTTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (31 bp):
TTTAGGTACTTAACATTATAAACATTATTAC
Found at i:4303147 original size:17 final size:16
Alignment explanation
Indices: 4303103--4303134 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
4303093 ATTTCAAGAA
4303103 TTAAGGA-TT-GAAAT
1 TTAAGGATTTAGAAAT
4303117 TTAAGGATTTAGAAAT
1 TTAAGGATTTAGAAAT
4303133 TT
1 TT
4303135 TAGGTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
TTAAGGATTTAGAAAT
Found at i:4306244 original size:3 final size:3
Alignment explanation
Indices: 4306238--4306298 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
4306228 ATCATACACA
4306238 AAT AAT AAT AAT AAT AAT 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 AAT
4306286 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
4306299 TTCATTGTAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4308979 original size:2 final size:2
Alignment explanation
Indices: 4308972--4309001 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4308962 TGTTTTAGGC
4308972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4309002 GGGTTATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4312682 original size:24 final size:28
Alignment explanation
Indices: 4312655--4312706 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 28
4312645 TTTAAATTAA
4312655 ATAAAT-ATTT-AAA-TTTAT-TTTATT
1 ATAAATAATTTAAAATTTTATATTTATT
4312679 ATAAATAATTTAAAATTTTATATTTATT
1 ATAAATAATTTAAAATTTTATATTTATT
4312707 TATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 3 0.12
27 5 0.21
28 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATAAATAATTTAAAATTTTATATTTATT
Found at i:4312721 original size:27 final size:27
Alignment explanation
Indices: 4312652--4312722 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
4312642 AAATTTAAAT
4312652 TAAATAAATATTTAAA-TTTATTTTATTA
1 TAAAT-AATA-TTAAATTTTATTTTATTA
4312680 TAAATAAT-TTAAAATTTTATATTTATT-
1 TAAATAATATT-AAATTTTAT-TTTATTA
**
4312707 TATTTAATATTAAATT
1 TAAATAATATTAAATT
4312723 AATAGAGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 19 0.51
28 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TAAATAATATTAAATTTTATTTTATTA
Found at i:4314743 original size:2 final size:2
Alignment explanation
Indices: 4314736--4314771 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4314726 CAGCGTTATG
4314736 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4314772 AATTCAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4318745 original size:21 final size:21
Alignment explanation
Indices: 4318705--4318746 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4318695 AGTATGCACA
*
4318705 AAAAATTATTTGATAGTATTG
1 AAAAATTATTTAATAGTATTG
4318726 AAAAATTATTTAAATA-TATTG
1 AAAAATTATTT-AATAGTATTG
4318747 TTCCTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
AAAAATTATTTAATAGTATTG
Found at i:4325664 original size:19 final size:19
Alignment explanation
Indices: 4325636--4325683 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
4325626 AGCTGGCTAT
4325636 CATC-TTCACCCTTGCCAC
1 CATCATTCACCCTTGCCAC
4325654 CATCATTCACCCTTGCCAC
1 CATCATTCACCCTTGCCAC
4325673 CATCATTCACC
1 CATCATTCACC
4325684 TCTGTCTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.21, C:0.48, G:0.04, T:0.27
Consensus pattern (19 bp):
CATCATTCACCCTTGCCAC
Found at i:4339855 original size:229 final size:227
Alignment explanation
Indices: 4339450--4339898 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
4339440 GTAAATTATC
* *
4339450 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATATTTAGT
**
4339515 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
4339580 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
4339645 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
4339678 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAATATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAATATATTTATTATTATATTTAG
* *
4339743 TTAATATTTTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* * *
4339808 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
4339873 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
4339899 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 170 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:4339987 original size:20 final size:19
Alignment explanation
Indices: 4339964--4340009 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
4339954 CGATATACCA
4339964 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
4339984 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
*
4340004 GATAAA
1 GGTAAA
4340010 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4340154 original size:20 final size:19
Alignment explanation
Indices: 4340131--4340177 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4340121 CGATATAACA
4340131 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4340151 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4340171 GGTAAAA
1 GGTAAAA
4340178 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4340179 original size:17 final size:19
Alignment explanation
Indices: 4340140--4340182 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
4340130 AGGTAAAAAT
4340140 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
4340160 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
4340177 ATGATA
1 ATGATA
4340183 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:4342456 original size:21 final size:21
Alignment explanation
Indices: 4342409--4342473 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4342399 AAGACAATCA
* *
4342409 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
4342431 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
4342451 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
4342472 AG
1 AG
4342474 GCATAAGGGG
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:4342549 original size:33 final size:33
Alignment explanation
Indices: 4342507--4342572 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4342497 AAATAGATGG
* *
4342507 AGTGGTGAAAGAAGTAGATGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
4342540 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
4342573 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:4344383 original size:19 final size:19
Alignment explanation
Indices: 4344359--4344407 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4344349 AATGTAGGGT
4344359 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
4344378 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
4344397 TATTTTTGTAT
1 TAATTTTGTAT
4344408 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:4345557 original size:198 final size:198
Alignment explanation
Indices: 4344532--4346010 Score: 2811
Period size: 198 Copynumber: 7.5 Consensus size: 198
4344522 GGCCAAAAGG
4344532 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
4344597 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4344662 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
4344727 AAT
196 AAT
*
4344730 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
* *
4344795 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCAAGAATGAATGGAAAACATGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
4344860 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
130 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
4344925 TAAT
195 TAAT
4344929 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
4344994 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
4345059 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
130 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
4345124 TAAT
195 TAAT
*
4345128 ATGTAATTTTTCAATCTAACCAGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
4345193 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4345257 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
4345322 AAT
196 AAT
*
4345325 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
4345390 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4345455 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
4345520 AAT
196 AAT
*
4345523 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
4345588 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4345652 ATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
4345716 AAT
196 AAT
*
4345719 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
4345784 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4345849 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
4345914 AAT
196 AAT
*
4345917 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
4345982 TGTCGACACTAATAGAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
4346011 CTAATTTAAA
Statistics
Matches: 1258, Mismatches: 19, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
196 170 0.14
197 240 0.19
198 458 0.36
199 390 0.31
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (198 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AAT
Found at i:4345928 original size:394 final size:395
Alignment explanation
Indices: 4344532--4346010 Score: 2825
Period size: 394 Copynumber: 3.7 Consensus size: 395
4344522 GGCCAAAAGG
4344532 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
4344597 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4344662 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
4344727 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
196 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
* * *
4344792 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCAAGAATGAATGGAAAACATGGTGC
261 ATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGC
4344857 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
325 A-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
4344922 ATGTAAT
389 ATGTAAT
4344929 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
4344994 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
4345059 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
130 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
4345124 TAATATGTAATTTTTCAATCTAACCAGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
195 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
4345189 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGC
260 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGC
4345254 ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
325 ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
4345319 TGTAAT
390 TGTAAT
*
4345325 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
4345390 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4345455 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
4345520 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAGAATATGTCTAAATA
196 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
4345585 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA
261 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA
4345650 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
326 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
4345714 GTAAT
391 GTAAT
*
4345719 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
4345784 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
4345849 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
4345914 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
196 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
*
4345979 ATGTGTCGACACTAATAGAGTTTGTGTCGATA
261 ATGTGTCGACACTAATATAGTTTGTGTCGATA
4346011 CTAATTTAAA
Statistics
Matches: 1069, Mismatches: 12, Indels: 5
0.98 0.01 0.00
Matches are distributed among these distances:
394 335 0.31
395 252 0.24
396 163 0.15
397 124 0.12
398 195 0.18
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (395 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA
CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAAT
Found at i:4347490 original size:18 final size:18
Alignment explanation
Indices: 4347469--4347530 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
4347459 AGCGGTCGCA
4347469 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
4347487 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
4347505 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
4347523 GAAGATGA
1 GAAGATGA
4347531 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:4347493 original size:6 final size:6
Alignment explanation
Indices: 4347469--4347554 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
4347459 AGCGGTCGCA
* * * * * *
4347469 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
4347517 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
4347555 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:4347504 original size:3 final size:3
Alignment explanation
Indices: 4347484--4347558 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
4347474 TGAAGCTGAC
* * * * * ** *
4347484 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
4347532 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
4347559 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:4347523 original size:36 final size:36
Alignment explanation
Indices: 4347472--4347550 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
4347462 GGTCGCAGAA
*
4347472 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
4347508 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
4347544 GATGAAG
1 GATGAAG
4347551 ATGATGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:4347558 original size:12 final size:12
Alignment explanation
Indices: 4347472--4347554 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
4347462 GGTCGCAGAA
*
4347472 GATGAAGCTGAC
1 GATGAAGATGAC
4347484 GATGAAGATGAC
1 GATGAAGATGAC
*
4347496 GATGATGATGAC
1 GATGAAGATGAC
* *
4347508 GATGAAGCTGGC
1 GATGAAGATGAC
*
4347520 GATGAAGATGAT
1 GATGAAGATGAC
* * *
4347532 GACGATGATGAT
1 GATGAAGATGAC
4347544 GATGAAGATGA
1 GATGAAGATGA
4347555 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:4349017 original size:22 final size:22
Alignment explanation
Indices: 4348973--4349017 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4348963 ATTACATATC
**
4348973 TTTAAAAAAAGTATCGATTCTT
1 TTTAAAAAAAGTATCGACACTT
* *
4348995 TTTATAAAAAGTATGGACACTT
1 TTTAAAAAAAGTATCGACACTT
4349017 T
1 T
4349018 CAACATATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGACACTT
Found at i:4349357 original size:183 final size:183
Alignment explanation
Indices: 4349024--4349870 Score: 1552
Period size: 183 Copynumber: 4.6 Consensus size: 183
4349014 CTTTCAACAT
** * * *
4349024 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
4349089 GGTCTACAACCTATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4349154 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
4349207 ATTATGATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
4349272 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
4349337 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCAGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
4349390 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGCTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
4349455 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGCAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4349520 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
4349573 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTGTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
4349638 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCAGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
4349702 AATTTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
4349755 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATACGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
4349820 GGTCTACAACCTATATCGACTCTTTTTAATATTGTGTCGGTACTTTATGTC
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
4349871 TAAAATGTGT
Statistics
Matches: 642, Mismatches: 21, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
182 176 0.27
183 466 0.73
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:4353453 original size:14 final size:15
Alignment explanation
Indices: 4353428--4353456 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4353418 CGTTCGTGAA
4353428 CGTTCGATTTATGTT
1 CGTTCGATTTATGTT
4353443 CGTTC-ATTTATGTT
1 CGTTCGATTTATGTT
4353457 TAAATAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.55
Consensus pattern (15 bp):
CGTTCGATTTATGTT
Found at i:4353747 original size:23 final size:23
Alignment explanation
Indices: 4353721--4353776 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
4353711 GTGTTTGTGT
* **
4353721 TGTTCATTTATATTTGTTTATTG
1 TGTTCGTTTATATTCATTTATTG
*
4353744 TGTTCGTTTATGTTCATTTATTG
1 TGTTCGTTTATATTCATTTATTG
4353767 TGTTCGTTTA
1 TGTTCGTTTA
4353777 CGTTCGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.14, C:0.07, G:0.16, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATATTCATTTATTG
Found at i:4353754 original size:13 final size:13
Alignment explanation
Indices: 4353736--4353776 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
4353726 ATTTATATTT
4353736 GTTTATTGTGTTC
1 GTTTATTGTGTTC
4353749 GTTTA---TGTTC
1 GTTTATTGTGTTC
*
4353759 ATTTATTGTGTTC
1 GTTTATTGTGTTC
4353772 GTTTA
1 GTTTA
4353777 CGTTCGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 9 0.39
13 14 0.61
ACGTcount: A:0.12, C:0.07, G:0.20, T:0.61
Consensus pattern (13 bp):
GTTTATTGTGTTC
Found at i:4353781 original size:23 final size:23
Alignment explanation
Indices: 4353737--4353787 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
4353727 TTTATATTTG
*
4353737 TTTATTGTGTTCGTTTATGTTCA
1 TTTATTGTGTTCGTTTACGTTCA
*
4353760 TTTATTGTGTTCGTTTACGTTCG
1 TTTATTGTGTTCGTTTACGTTCA
4353783 TTTAT
1 TTTAT
4353788 CATTTAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (23 bp):
TTTATTGTGTTCGTTTACGTTCA
Found at i:4358018 original size:14 final size:14
Alignment explanation
Indices: 4357999--4358028 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4357989 TATGTTGTTG
4357999 ACTTGTTCTTTCTC
1 ACTTGTTCTTTCTC
*
4358013 ACTTGTTCTTTGTC
1 ACTTGTTCTTTCTC
4358027 AC
1 AC
4358029 AATCAACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (14 bp):
ACTTGTTCTTTCTC
Found at i:4359835 original size:20 final size:21
Alignment explanation
Indices: 4359810--4359861 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4359800 TTTTCCCAAT
*
4359810 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4359830 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4359851 TCGCAATGCGA
1 TCGCAATGCGA
4359862 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:4359875 original size:20 final size:20
Alignment explanation
Indices: 4359850--4359963 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
4359840 AATTGGGAAA
*
4359850 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4359870 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
4359890 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
4359911 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4359931 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
4359951 TTCGCAACGCGAT
1 ATCGCAACGCGAT
4359964 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4359894 original size:61 final size:61
Alignment explanation
Indices: 4359847--4359963 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
4359837 GCGAATTGGG
* * * * *
4359847 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
4359908 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
4359964 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:4360563 original size:19 final size:19
Alignment explanation
Indices: 4360532--4360735 Score: 185
Period size: 19 Copynumber: 11.1 Consensus size: 19
4360522 CGCGACAAAA
*
4360532 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
4360551 TCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4360570 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
4360589 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
4360608 TCGCAGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
4360628 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* ***
4360644 T-G-GTCGCGAAAGTCATT
1 TCGCGTTGCGATTTTCATT
4360661 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
4360675 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
4360694 TCCACGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
4360714 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
4360734 TC
1 TC
4360736 AACCAAAAGA
Statistics
Matches: 154, Mismatches: 18, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 19 0.12
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 77 0.50
20 49 0.32
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4360665 original size:33 final size:33
Alignment explanation
Indices: 4360623--4360710 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
4360613 GTTGCGATTT
* *
4360623 TCATTTCGCGTTGCGATTGTCTGGTCGCGAAAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGAAAG
* *
4360656 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGAAAG
*
4360689 TCATTTCCACGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
4360711 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGAAAG
Done.