Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 55 of 208
Found at i:21315095 original size:91 final size:90
Alignment explanation
Indices: 21314968--21315175 Score: 262
Period size: 91 Copynumber: 2.3 Consensus size: 90
21314958 TAATTATAAC
* * *
21314968 TAATAAATTATATTT-TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATA
1 TAATAAATT-T-TTTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-
* *
21315031 ATTAATAT-TAAATTTCATAAAATTCTTGA
62 AGTAATATAT-AATTTCATAAAATTCTTAA
21315060 TAATAAATTTTCTTATAT-AATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTTT-TTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
*
21315124 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
21315150 TAATAAAATGTTTTTATATGAATTTA
1 TAAT-AAAT-TTTTTATATGAATTTA
21315176 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
90 29 0.28
91 50 0.49
92 24 0.23
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (90 bp):
TAATAAATTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTA
ATATATAATTTCATAAAATTCTTAA
Found at i:21318506 original size:97 final size:97
Alignment explanation
Indices: 21318395--21318925 Score: 1001
Period size: 97 Copynumber: 5.5 Consensus size: 97
21318385 TTTAATAACA
21318395 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
21318460 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
21318492 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
21318557 T-AAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
* * *
21318588 ATTATATAAGCATCGAAATTGAAACTTGATTGATTGTTTATATAAGTATCAAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
21318653 TAAAATATGCATATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
21318685 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
21318750 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
21318782 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
21318847 TAAAATATACAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
21318879 ATTATATAAGCATCGAAATTGAAACTTGATTGATTGTTTATATAAGT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGT
21318926 TTTAAAAATA
Statistics
Matches: 423, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
96 93 0.22
97 330 0.78
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGCAGATTTAATCTTAAATTTGGAC
Found at i:21319023 original size:13 final size:13
Alignment explanation
Indices: 21319005--21319031 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21318995 TAATAACAAC
21319005 TATATTGTTTAAA
1 TATATTGTTTAAA
21319018 TATATTGTTTAAA
1 TATATTGTTTAAA
21319031 T
1 T
21319032 TAAACCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:21330437 original size:18 final size:17
Alignment explanation
Indices: 21330385--21330439 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
21330375 GGTATATGAA
21330385 AATATAAGAAATATATTT
1 AATA-AAGAAATATATTT
21330403 AA-AAAGTAAGATA-ATTT
1 AATAAAG-AA-ATATATTT
21330420 AATAAAGAAATTATATTT
1 AATAAAGAAA-TATATTT
21330438 AA
1 AA
21330440 AATCATAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 4 0.12
17 13 0.41
18 15 0.47
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (17 bp):
AATAAAGAAATATATTT
Found at i:21336746 original size:3 final size:3
Alignment explanation
Indices: 21336738--21336781 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
21336728 CTTTTTGTAC
*
21336738 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT GGTAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
21336782 AACAATGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 34 0.92
5 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:21336865 original size:18 final size:19
Alignment explanation
Indices: 21336837--21336874 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21336827 TTTTATTCTA
21336837 TATATATACATATACATTT
1 TATATATACATATACATTT
*
21336856 TATA-ATACATATATATTT
1 TATATATACATATACATTT
21336874 T
1 T
21336875 CCATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATACATATACATTT
Found at i:21336949 original size:24 final size:24
Alignment explanation
Indices: 21336895--21336959 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
21336885 TAATCCATAC
*
21336895 ATATATACATACATTTTCTATAAT
1 ATATATACATACATTTTCTAAAAT
* *
21336919 ATATATACGTACATTTTTTAAAAT
1 ATATATACATACATTTTCTAAAAT
* *
21336943 -TATTATAAATATATTTT
1 ATA-TATACATACATTTT
21336960 TTTTGCATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATATACATACATTTTCTAAAAT
Found at i:21337043 original size:23 final size:22
Alignment explanation
Indices: 21336987--21337046 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
21336977 TATATATACT
* *
21336987 TATATATATACGTATTTTAATA
1 TATACATATACATATTTTAATA
*
21337009 TATACATATACATATTTTCATAA
1 TATACATATACATATTTTAAT-A
* *
21337032 TTTACTTATACATAT
1 TATACATATACATAT
21337047 ATCATACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
TATACATATACATATTTTAATA
Found at i:21337060 original size:23 final size:24
Alignment explanation
Indices: 21337004--21337061 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
21336994 ATACGTATTT
* *
21337004 TAATATATACATATACATATTTTCA
1 TAAT-TATACTTATACATATTATCA
21337029 TAATT-TACTTATACATA-TATCA
1 TAATTATACTTATACATATTATCA
*
21337051 TACTTATACTT
1 TAATTATACTT
21337062 TTTTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.28
23 16 0.55
24 1 0.03
25 4 0.14
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATTATACTTATACATATTATCA
Found at i:21337443 original size:13 final size:14
Alignment explanation
Indices: 21337424--21337463 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
21337414 ACATACATAC
21337424 ATATATTTATTTTT
1 ATATATTTATTTTT
21337438 -TATATTGTATTTTT
1 ATATATT-TATTTTT
*
21337452 ATTTATTTATTT
1 ATATATTTATTT
21337464 CTATTACGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 12 0.52
15 5 0.22
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
ATATATTTATTTTT
Found at i:21337468 original size:20 final size:20
Alignment explanation
Indices: 21337429--21337468 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21337419 CATACATATA
*
21337429 TTTATTTTTTATATTGTATT
1 TTTATTTTTTATATTCTATT
21337449 TTTATTTATTTAT-TTCTATT
1 TTTATTT-TTTATATTCTATT
21337469 ACGGTTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTATTTTTTATATTCTATT
Found at i:21338999 original size:18 final size:17
Alignment explanation
Indices: 21338967--21339000 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21338957 ACTCAATGAT
21338967 ATAATCATCCATATATC
1 ATAATCATCCATATATC
*
21338984 ATAATTATCACATATAT
1 ATAATCATC-CATATAT
21339001 ATATGTCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATCATCCATATATC
Found at i:21339905 original size:38 final size:37
Alignment explanation
Indices: 21339836--21339908 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
21339826 TTTTCACAAT
* *
21339836 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
21339873 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
21339909 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:21340064 original size:23 final size:23
Alignment explanation
Indices: 21340038--21340159 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
21340028 ATAAGTGCCA
21340038 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
21340061 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
21340084 CACTGAAATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21340107 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
21340130 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21340153 CACTGAT
1 CACTGAT
21340160 CAATAACGCT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:21340411 original size:18 final size:17
Alignment explanation
Indices: 21340385--21340423 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
21340375 ATTTTTCTTC
21340385 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
21340402 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
21340420 CACA
1 CACA
21340424 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:21343098 original size:31 final size:31
Alignment explanation
Indices: 21343063--21343155 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
21343053 AAAAAACTTA
* **
21343063 AATATAATAATAAATTATATTTAAATAATTT
1 AATATAATAATAAATGATATTTAAATAAAAT
* *
21343094 AATATAATGATTAATGATATTTAAATAAAAT
1 AATATAATAATAAATGATATTTAAATAAAAT
* *
21343125 AAAATAATAATATATGAAATATTTAACATAA
1 AATATAATAATAAATG--ATATTTAA-ATAA
21343156 TGAAACATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
31 38 0.76
33 8 0.16
34 4 0.08
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (31 bp):
AATATAATAATAAATGATATTTAAATAAAAT
Found at i:21346732 original size:120 final size:120
Alignment explanation
Indices: 21346519--21346749 Score: 349
Period size: 120 Copynumber: 1.9 Consensus size: 120
21346509 TTAGCCTTTG
* * * * *
21346519 CCCCCATAGATCCCCTTATTTTGTCACTGTATTTTATTTCTTTAACAGGAATTTGGGTCACACAA
1 CCCCCACAGATCCCCCTATTTTGTCACTATATTTTATTTCTTTAACAAGAATTTGGATCACACAA
*
21346584 CTCTAACAATCTTCTCCTTAGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
66 CTCTAACAATCTCCTCCTTAGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
*
21346639 CCCCCACAGATCCCCCTATTTTG-CTACTATATTTTATTTCTTTAACAAGAATTTGGATCATACA
1 CCCCCACAGATCCCCCTATTTTGTC-ACTATATTTTATTTCTTTAACAAGAATTTGGATCACACA
* *
21346703 ATTCTAACAATCTCCTCCTT-GACACGAATTCTCAACGGACAAGTTCT
65 ACTCTAACAATCTCCTCCTTAG-CACGAATTCTCAACGAACAAGTTCT
21346750 TCATCACGAA
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 2 0.02
120 98 0.98
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (120 bp):
CCCCCACAGATCCCCCTATTTTGTCACTATATTTTATTTCTTTAACAAGAATTTGGATCACACAA
CTCTAACAATCTCCTCCTTAGCACGAATTCTCAACGAACAAGTTCTCCACCTCTT
Found at i:21351724 original size:6 final size:6
Alignment explanation
Indices: 21351708--21351751 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
21351698 AATTATATGG
* * *
21351708 TATAGA TATATA GATATA GATATA TATATA TATATA TATATA TA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TA
21351752 ACATGGGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:21351748 original size:14 final size:14
Alignment explanation
Indices: 21351708--21351751 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
21351698 AATTATATGG
*
21351708 TATAGATATATAGA
1 TATAGATATATATA
21351722 TATAGATATATATA
1 TATAGATATATATA
*
21351736 TATATATATATATA
1 TATAGATATATATA
21351750 TA
1 TA
21351752 ACATGGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TATAGATATATATA
Found at i:21351750 original size:8 final size:8
Alignment explanation
Indices: 21351708--21351751 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
21351698 AATTATATGG
*
21351708 TATAGATA
1 TATATATA
*
21351716 TATAGATA
1 TATATATA
*
21351724 TAGATATA
1 TATATATA
21351732 TATATATA
1 TATATATA
21351740 TATATATA
1 TATATATA
21351748 TATA
1 TATA
21351752 ACATGGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (8 bp):
TATATATA
Found at i:21355351 original size:3 final size:3
Alignment explanation
Indices: 21355338--21355375 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
21355328 CTATGAACAA
21355338 AAT AA- 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
21355376 CTGAATTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21357447 original size:24 final size:26
Alignment explanation
Indices: 21357407--21357455 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
21357397 TACGTGTTTA
*
21357407 TTTTTAAAATTTATTAAATAATATTT
1 TTTTTAAAATTTATTAAAAAATATTT
21357433 TTTTTAAAA-TT-TTAAAAAATATT
1 TTTTTAAAATTTATTAAAAAATATT
21357456 GGCTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 2 0.09
26 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTTAAAATTTATTAAAAAATATTT
Found at i:21358181 original size:43 final size:46
Alignment explanation
Indices: 21358120--21358207 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 46
21358110 AATAATTATC
*
21358120 TTTATCTTTATCTTTATAT-TA-TAT-TACAATATTTATTTTATTT
1 TTTATCTTTATCTTTATATATATTATATACAATATTGATTTTATTT
*
21358163 TTTATCTTTATTTTTATATATATTATAATACAATATTGATTTTAT
1 TTTATCTTTATCTTTATATATATTAT-ATACAATATTGATTTTAT
21358208 AGATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 18 0.46
44 2 0.05
45 3 0.08
47 16 0.41
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (46 bp):
TTTATCTTTATCTTTATATATATTATATACAATATTGATTTTATTT
Found at i:21358199 original size:47 final size:49
Alignment explanation
Indices: 21358115--21358207 Score: 136
Period size: 47 Copynumber: 1.9 Consensus size: 49
21358105 AATAAAATAA
* * * *
21358115 TTATCTTTATCTTTATCTTTATATTATATTACAATATTTATTTTATTTT
1 TTATCTTTATCTTTATATATATATTATAATACAATATTGATTTTATTTT
21358164 TTATCTTTAT-TTT-TATATATATTATAATACAATATTGATTTTAT
1 TTATCTTTATCTTTATATATATATTATAATACAATATTGATTTTAT
21358208 AGATTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 27 0.68
48 3 0.08
49 10 0.25
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (49 bp):
TTATCTTTATCTTTATATATATATTATAATACAATATTGATTTTATTTT
Found at i:21359477 original size:15 final size:15
Alignment explanation
Indices: 21359459--21359511 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
21359449 TCGATACCAT
21359459 ATATTTGACTTTCCA
1 ATATTTGACTTTCCA
**
21359474 ATATTTGA-TACCCA
1 ATATTTGACTTTCCA
*
21359488 TATCTTTGACTTTCCA
1 -ATATTTGACTTTCCA
*
21359504 TTATTTGA
1 ATATTTGA
21359512 TACCCATATC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (15 bp):
ATATTTGACTTTCCA
Found at i:21359477 original size:30 final size:30
Alignment explanation
Indices: 21359441--21359563 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
21359431 ATTTATTATG
* *
21359441 CCAATATCTCGATA-CCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
21359471 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
21359501 CCATTATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
21359531 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
21359561 CCA
1 CCA
21359564 TAAATATGGA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 5 0.06
30 81 0.94
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:21359525 original size:15 final size:15
Alignment explanation
Indices: 21359477--21359557 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
21359467 CTTTCCAATA
21359477 TTTGATACCCATATC
1 TTTGATACCCATATC
** *
21359492 TTTGACTTTCCAT-TA
1 TTTGA-TACCCATATC
21359507 TTTGATACCCATATC
1 TTTGATACCCATATC
** * *
21359522 TTTGACTTTCTAT-TA
1 TTTGA-TACCCATATC
21359537 TTTGATACCCATATC
1 TTTGATACCCATATC
21359552 TTTGAT
1 TTTGAT
21359558 TTTCCATAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
14 9 0.19
15 30 0.62
16 9 0.19
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.48
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:21364180 original size:30 final size:30
Alignment explanation
Indices: 21364145--21364228 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
21364135 TCAATATCGC
*
21364145 GATACCCATATATTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCAATATTT
* *
21364175 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCCAATATTT
*
21364205 GATACCCATATCTTTGATTTTCCA
1 GATACCCATATCTTTGACTTTCCA
21364229 TAAATATGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCAATATTT
Found at i:21364190 original size:15 final size:15
Alignment explanation
Indices: 21364145--21364222 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
21364135 TCAATATCGC
21364145 GATACCCATATATTT
1 GATACCCATATATTT
**
21364160 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
21364175 GATACCCATATCTTT
1 GATACCCATATATTT
** *
21364190 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
21364205 GATACCCATATCTTT
1 GATACCCATATATTT
21364220 GAT
1 GAT
21364223 TTTCCATAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 8 0.17
15 30 0.65
16 8 0.17
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:21373926 original size:24 final size:25
Alignment explanation
Indices: 21373871--21373926 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
21373861 CCGCAGTTCG
* *
21373871 TATGAGCTTCCCGTTATTCAGCTCG
1 TATGAGCTTCCCGTTATACAGCTCA
* * *
21373896 GAGGAGCTTCCTGTT-TACAGCTCA
1 TATGAGCTTCCCGTTATACAGCTCA
21373920 TATGAGC
1 TATGAGC
21373927 ATACATGAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
TATGAGCTTCCCGTTATACAGCTCA
Found at i:21378540 original size:19 final size:19
Alignment explanation
Indices: 21378516--21378568 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
21378506 GTGTTAAAAA
* *
21378516 TTTATAATTTTTTATAATT
1 TTTATAATTTTTAATAAAT
*
21378535 TTTATACTTTTTAATAAAT
1 TTTATAATTTTTAATAAAT
* *
21378554 TTAATAAATTTTAAT
1 TTTATAATTTTTAAT
21378569 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAATTTTTAATAAAT
Found at i:21380358 original size:27 final size:26
Alignment explanation
Indices: 21380309--21380359 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
21380299 ACAAGGAAAA
* * *
21380309 CCACGATCCTAATTTTCTGGAGATAG
1 CCACAATCCTAATTCTCTAGAGATAG
21380335 CCACAATCCTAAATTCTCTAGAGAT
1 CCACAATCCT-AATTCTCTAGAGAT
21380360 TAATCAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (26 bp):
CCACAATCCTAATTCTCTAGAGATAG
Found at i:21382848 original size:12 final size:12
Alignment explanation
Indices: 21382823--21382861 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21382813 CAAAACGCAC
*
21382823 ACACAAATATAT
1 ACACATATATAT
*
21382835 ACACATATACAT
1 ACACATATATAT
*
21382847 ACATATATATAT
1 ACACATATATAT
21382859 ACA
1 ACA
21382862 TTCAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (12 bp):
ACACATATATAT
Found at i:21387491 original size:106 final size:106
Alignment explanation
Indices: 21387326--21387618 Score: 444
Period size: 106 Copynumber: 2.8 Consensus size: 106
21387316 TATTTGGACG
* * * * ** * ***
21387326 AACGAGAAATCGAAATCCAGCACGTTAGGATACGTTCTCC-CGAATTTCCAAATACAAAACATTG
1 AACGAGTAATCGACACCCAACACGTTAGGGCACGTT-TCCTCGATTTTCCAAACGTAAAACATTG
21387390 CCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
65 CCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
*
21387432 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACGTTGC
1 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACATTGC
21387497 CTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
66 CTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
* *
21387538 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGTAAAATATTGC
1 AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACATTGC
21387603 CTTATTTTGAAAATTT
66 CTTATTTT-AAAATTT
21387619 TATTTTTTTA
Statistics
Matches: 171, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
105 3 0.02
106 161 0.94
107 7 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (106 bp):
AACGAGTAATCGACACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGTAAAACATTGC
CTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTA
Found at i:21389313 original size:92 final size:92
Alignment explanation
Indices: 21389156--21389329 Score: 312
Period size: 92 Copynumber: 1.9 Consensus size: 92
21389146 AAAACAGGAG
* *
21389156 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTAATTGCCTTTTGCTCTTCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTAATTGACTTTTGCTCTCCTTTTCTATT
*
21389221 CGATTGATCTTCTTTTTGTTTTTTTTT
66 CGATTAATCTTCTTTTTGTTTTTTTTT
*
21389248 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTAATTGACTTTTGCTCTCCTTTTCTATT
21389313 CGATTAATCTTCTTTTT
66 CGATTAATCTTCTTTTT
21389330 TTTACAAGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (92 bp):
TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTAATTGACTTTTGCTCTCCTTTTCTATT
CGATTAATCTTCTTTTTGTTTTTTTTT
Found at i:21390188 original size:131 final size:131
Alignment explanation
Indices: 21390053--21390433 Score: 570
Period size: 131 Copynumber: 2.9 Consensus size: 131
21390043 GCCATATTCG
* * ** * * *
21390053 ATCTGCTCCACTACTGCTTAGGGAA-ATAAGATAT-TCTATCTTTGACCCGCTCCACTACTGCTT
1 ATCTGCTTCACTACTGCTTA-GGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTT
* * * *
21390116 AGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCT
64 AGGGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCT
21390181 TAA
129 TAA
*
21390184 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
21390249 GGAGATAAGATCTTCTATCTTCGACCTGCTCCGCTACTGCTTAGGAGGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTA
21390314 A
131 A
* *
21390315 ATCCGCTTCACTACTGCTTAGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
21390380 GGAGATAAGATCTTCTATCTTCGACCCGCTCCACTACTGCTTAAGGA-GATAGGA
66 GGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTT-AGGAGGATAGGA
21390434 TCTACCATCT
Statistics
Matches: 230, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
130 5 0.02
131 221 0.96
132 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (131 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTTCTATCTTCGACCTGCTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTA
A
Found at i:21390267 original size:175 final size:174
Alignment explanation
Indices: 21389971--21390479 Score: 594
Period size: 175 Copynumber: 2.9 Consensus size: 174
21389961 ATTTTGTGTT
* *
21389971 CTCCACTACTGCTTAGG-GAGATAGGACTGGTGGCTCAAATATGCTTCACTACTGCTTAGGAAGA
1 CTCCACTACTGCTTAGGAG-GATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* * * * *
21390035 TGAGATTCGCCATATTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATATTCTATCTTTGACC
65 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACC
* * **
21390100 CGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGA-CCTG
130 TGCTCCACTACTGCTTAGGGAGATAGGA-CTACCAGCTTAAATCC-G
21390146 CTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT
1 CTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT
*
21390211 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACCT
66 AAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACCT
* ****
21390276 GCTCCGCTACTGCTTA-GGAGGATAGGACTGGTGGCTTAAATCCG
131 GCTCCACTACTGCTTAGGGA-GATAGGACTACCAGCTTAAATCCG
* * * * * *** * ** * *
21390320 CTTCACTACTGCTTAGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGAGGATAGGACT-GGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* * * * * * * *
21390385 TAAGA-TCTTCTATCTTCGACCCGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTTCGAC
65 TAAGATTC-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGAC
21390449 CTGCTCCACTACTGCTTAGGGAGATAGGACT
129 CTGCTCCACTACTGCTTAGGGAGATAGGACT
21390480 GGATAAGATG
Statistics
Matches: 288, Mismatches: 40, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
174 35 0.12
175 249 0.86
176 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (174 bp):
CTCCACTACTGCTTAGGAGGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT
AAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACCT
GCTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAATCCG
Found at i:21390475 original size:44 final size:44
Alignment explanation
Indices: 21390012--21390477 Score: 374
Period size: 44 Copynumber: 10.6 Consensus size: 44
21390002 GGCTCAAATA
* * * *
21390012 TGCTTCACTACTGCTTAGGAAGAT-GAGAT-TCGCCATATTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAG-GATCT-GCCATCTTCGACC
* * * * * *
21390056 TGCTCCACTACTGCTTAGGGAAATAAGATATTCTATCTTTGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTCGACC
* * *
21390100 CGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTCGACC
**** ** *
21390144 TGCTCCACTACTGCTTA-GGAGGATAGGA-CTGGTGGCTTAAATC
1 TGCTCCACTACTGCTTAGGGA-GATAGGATCTGCCATCTTCGACC
* * * * *
21390187 TGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCT-GCCATCTTCGACC
* * *
21390231 TGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTCGACC
* **** **
21390275 TGCTCCGCTACTGCTTA-GGAGGATAGGA-CTGGTGGCTTAAATCC
1 TGCTCCACTACTGCTTAGGGA-GATAGGATCTGCCATCTTCGA-CC
* ** * * * *
21390319 -GCTTCACTACTGCTTAGAAAGATAAGAT-TCACCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCT-GCCATCTTCGACC
* * *
21390362 TGCTCCACTACTGCTTAGGGAGATAAGATCTTCTATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTCGACC
* * *
21390406 CGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTTCGACC
1 TGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTCGACC
21390450 TGCTCCACTACTGCTTAGGGAGATAGGA
1 TGCTCCACTACTGCTTAGGGAGATAGGA
21390478 CTGGATAAGA
Statistics
Matches: 336, Mismatches: 72, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
43 65 0.19
44 268 0.80
45 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTCGACC
Found at i:21391720 original size:15 final size:14
Alignment explanation
Indices: 21391697--21391729 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
21391687 CCTTCCTTCT
21391697 TTTTATTATTATTA
1 TTTTATTATTATTA
21391711 TTTTATTTATTATTA
1 TTTTA-TTATTATTA
21391726 TTTT
1 TTTT
21391730 TAAGCGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:21402297 original size:106 final size:106
Alignment explanation
Indices: 21402187--21402417 Score: 435
Period size: 106 Copynumber: 2.2 Consensus size: 106
21402177 TTCCAAATAC
21402187 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGCAATCGAC
1 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGCAATCGAC
*
21402252 ACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGT
66 ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
*
21402293 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGTAATCGAC
1 AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGCAATCGAC
21402358 ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
66 ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
*
21402399 AAAATATTGCCTTATTTTA
1 AAAACATTGCCTTATTTTA
21402418 TGTTGATGAA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 122 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (106 bp):
AAAACATTGCCTTATTTTAAAATTTCGAAAGGATATTCGACTATTTGGTTAAACGAGCAATCGAC
ACCCAACACGTTAGGGCACGTTTCCTCGATTCTCCAAACGT
Found at i:21404041 original size:92 final size:91
Alignment explanation
Indices: 21403926--21404103 Score: 347
Period size: 92 Copynumber: 1.9 Consensus size: 91
21403916 AAAACAGGAG
21403926 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
21403991 CGATTGATCTTCTTTTTGTTTTTTTTT
66 CGATTGATCTTCTTTTT-TTTTTTTTT
21404018 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
1 TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
21404083 CGATTGATCTTCTTTTTTTTT
66 CGATTGATCTTCTTTTTTTTT
21404104 ACAAGGTTAT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 4 0.05
92 82 0.95
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (91 bp):
TAGAAACTTGAAGATAAAAGAGATTATCAACCTTTTTTGATTGACTTTTGCTCTCCTTTTCTATT
CGATTGATCTTCTTTTTTTTTTTTTT
Found at i:21404650 original size:31 final size:32
Alignment explanation
Indices: 21404613--21404674 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
21404603 TATATATTGA
*
21404613 AATTTTTTA-CACTTATATATTTTT-AATTTT
1 AATTTTTTATAACTTATATATTTTTAAATTTT
*
21404643 AATTTTTTATAATTTATATATTTTTAAATTTT
1 AATTTTTTATAACTTATATATTTTTAAATTTT
21404675 TAAGATCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 9 0.32
31 13 0.46
32 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (32 bp):
AATTTTTTATAACTTATATATTTTTAAATTTT
Found at i:21404672 original size:16 final size:16
Alignment explanation
Indices: 21404625--21404673 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
21404615 TTTTTTACAC
*
21404625 TTATATATTTTTAATT
1 TTATATATTTTTAAAT
21404641 TTA-AT-TTTTTATAAT
1 TTATATATTTTTA-AAT
21404656 TTATATATTTTTAAAT
1 TTATATATTTTTAAAT
21404672 TT
1 TT
21404674 TTAAGATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 10 0.34
17 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATATTTTTAAAT
Found at i:21408184 original size:16 final size:16
Alignment explanation
Indices: 21408151--21408184 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21408141 GACTTTTGTT
* *
21408151 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
21408167 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
21408183 AA
1 AA
21408185 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:21412958 original size:16 final size:16
Alignment explanation
Indices: 21412925--21412958 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21412915 GGAGATTGTT
* *
21412925 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
21412941 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
21412957 AA
1 AA
21412959 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:21417545 original size:13 final size:13
Alignment explanation
Indices: 21417527--21417562 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21417517 AATAAAACAA
21417527 ATAAAAAGAAAAG
1 ATAAAAAGAAAAG
*
21417540 ATAAAAAAAAAAG
1 ATAAAAAGAAAAG
*
21417553 AAAAAAAGAA
1 ATAAAAAGAA
21417563 GAAAATATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (13 bp):
ATAAAAAGAAAAG
Found at i:21423349 original size:50 final size:50
Alignment explanation
Indices: 21423225--21423473 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
21423215 GATAATAACA
* * ** * *
21423225 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
21423276 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
21423326 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
21423376 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
21423431 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
21423474 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:21423403 original size:100 final size:104
Alignment explanation
Indices: 21423224--21423473 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
21423214 TGATAATAAC
**
21423224 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
21423289 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
21423326 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
21423389 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
21423431 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21423474 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:21423589 original size:13 final size:13
Alignment explanation
Indices: 21423568--21423599 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
21423558 GCTTGGATCA
*
21423568 TCATCAAATAAAT
1 TCATAAAATAAAT
21423581 TCATAAAATAAAT
1 TCATAAAATAAAT
21423594 TCATAA
1 TCATAA
21423600 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:21423846 original size:30 final size:30
Alignment explanation
Indices: 21423811--21423868 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21423801 CCTCGACTCT
*
21423811 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
21423841 AACTTTTACATAATTACATTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
21423869 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:21427058 original size:19 final size:18
Alignment explanation
Indices: 21427023--21427058 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21427013 TAATTTTTCA
*
21427023 TCAAATTAACTCTAAAAC
1 TCAAATTAACACTAAAAC
21427041 TCAAATTAAACACTAAAA
1 TCAAATT-AACACTAAAA
21427059 AGTTAACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (18 bp):
TCAAATTAACACTAAAAC
Found at i:21434514 original size:52 final size:48
Alignment explanation
Indices: 21434429--21434840 Score: 472
Period size: 46 Copynumber: 8.6 Consensus size: 48
21434419 TTTGAGTACT
* *
21434429 TCTGATCAAGTG--ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
21434475 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
21434527 TCTGATCAAGTG--AT-AAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
21434572 TCTGATCAAGTGAC--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21434618 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21434670 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21434722 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21434768 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21434814 TCTGATCAA--GAAACAAAGTGATAAGTG
1 TCTGATCAAGTGACATAAAGTGATAAGTG
21434841 GCTACACTTA
Statistics
Matches: 332, Mismatches: 17, Indels: 34
0.87 0.04 0.09
Matches are distributed among these distances:
44 2 0.01
45 42 0.13
46 151 0.45
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.40
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:21434876 original size:36 final size:37
Alignment explanation
Indices: 21434804--21434876 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
21434794 GATAGCTTTA
21434804 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
21434841 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21434877 ATCATACGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:21436191 original size:49 final size:49
Alignment explanation
Indices: 21436130--21436371 Score: 421
Period size: 49 Copynumber: 4.9 Consensus size: 49
21436120 ATGTGAACAT
21436130 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
21436180 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
21436229 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
21436278 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
21436327 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
21436372 AGAAAACGAA
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
49 181 0.98
50 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:21439580 original size:52 final size:48
Alignment explanation
Indices: 21439495--21439907 Score: 481
Period size: 46 Copynumber: 8.6 Consensus size: 48
21439485 TTTGAGTACT
* *
21439495 TCTGATCAAGTG--ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
21439541 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
21439593 TCTGATCAAGTG--ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
21439639 TCTGATCAAGTGAC--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21439685 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21439737 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21439789 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21439835 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21439881 TCTGATCAA--GAAACAAAGTGATAAGTG
1 TCTGATCAAGTGACATAAAGTGATAAGTG
21439908 GCTACACTTA
Statistics
Matches: 334, Mismatches: 17, Indels: 32
0.87 0.04 0.08
Matches are distributed among these distances:
44 2 0.01
46 195 0.58
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.40
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:21439843 original size:196 final size:196
Alignment explanation
Indices: 21439509--21439890 Score: 647
Period size: 196 Copynumber: 1.9 Consensus size: 196
21439499 ATCAAGTGAT
* * *
21439509 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * * *
21439574 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21439639 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
21439704 G
196 G
* *
21439705 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
21439770 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21439835 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
21439891 AAACAAAGTG
Statistics
Matches: 173, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 173 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:21439943 original size:36 final size:37
Alignment explanation
Indices: 21439871--21439943 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
21439861 GATAGCTTTA
21439871 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
21439908 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21439944 ATCATACGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:21441257 original size:49 final size:49
Alignment explanation
Indices: 21441196--21441437 Score: 421
Period size: 49 Copynumber: 4.9 Consensus size: 49
21441186 ATGTGAACAT
21441196 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
21441246 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
21441295 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
21441344 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
21441393 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
21441438 AGAAAACGAA
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
49 181 0.98
50 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:21444644 original size:52 final size:48
Alignment explanation
Indices: 21444559--21444971 Score: 481
Period size: 46 Copynumber: 8.6 Consensus size: 48
21444549 TTTGAGTACT
* *
21444559 TCTGATCAAGTG--ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
21444605 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
21444657 TCTGATCAAGTG--ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
21444703 TCTGATCAAGTGAC--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21444749 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21444801 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21444853 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21444899 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
21444945 TCTGATCAA--GAAACAAAGTGATAAGTG
1 TCTGATCAAGTGACATAAAGTGATAAGTG
21444972 GCTACACTTA
Statistics
Matches: 334, Mismatches: 17, Indels: 32
0.87 0.04 0.08
Matches are distributed among these distances:
44 2 0.01
46 195 0.58
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.40
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:21444907 original size:196 final size:196
Alignment explanation
Indices: 21444573--21444954 Score: 647
Period size: 196 Copynumber: 1.9 Consensus size: 196
21444563 ATCAAGTGAT
* * *
21444573 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * * *
21444638 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21444703 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
21444768 G
196 G
* *
21444769 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
21444834 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
21444899 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
21444955 AAACAAAGTG
Statistics
Matches: 173, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 173 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:21445007 original size:36 final size:37
Alignment explanation
Indices: 21444935--21445007 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
21444925 GATAGCTTTA
21444935 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
21444972 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21445008 ATCATACGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:21446362 original size:41 final size:41
Alignment explanation
Indices: 21446301--21446491 Score: 319
Period size: 41 Copynumber: 4.6 Consensus size: 41
21446291 GACTATACAT
*
21446301 CTAGCAGACTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
21446342 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
21446383 CTAGAAGGCTAAGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
21446424 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
21446465 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
21446492 TTAAATTAAG
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 135 0.96
42 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:21464347 original size:25 final size:24
Alignment explanation
Indices: 21464306--21464354 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
21464296 AAAATATTGT
21464306 AAAATTCAAAATAAATAAATACAA
1 AAAATTCAAAATAAATAAATACAA
* *
21464330 AAAATTTAAAACTTAATAAATACAA
1 AAAATTCAAAA-TAAATAAATACAA
21464355 TATTGCCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATTCAAAATAAATAAATACAA
Found at i:21467301 original size:20 final size:20
Alignment explanation
Indices: 21467253--21467302 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21467243 TATTGAAGAT
*
21467253 TAAATATTTAAATACAAATA
1 TAAATATTCAAATACAAATA
* *
21467273 T-TATAATTCGAATACAAATA
1 TAAAT-ATTCAAATACAAATA
21467293 TAAATATTCA
1 TAAATATTCA
21467303 TAAAGATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAATATTCAAATACAAATA
Found at i:21468586 original size:9 final size:9
Alignment explanation
Indices: 21468574--21468604 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
21468564 TTATGATATG
21468574 ATTTGTTTT
1 ATTTGTTTT
21468583 ATTTGTTTT
1 ATTTGTTTT
21468592 ATTTGTTTT
1 ATTTGTTTT
21468601 ATTT
1 ATTT
21468605 TATTTCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (9 bp):
ATTTGTTTT
Found at i:21482780 original size:6 final size:6
Alignment explanation
Indices: 21482771--21482808 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21482761 AGGAAGAGAA
* *
21482771 GAAGGG GAAGGG GAAGGG G-AGGG GGAGGG GGAGGG GAA
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAA
21482809 AGAGGAGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:21482799 original size:17 final size:17
Alignment explanation
Indices: 21482773--21482807 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21482763 GAAGAGAAGA
21482773 AGGGGAAGGGGAAGGGG
1 AGGGGAAGGGGAAGGGG
* *
21482790 AGGGGGAGGGGGAGGGG
1 AGGGGAAGGGGAAGGGG
21482807 A
1 A
21482808 AAGAGGAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (17 bp):
AGGGGAAGGGGAAGGGG
Found at i:21490616 original size:20 final size:20
Alignment explanation
Indices: 21490579--21490617 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21490569 ATAAAATAAC
*
21490579 TTTTTAAAATTGAGTTTAAT
1 TTTTTAAAATGGAGTTTAAT
21490599 TTTTTAAAATAGGA-TTTAA
1 TTTTTAAAAT-GGAGTTTAA
21490618 GTGTAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTTTAAAATGGAGTTTAAT
Found at i:21491270 original size:125 final size:125
Alignment explanation
Indices: 21491048--21491424 Score: 492
Period size: 125 Copynumber: 3.0 Consensus size: 125
21491038 TTAGGGTTTT
* * * * * * **
21491048 TAGGTCCTGGAAGAAATAATTTAGAGTTAACGTTTCTGTGTAAATAGTATAAAATCACTTTTACC
1 TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
* *
21491113 AGGATGCTTTATGAGAAGAATTTGTTAAATCGCGCCCACATGGACGCGCTTTTGCTACAG
66 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
21491173 TAGGT-CTTGAAAAAACT-ATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAT-GCTTCA
1 TAGGTCCTGGAAAAAA-TAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCA
* * * *
21491235 AGCTGGATGCTATT-TGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
63 ACCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
21491298 TTGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAGATAGTATAAAATCGCTTCTACC
1 TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
* *
21491363 AGGATGCTTTATGAGAAGAATTTGTGAAATCTCGCCCACGTGGACGCGCTTTTGCTATAG
66 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
21491423 TA
1 TA
21491425 ACATGTTTGG
Statistics
Matches: 216, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
124 43 0.20
125 128 0.59
126 45 0.21
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCAACC
AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
Found at i:21494729 original size:11 final size:11
Alignment explanation
Indices: 21494715--21494789 Score: 61
Period size: 11 Copynumber: 6.9 Consensus size: 11
21494705 TTAAATATGG
21494715 ATTTGAGAGAA
1 ATTTGAGAGAA
*
21494726 ATTTG-GAAGGA
1 ATTTGAG-AGAA
21494737 ATTTGAGAGCAA
1 ATTTGAGAG-AA
21494749 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
21494760 ATTT-AG-GGA
1 ATTTGAGAGAA
21494769 A-TTGAGAAGAA
1 ATTTGAG-AGAA
21494780 ATTTGAGAGA
1 ATTTGAGAGA
21494790 GGATTAGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
8 2 0.04
9 5 0.10
10 1 0.02
11 32 0.63
12 11 0.22
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:21494758 original size:22 final size:22
Alignment explanation
Indices: 21494715--21494789 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
21494705 TTAAATATGG
21494715 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAA-TTGAGAAGGA
21494737 ATTTGAGAGCAAATTGAG-AGGAA
1 ATTTGAGAG-AAATTGAGAAGG-A
* *
21494760 ATTT-AG-GGAATTGAGAAGAA
1 ATTTGAGAGAAATTGAGAAGGA
21494780 ATTTGAGAGA
1 ATTTGAGAGA
21494790 GGATTAGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 12 0.27
21 5 0.11
22 18 0.41
23 9 0.20
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAAGGA
Found at i:21496537 original size:6 final size:6
Alignment explanation
Indices: 21496526--21496552 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21496516 AATACGAACC
21496526 ATAATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATA
21496553 GTTCACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:21497183 original size:7 final size:7
Alignment explanation
Indices: 21497171--21497222 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
21497161 TTAACCAACC
21497171 CTAACTA
1 CTAACTA
*
21497178 CTAACTGT
1 CTAACT-A
* *
21497186 CAAGACTT
1 CTA-ACTA
21497194 CTAACTA
1 CTAACTA
21497201 CTAACTA
1 CTAACTA
21497208 CTAACTA
1 CTAACTA
21497215 CTAACTA
1 CTAACTA
21497222 C
1 C
21497223 CATAGCTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 31 0.79
8 5 0.13
9 3 0.08
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (7 bp):
CTAACTA
Found at i:21501454 original size:25 final size:25
Alignment explanation
Indices: 21501426--21501485 Score: 97
Period size: 23 Copynumber: 2.5 Consensus size: 25
21501416 ATTATATATT
21501426 AAATATATATTTTTTATTTTTAATA
1 AAATATATATTTTTTATTTTTAATA
*
21501451 AAATATATA--TTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATA
21501474 AAATATATATTT
1 AAATATATATTT
21501486 AAAATGGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 22 0.69
25 10 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATA
Found at i:21506713 original size:82 final size:82
Alignment explanation
Indices: 21506572--21506740 Score: 293
Period size: 82 Copynumber: 2.1 Consensus size: 82
21506562 CGTTCGTTTG
* * *
21506572 CTAACTTCTTTTTCCTCTTTAATTTGGAAAGGGGCAACCCGATTTTCCTGTTACCATTTCTGGGT
1 CTAACTTCTTTTTCCTCTTTAATTCGGAAACGGGCAACCCGATTTTCCTGTTACAATTTCTGGGT
21506637 TTAGTATATAAAATTTA
66 TTAGTATATAAAATTTA
* *
21506654 CTAACTTCTTTTTCTTCTTTAATTCGGAAACGGGCAACCCGATTTTCTTGTTACAATTTCTGGGT
1 CTAACTTCTTTTTCCTCTTTAATTCGGAAACGGGCAACCCGATTTTCCTGTTACAATTTCTGGGT
21506719 TTAGTATATAAAATTTA
66 TTAGTATATAAAATTTA
21506736 CTAAC
1 CTAAC
21506741 CCGCACTAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (82 bp):
CTAACTTCTTTTTCCTCTTTAATTCGGAAACGGGCAACCCGATTTTCCTGTTACAATTTCTGGGT
TTAGTATATAAAATTTA
Found at i:21508122 original size:141 final size:141
Alignment explanation
Indices: 21507868--21508132 Score: 467
Period size: 141 Copynumber: 1.9 Consensus size: 141
21507858 TTCAAGTTAC
*
21507868 ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCGTGTTGTAACATTTT
1 ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
*
21507933 AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAATAAGTTGACGTGGCACGTTAAATCATC
66 AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAATAAGCTGACGTGGCACGTTAAATCATC
21507998 ATTTCAAACAA
131 ATTTCAAACAA
* *
21508009 ATTTTAGTCACTTATGTTTGAAATGTTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
1 ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
* * *
21508074 AGTCACTGAGTCGTTAATTGTCGTTAACAGTGTAACAGTAAGCTGACGTGGCACGTTAA
66 AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAATAAGCTGACGTGGCACGTTAA
21508133 CAAATTTTAG
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 117 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (141 bp):
ATTTTAGTCACTTATGTTTAAAATATTACGTTTTAGTCACTTGCGTTATCATGTTGTAACATTTT
AGTCACTAAGTCGTTAATTGCCGTTAACAGTGTAACAATAAGCTGACGTGGCACGTTAAATCATC
ATTTCAAACAA
Found at i:21512124 original size:13 final size:13
Alignment explanation
Indices: 21512106--21512131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21512096 AAAGAGATTT
21512106 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
21512119 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
21512132 AAATTGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:21512201 original size:19 final size:19
Alignment explanation
Indices: 21512161--21512202 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
21512151 GTCTCTTTTC
* *
21512161 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
21512180 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
21512199 GCAT
1 GCAT
21512203 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:21513923 original size:29 final size:30
Alignment explanation
Indices: 21513891--21513954 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
21513881 AAATTAAAAT
21513891 TTCATGTATAAAATTGCACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAATCAAAG
* *
21513920 TTCATGTATAAAGTTGCACATTAAATCATAG
1 TTCATGTATAAAATTGCACA-TAAATCAAAG
21513951 TTCA
1 TTCA
21513955 CATTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 19 0.61
31 12 0.39
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAATCAAAG
Found at i:21520639 original size:111 final size:111
Alignment explanation
Indices: 21520445--21520701 Score: 505
Period size: 111 Copynumber: 2.3 Consensus size: 111
21520435 TTTCTTCAAA
21520445 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCTGCCTATCTTCG
1 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCTGCCTATCTTCG
21520510 TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
66 TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
21520556 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCTGCCTATCTTCG
1 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCTGCCTATCTTCG
*
21520621 TGGAAATTATAAATTTAGAATATAAAATATATGGTTAAATTATAAT
66 TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
21520667 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAG
1 TTTTAAATATTTAATTTAAAATTAGTTTAAATTAG
21520702 TTTTGATGTA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 145 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (111 bp):
TTTTAAATATTTAATTTAAAATTAGTTTAAATTAGACTAGAATTCTTATCAGCTGCCTATCTTCG
TGGAAATTATAAATTTAGAATATAAAATATATGGCTAAATTATAAT
Found at i:21520689 original size:22 final size:23
Alignment explanation
Indices: 21520655--21520698 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
21520645 AAATATATGG
*
21520655 TTAAATTATAATT-TTTAAATAT
1 TTAAATTAAAATTATTTAAATAT
*
21520677 TTAATTTAAAATTAGTTTAAAT
1 TTAAATTAAAATTA-TTTAAAT
21520699 TAGTTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATTAAAATTATTTAAATAT
Found at i:21535370 original size:103 final size:104
Alignment explanation
Indices: 21535191--21535455 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
21535181 AACCGTTATT
* * * *
21535191 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
21535256 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
21535294 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
21535358 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
21535398 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21535456 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:21542853 original size:103 final size:104
Alignment explanation
Indices: 21542674--21542938 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
21542664 AACCGTTATT
* * * *
21542674 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
21542739 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
21542777 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
21542841 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
21542881 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21542939 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:21543303 original size:30 final size:30
Alignment explanation
Indices: 21543269--21543329 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21543259 TCCACCACCC
*
21543269 AACTTTTTAAAAATTACAATTTTGCCCCCA
1 AACTTTTGAAAAATTACAATTTTGCCCCCA
* * * *
21543299 AACTTTTGCATAATTACACTTTTGTCCCCA
1 AACTTTTGAAAAATTACAATTTTGCCCCCA
21543329 A
1 A
21543330 GCTCGGAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACAATTTTGCCCCCA
Found at i:21545969 original size:3 final size:3
Alignment explanation
Indices: 21545961--21546029 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
21545951 TTCAGTAATT
*
21545961 TTA TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TT- TCTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA
*
21546006 TTA CTTA TCA -TA TTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA
21546030 CATAATAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
2 3 0.05
3 48 0.86
4 5 0.09
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21545986 original size:15 final size:15
Alignment explanation
Indices: 21545968--21546028 Score: 86
Period size: 15 Copynumber: 3.9 Consensus size: 15
21545958 ATTTTATTAT
21545968 TATTATTATTATTTC
1 TATTATTATTATTTC
21545983 TATTATTATTATTTC
1 TATTATTATTATTTC
*
21545998 TATTATTGTTACTTATC
1 TATTATTATTA-TT-TC
21546015 ATATTATTATTATT
1 -TATTATTATTATT
21546029 ACATAATAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
15 25 0.61
16 2 0.05
17 4 0.10
18 10 0.24
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTATTATTATTTC
Found at i:21546363 original size:12 final size:12
Alignment explanation
Indices: 21546342--21546373 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21546332 TTTTATAGCC
*
21546342 TTATTCATTTCT
1 TTATTTATTTCT
21546354 TTATTTATTTCT
1 TTATTTATTTCT
21546366 TTATTTAT
1 TTATTTAT
21546374 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:21550914 original size:32 final size:33
Alignment explanation
Indices: 21550837--21550900 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
21550827 TCCGATTCGA
* *
21550837 AAAAAGGAAAAGAAAATAGAGAAAAAATCAAAAT
1 AAAAA-GAAAAAAAAATAGAAAAAAAATCAAAAT
*
21550871 AAAAATAAAAAAAAA-AGAAAAAAAATCAAA
1 AAAAAGAAAAAAAAATAGAAAAAAAATCAAA
21550901 GGTAAAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 14 0.52
33 8 0.30
34 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.08
Consensus pattern (33 bp):
AAAAAGAAAAAAAAATAGAAAAAAAATCAAAAT
Found at i:21551337 original size:7 final size:7
Alignment explanation
Indices: 21551315--21551381 Score: 82
Period size: 7 Copynumber: 9.6 Consensus size: 7
21551305 ATGAAGTTCA
*
21551315 AAAAATA
1 AAAAATG
21551322 AAAAGATG
1 AAAA-ATG
*
21551330 AAGAATG
1 AAAAATG
21551337 -AAAATG
1 AAAAATG
*
21551343 GAAAATG
1 AAAAATG
21551350 AAAAATG
1 AAAAATG
21551357 AAAAATG
1 AAAAATG
21551364 AAAAATG
1 AAAAATG
*
21551371 AAAAAAG
1 AAAAATG
21551378 AAAA
1 AAAA
21551382 GAGTAAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
6 5 0.09
7 43 0.81
8 5 0.09
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:21551389 original size:21 final size:21
Alignment explanation
Indices: 21551344--21551391 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21551334 ATGAAAATGG
*
21551344 AAAATGAAAAATGAAAAATGA
1 AAAATGAAAAATGAAAAAAGA
* *
21551365 AAAATGAAAAAAGAAAAGAGTA
1 AAAATGAAAAATGAAAAAAG-A
21551387 AAAAT
1 AAAAT
21551392 TGAGAGGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (21 bp):
AAAATGAAAAATGAAAAAAGA
Found at i:21552740 original size:87 final size:87
Alignment explanation
Indices: 21552615--21553807 Score: 1787
Period size: 87 Copynumber: 13.8 Consensus size: 87
21552605 AGATCAGTGA
* * * *
21552615 AGATAAAAAACAAAGTCTTGCCTCCAACGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
21552680 CTTCCTGCGTTAACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
21552702 AGATCAAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* *
21552767 ATTCCTGCGTTAACAGCAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
21552789 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * *
21552854 CTTCCTGTGTTAACAGTGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* * *
21552876 AGATCGAAAACAATGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAATAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
21552941 CTTCCTGCGTTAACAGCAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * *
21552963 AGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGGAGTTGGTTAAAGATAACAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* *
21553028 CTTCCTACGTTAACAGCGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* *
21553050 AGA-CAAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAGCAGATCTTG
1 AGATC-AAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
*
21553114 CCTTCCTACGTTAACAGCGAAGC
65 CCTTCCTGCGTTAACAGCGAAGC
* *
21553137 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAT---AGATC-TG-
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
21553197 CATCCTG-GTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
21553218 AGATC-GAAAC-AAGCCTTGCCTCCATC-GTTACAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
21553280 CTTCCTGCGTTAACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
21553302 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAATAGATCTTAC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
21553367 CTTCCTGCGTTAACAGCGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
*
21553389 AGA-CTAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAAATCTTG
1 AGATC-AAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * *
21553453 CCTTACTGCGTTAACAGCAAAGT
65 CCTTCCTGCGTTAACAGCGAAGC
* *
21553476 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* *
21553541 CTTCCTGCGTTAACAACAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
*
21553563 AGATCCAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * *
21553628 ATTCCTGCGTTAACATCAAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * *
21553650 AGATAAAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * *
21553715 CTTCCTGTGTTAACAGTGAAGT
66 CTTCCTGCGTTAACAGCGAAGC
* * *
21553737 AGATCGAAAACAATGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
21553802 CTTCCT
66 CTTCCT
21553808 AAGTACTAGC
Statistics
Matches: 1009, Mismatches: 84, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
78 23 0.02
79 16 0.02
80 3 0.00
81 24 0.02
82 7 0.01
83 8 0.01
84 23 0.02
85 4 0.00
86 18 0.02
87 881 0.87
88 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Found at i:21553322 original size:43 final size:43
Alignment explanation
Indices: 21553199--21553324 Score: 104
Period size: 39 Copynumber: 3.0 Consensus size: 43
21553189 TAGATCTGCA
*
21553199 TCCTG-GTTAACAGCGAAGCAGATCG-AAAC-AAGCCTTGCC-
1 TCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCT
* * * * * *
21553238 TCCAT-CGTT-ACAGTGGAGCTGGT-TAAAGATAACAGATCTTGCCT
1 TCC-TGCGTTAACAGTGAAGCAGATCGAAA-ACAA-AG-CCTTGCCT
21553282 TCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCT
1 TCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCT
21553325 CCATCGGTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
39 15 0.24
40 5 0.08
41 1 0.02
42 2 0.03
43 14 0.22
44 9 0.14
45 14 0.22
46 3 0.05
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (43 bp):
TCCTGCGTTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCT
Found at i:21560336 original size:23 final size:23
Alignment explanation
Indices: 21560310--21560406 Score: 131
Period size: 23 Copynumber: 4.2 Consensus size: 23
21560300 TGTTATTGAT
21560310 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
* * * **
21560333 CAGTGATAGCTTCGACTGCATTT
1 CAGTGGTAGCTTCGGCTACATAA
21560356 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
* *
21560379 CAGTGGTAGCTTCAGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
21560402 CAGTG
1 CAGTG
21560407 TTGCACTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:21560405 original size:46 final size:46
Alignment explanation
Indices: 21560308--21560406 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
21560298 AGTGTTATTG
*
21560308 ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCGACTGCAT
1 ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCGACTACAT
* *
21560354 TTCAGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTC-AGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCGA-CTACAT
21560400 ATCAGTG
1 ATCAGTG
21560407 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 1 0.02
46 47 0.98
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATAACAGTGATAGCTTCGACTACAT
Found at i:21585791 original size:10 final size:10
Alignment explanation
Indices: 21585778--21585807 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
21585768 ATATAAAAAA
21585778 ATAATTTATT
1 ATAATTTATT
21585788 ATAATTTATT
1 ATAATTTATT
*
21585798 ATAACTTATT
1 ATAATTTATT
21585808 GTTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
ATAATTTATT
Found at i:21586689 original size:24 final size:24
Alignment explanation
Indices: 21586634--21586690 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
21586624 TTTAAAATAC
21586634 ATTAAAAATATTTTTATTTTTTAT
1 ATTAAAAATATTTTTATTTTTTAT
* *
21586658 TTTTAAAATATTTTT-TTTGTGTT-T
1 ATTAAAAATATTTTTATTT-T-TTAT
21586682 ATTAAAAAT
1 ATTAAAAAT
21586691 CGGGCCAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTAAAAATATTTTTATTTTTTAT
Found at i:21588891 original size:3 final size:3
Alignment explanation
Indices: 21588885--21588915 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21588875 TACTACTACC
21588885 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21588916 GTAGTAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21588920 original size:3 final size:3
Alignment explanation
Indices: 21588914--21588981 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
21588904 TTATTATTAT
* *
21588914 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TGG TGG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
21588962 TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TA
21588982 TTTTATTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:21602159 original size:37 final size:37
Alignment explanation
Indices: 21602098--21602176 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21602088 TTATTACGAA
* * * *
21602098 GTCTTACCCGGGCATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21602135 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21602172 GTCTT
1 GTCTT
21602177 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21602373 original size:47 final size:47
Alignment explanation
Indices: 21602297--21602415 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
21602287 CTTCGGGACT
* * * * *
21602297 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
21602344 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
21602391 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
21602416 ACCAACCCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:21602760 original size:39 final size:40
Alignment explanation
Indices: 21602640--21602821 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
21602630 GCTACTCGTT
*
21602640 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21602680 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
21602720 CAAATACCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
21602759 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21602800 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
21602822 AGACATCATT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21605659 original size:40 final size:40
Alignment explanation
Indices: 21605629--21605938 Score: 478
Period size: 40 Copynumber: 7.8 Consensus size: 40
21605619 AGCATGATTA
* * * *
21605629 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * * *
21605669 CTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAATG
1 CTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAATG
* *
21605709 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
21605749 CTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
21605789 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
21605829 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
21605869 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
21605909 CTCTTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATACATCACT
21605939 CTCAATTCTC
Statistics
Matches: 249, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 246 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:21607203 original size:37 final size:37
Alignment explanation
Indices: 21607153--21607231 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21607143 TTATTACGAA
* * *
21607153 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21607190 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21607227 GTCTT
1 GTCTT
21607232 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21607428 original size:47 final size:47
Alignment explanation
Indices: 21607350--21607709 Score: 603
Period size: 47 Copynumber: 7.6 Consensus size: 47
21607340 CCCTTCGGGA
* * * * * *
21607350 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21607397 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21607444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21607491 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21607540 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21607587 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21607636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21607683 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
21607710 ACCAACCCTT
Statistics
Matches: 297, Mismatches: 12, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
47 204 0.69
49 93 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21607547 original size:96 final size:94
Alignment explanation
Indices: 21607350--21607709 Score: 603
Period size: 96 Copynumber: 3.8 Consensus size: 94
21607340 CCCTTCGGGA
* * * * * * * *
21607350 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21607415 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
21607444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
21607509 ACTTTCACATTCATCACATCGACCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
21607540 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
21607605 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
21607636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21607701 TTTCACATT
66 TTTCACATT
21607710 ACCAACCCTT
Statistics
Matches: 254, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
94 66 0.26
96 188 0.74
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:21607648 original size:143 final size:141
Alignment explanation
Indices: 21607350--21607709 Score: 603
Period size: 143 Copynumber: 2.5 Consensus size: 141
21607340 CCCTTCGGGA
* * * * * * * *
21607350 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21607415 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
21607480 GGCCATTAGGC
131 GGCCATTAGGC
*
21607491 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
21607556 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
21607621 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
21607636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21607701 TTTCACATT
66 TTTCACATT
21607710 ACCAACCCTT
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
141 8 0.04
143 150 0.73
145 47 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:21607971 original size:40 final size:40
Alignment explanation
Indices: 21607934--21608114 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
21607924 GCTACTCGTT
*
21607934 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATT-TAGTAACTCGCA
* *
21607974 CAAATGCCTTTGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* * *
21608014 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* * * * * *
21608053 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCAGATTTAGTAAC-TCGCA
21608094 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
21608115 GAGACATCAT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 71 0.59
41 15 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
Found at i:21612254 original size:24 final size:24
Alignment explanation
Indices: 21612191--21612242 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21612181 TTTCTAGAAG
* * *
21612191 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
21612215 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
21612239 ATTT
1 ATTT
21612243 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:21615055 original size:45 final size:45
Alignment explanation
Indices: 21614839--21615052 Score: 347
Period size: 45 Copynumber: 4.8 Consensus size: 45
21614829 TTGTTTCTTA
* *
21614839 AATTATGCGTGATGTTGGCCAAATGCTTCCTTAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTTAAATTCTTCCATG
*
21614884 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTTAAATTCTTCCATG
*
21614929 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGTCAAATGCTTCCTTAAATTCTTCCATG
* * * *
21614974 AATTATGCATGATGTTGGTCAAGTGCTTCCTTAATTTGTTCCATA
1 AATTATGCATGATGTTGGTCAAATGCTTCCTTAAATTCTTCCATG
*
21615019 AATTATGTATGATGTTGGTCAAATGCTTCCTTAA
1 AATTATGCATGATGTTGGTCAAATGCTTCCTTAA
21615053 TTTCATGCCG
Statistics
Matches: 159, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 159 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (45 bp):
AATTATGCATGATGTTGGTCAAATGCTTCCTTAAATTCTTCCATG
Found at i:21615413 original size:20 final size:20
Alignment explanation
Indices: 21615388--21615442 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
21615378 ACGAGTTAAA
* *
21615388 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
21615408 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
21615428 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
21615443 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:21617992 original size:24 final size:24
Alignment explanation
Indices: 21617930--21617980 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
21617920 TTCTAGAAGG
* * *
21617930 TTTAGTATTTATGAGTATAATATA
1 TTTAGCATTTATTAGCATAATATA
21617954 TTTAGCATTTATTAGCATAATATA
1 TTTAGCATTTATTAGCATAATATA
21617978 TTT
1 TTT
21617981 GACTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTAGCATTTATTAGCATAATATA
Found at i:21622454 original size:15 final size:16
Alignment explanation
Indices: 21622434--21622467 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21622424 AATTTTTTAA
21622434 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
21622449 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
21622465 AAA
1 AAA
21622468 ATTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:21623753 original size:12 final size:12
Alignment explanation
Indices: 21623736--21623763 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21623726 TTCCTTCCAT
21623736 TTTTTGTTTTCA
1 TTTTTGTTTTCA
21623748 TTTTTGTTTTCA
1 TTTTTGTTTTCA
21623760 TTTT
1 TTTT
21623764 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTGTTTTCA
Found at i:21624409 original size:63 final size:63
Alignment explanation
Indices: 21624303--21624536 Score: 215
Period size: 63 Copynumber: 3.7 Consensus size: 63
21624293 TATGAGGTCG
* * * * *
21624303 TGTAACTCACTATTTTGGCTTTAGGGTCACACAGGCTAGGGACACAGGCATGTGTCTAAGCCT
1 TGTAACTCATTGTTTTGGCTTTAGAGTCACACGGGCTAAGGACACAGGCATGTGTCTAAGCCT
* * * * * * *
21624366 TGTAACTTATTGTTTTAGCTTTAGAGTCAAACGGGCTAAGGACACAAGCCTGTGTCTAGGCCA
1 TGTAACTCATTGTTTTGGCTTTAGAGTCACACGGGCTAAGGACACAGGCATGTGTCTAAGCCT
* * * * *
21624429 TGTAACTCACTATTTTGGCTTTAGAGTCACCCGGGCT-AGAGACAC-GGACGTGTGTCCAAG-CT
1 TGTAACTCATTGTTTTGGCTTTAGAGTCACACGGGCTAAG-GACACAGG-CATGTGTCTAAGCCT
* * * *
21624491 GTGTAACTCATTGTTTTGGAGTTT-GAGTCGCACAGGCCAAGGACAC
1 -TGTAACTCATTGTTTTGG-CTTTAGAGTCACACGGGCTAAGGACAC
21624537 GGGCGTATGT
Statistics
Matches: 136, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
62 4 0.03
63 127 0.93
64 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (63 bp):
TGTAACTCATTGTTTTGGCTTTAGAGTCACACGGGCTAAGGACACAGGCATGTGTCTAAGCCT
Found at i:21624533 original size:126 final size:126
Alignment explanation
Indices: 21624303--21624536 Score: 305
Period size: 126 Copynumber: 1.9 Consensus size: 126
21624293 TATGAGGTCG
* * *
21624303 TGTAACTCACTATTTTGGCTTTAGGGTCACACAGGCTAGGGACACAGGCATGTGTCTAAGCCTTG
1 TGTAACTCACTATTTTGGCTTTAGAGTCACACAGGCTAGAGACACAGGCATGTGTCCAAGCCTTG
* * *
21624368 TAACTTATTGTTTTAGCTTTAGAGTCAAACGGGCTAAGGACACAAGCCTGTGTCTAGGCCA
66 TAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCCAAGGACACAAGCCTGTGTCTAGGCCA
* * *
21624429 TGTAACTCACTATTTTGGCTTTAGAGTCACCCGGGCTAGAGACAC-GGACGTGTGTCCAAG-CTG
1 TGTAACTCACTATTTTGGCTTTAGAGTCACACAGGCTAGAGACACAGG-CATGTGTCCAAGCCT-
**
21624492 TGTAACTCATTGTTTTGGAG-TTT-GAGTCGCACAGGCCAAGGACAC
64 TGTAACTCATTGTTTT--AGCTTTAGAGTCAAACAGGCCAAGGACAC
21624537 GGGCGTATGT
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
125 4 0.04
126 84 0.90
127 3 0.03
128 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (126 bp):
TGTAACTCACTATTTTGGCTTTAGAGTCACACAGGCTAGAGACACAGGCATGTGTCCAAGCCTTG
TAACTCATTGTTTTAGCTTTAGAGTCAAACAGGCCAAGGACACAAGCCTGTGTCTAGGCCA
Found at i:21636505 original size:17 final size:17
Alignment explanation
Indices: 21636485--21636519 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21636475 ATAGAAATAA
*
21636485 ATAATATTGTTAAAATT
1 ATAATAATGTTAAAATT
*
21636502 ATAATAATGTTAATATT
1 ATAATAATGTTAAAATT
21636519 A
1 A
21636520 ATATATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATAATAATGTTAAAATT
Found at i:21637794 original size:20 final size:19
Alignment explanation
Indices: 21637756--21637817 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
21637746 AATTTTTTAA
**
21637756 AAATTAAAAAAATTCAAAT
1 AAATTAAAAAAATAAAAAT
21637775 AAATTATAAAAAATAAAAAT
1 AAATTA-AAAAAATAAAAAT
* *
21637795 -TATTGAAAAAGCATAAAAAT
1 AAATT-AAAAA-AATAAAAAT
21637815 AAA
1 AAA
21637818 AAATATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.38
20 20 0.59
21 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATTAAAAAAATAAAAAT
Found at i:21639216 original size:19 final size:20
Alignment explanation
Indices: 21639176--21639220 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
21639166 CAGAAATATT
21639176 TTTAAATATCAAATTAATAA
1 TTTAAATATCAAATTAATAA
*
21639196 TTTAAAT-TTAAATTTAA-AA
1 TTTAAATATCAAA-TTAATAA
21639215 TTTAAA
1 TTTAAA
21639221 AATTCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAATATCAAATTAATAA
Found at i:21660623 original size:21 final size:19
Alignment explanation
Indices: 21660597--21660640 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
21660587 ATGTAAATTG
21660597 ATTTTTTAAAATTTTATATAT
1 ATTTTTTAAAA-TTTATA-AT
*
21660618 ATTTTTTTAAATTTATAAT
1 ATTTTTTAAAATTTATAAT
21660637 ATTT
1 ATTT
21660641 ATAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTTAAAATTTATAAT
Found at i:21660689 original size:16 final size:15
Alignment explanation
Indices: 21660608--21660680 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
21660598 TTTTTTAAAA
* *
21660608 TTTTATATA-TATTT
1 TTTTAAATATTATAT
21660622 TTTTAAAT-TTATAAT
1 TTTTAAATATTAT-AT
* *
21660637 ATTTATAATATTTAGATT
1 TTTTA-AATA-TTATA-T
*
21660655 TTTTAAATATTATGT
1 TTTTAAATATTATAT
21660670 TTTTAAATATT
1 TTTTAAATATT
21660681 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.22
15 17 0.37
16 6 0.13
17 5 0.11
18 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTAAATATTATAT
Done.