Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 115 of 187
Found at i:33885447 original size:186 final size:185
Alignment explanation
Indices: 33885118--33885462 Score: 523
Period size: 186 Copynumber: 1.9 Consensus size: 185
33885108 AATATAATGT
*
33885118 TTTTACCTTGCTGAAAATTTAATTGTACATGGTTATAAATTGTCGATCTTGAATTGTTTATGAAT
1 TTTTACCTTGCTGAAAATTTAATTGTACATGGTTATAAATTGTCGATATTGAATTGTTTATGAAT
* * * *
33885183 ATAGGATGCCGAATTGGATTTGGATATGAGTATACAATATCGAACTTGATTCGTGTATGGTTATA
66 ATAGGATGACGAATTGGATTTGGATATAAGTATACAATACCGAACTTGATTCGTGAATGGTTATA
* * *
33885248 TATTGCCGAATTGTTTGGTATATGGATATAAGTTGACGCATTGATTCGTATATAG
131 TATTGCAGAATTGTTGGGTATATCGATATAAGTTGACGCATTGATTCGTATATAG
* *
33885303 TTTTACCTTGCTG-AAATTTAATTGTACATGGTTATATATATTGTCGATATTGCATTGTTTATGT
1 TTTTACCTTGCTGAAAATTTAATTGTACATGGTTATA-A-ATTGTCGATATTGAATTGTTTATGA
* * * *
33885367 ATATAGGATGACGAATTTGATTTGTG-TATAATTATACATTGCCGAACTTGATTCGTGAATGGTT
64 ATATAGGATGACGAATTGGATTTG-GATATAAGTATACAATACCGAACTTGATTCGTGAATGGTT
33885431 ATATATTGCAGAATTGTTGGGTATATCGATAT
128 ATATATTGCAGAATTGTTGGGTATATCGATAT
33885463 TCATTGCTGA
Statistics
Matches: 143, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
184 23 0.16
185 14 0.10
186 105 0.73
187 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (185 bp):
TTTTACCTTGCTGAAAATTTAATTGTACATGGTTATAAATTGTCGATATTGAATTGTTTATGAAT
ATAGGATGACGAATTGGATTTGGATATAAGTATACAATACCGAACTTGATTCGTGAATGGTTATA
TATTGCAGAATTGTTGGGTATATCGATATAAGTTGACGCATTGATTCGTATATAG
Found at i:33885537 original size:31 final size:30
Alignment explanation
Indices: 33885506--33885639 Score: 78
Period size: 31 Copynumber: 4.4 Consensus size: 30
33885496 ATTATTGAAT
33885506 TTGATTTGTATAAGGA-TATAAGCTGTCGAA
1 TTGATTTGTATAAGGATTATAA-CTGTCGAA
* * * * * *
33885536 TTCATTCGTAT-ATGATTATTCATTGTTGAAA
1 TTGATTTGTATAAGGATTA-TAACTGTCG-AA
* * * * *
33885567 TTAATTTGTAT-ATGATTATACATTATTGAAA
1 TTGATTTGTATAAGGATTATA-ACTGTCG-AA
33885598 TTGATTTGTATAAGGA-TATAAGCTGTCGAA
1 TTGATTTGTATAAGGATTATAA-CTGTCGAA
*
33885628 TTGATTCGTATA
1 TTGATTTGTATA
33885640 TGATTATTCA
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
29 3 0.04
30 30 0.37
31 46 0.56
32 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
TTGATTTGTATAAGGATTATAACTGTCGAA
Found at i:33885715 original size:31 final size:31
Alignment explanation
Indices: 33885534--33885702 Score: 173
Period size: 31 Copynumber: 5.5 Consensus size: 31
33885524 TAAGCTGTCG
* * * *
33885534 AATTCATTCGTATATGATTATTCATTGTTGA
1 AATTGATTTGTATATGATTATACATTATTGA
*
33885565 AATTAATTTGTATATGATTATACATTATTGA
1 AATTGATTTGTATATGATTATACATTATTGA
* * * *
33885596 AATTGATTTGTATAAGGA-TATA-AGCTGTCG-
1 AATTGATTTGTAT-ATGATTATACA-TTATTGA
* * **
33885626 AATTGATTCGTATATGATTATTCATTGCTGA
1 AATTGATTTGTATATGATTATACATTATTGA
*
33885657 AATTAATTTGTATATGATTATACATTATTGA
1 AATTGATTTGTATATGATTATACATTATTGA
33885688 AATTGATTTGTATAT
1 AATTGATTTGTATAT
33885703 TAATATATAT
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
29 3 0.03
30 19 0.17
31 87 0.78
32 3 0.03
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (31 bp):
AATTGATTTGTATATGATTATACATTATTGA
Found at i:33885725 original size:92 final size:92
Alignment explanation
Indices: 33885451--33885701 Score: 409
Period size: 92 Copynumber: 2.7 Consensus size: 92
33885441 GAATTGTTGG
* * *
33885451 GTATATCGA-TATTCATTGCTGAAATTAATTTATTTAT-AGTTACT-CATTATTGAATTTGATTT
1 GTATAT-GATTATTCATTGCTGAAATTAATTTGTATATGA-TTA-TACATTATTGAAATTGATTT
*
33885513 GTATAAGGATATAAGCTGTCGAATTCATTC
63 GTATAAGGATATAAGCTGTCGAATTGATTC
*
33885543 GTATATGATTATTCATTGTTGAAATTAATTTGTATATGATTATACATTATTGAAATTGATTTGTA
1 GTATATGATTATTCATTGCTGAAATTAATTTGTATATGATTATACATTATTGAAATTGATTTGTA
33885608 TAAGGATATAAGCTGTCGAATTGATTC
66 TAAGGATATAAGCTGTCGAATTGATTC
33885635 GTATATGATTATTCATTGCTGAAATTAATTTGTATATGATTATACATTATTGAAATTGATTTGTA
1 GTATATGATTATTCATTGCTGAAATTAATTTGTATATGATTATACATTATTGAAATTGATTTGTA
33885700 TA
66 TA
33885702 TTAATATATA
Statistics
Matches: 150, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
91 3 0.02
92 146 0.97
93 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (92 bp):
GTATATGATTATTCATTGCTGAAATTAATTTGTATATGATTATACATTATTGAAATTGATTTGTA
TAAGGATATAAGCTGTCGAATTGATTC
Found at i:33886983 original size:18 final size:18
Alignment explanation
Indices: 33886935--33886986 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
33886925 AGACAAAGAC
33886935 AATAATAAT-ACAAATAAT
1 AATAATAATGAC-AATAAT
**
33886953 AAT-ATAGGGGACAATAAT
1 AATAATA-ATGACAATAAT
33886971 AATAATAATGACAATA
1 AATAATAATGACAATA
33886987 TAAACAACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.25
Consensus pattern (18 bp):
AATAATAATGACAATAAT
Found at i:33886987 original size:30 final size:30
Alignment explanation
Indices: 33886932--33886988 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33886922 CATAGACAAA
*
33886932 GACAATAATAATACAAATAATAATATAGGG
1 GACAATAATAATACAAATAACAATATAGGG
*
33886962 GACAATAATAATA-ATAATGACAATATA
1 GACAATAATAATACA-AATAACAATATA
33886989 AACAACCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.25
Consensus pattern (30 bp):
GACAATAATAATACAAATAACAATATAGGG
Found at i:33887234 original size:23 final size:23
Alignment explanation
Indices: 33887207--33887256 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
33887197 AATAATTTTT
* *
33887207 AAAAAAAATAAAAATAATAAAACG
1 AAAAGAAA-AAAAATAAAAAAACG
* *
33887231 AAAAGAAAAAATATAAAAAAATG
1 AAAAGAAAAAAAATAAAAAAACG
33887254 AAA
1 AAA
33887257 TTTAGTGGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (23 bp):
AAAAGAAAAAAAATAAAAAAACG
Found at i:33887622 original size:30 final size:31
Alignment explanation
Indices: 33887575--33887633 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
33887565 GCGCATGGTC
*
33887575 TAAGGACCAAATTAAAAAT-TAAAAAAAAAT
1 TAAGGACCAAATAAAAAATATAAAAAAAAAT
33887605 TAAGG-CCGAAATAAAAAATATAAAAAAAA
1 TAAGGACC-AAATAAAAAATATAAAAAAAA
33887634 CCACATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.08
30 15 0.58
31 9 0.35
ACGTcount: A:0.68, C:0.07, G:0.08, T:0.17
Consensus pattern (31 bp):
TAAGGACCAAATAAAAAATATAAAAAAAAAT
Found at i:33888906 original size:44 final size:44
Alignment explanation
Indices: 33888856--33889482 Score: 279
Period size: 44 Copynumber: 13.8 Consensus size: 44
33888846 GAATTTGTCG
* *
33888856 CTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTAGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAT
* *
33888900 CTTCAATCTGCTCCACTGCATCTTCAGGGAGATAAGATTAGTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAT
* ** * * * *
33888944 CTTCAATTTGCTCTGCTGCCACTTCAGGGAGGTAAGATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAT
** * * *
33888988 CCCCATTCTGCTCCACTGCAACTTCAAGGAGATAA-AGTTTG-AT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAT
* * * * * *
33889031 -AT-GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGATATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T--TA-GTAT
* * * *
33889078 AGCTTTAATCTGTTCCACTACAACTTCAAGGAGATAAGACTT-GTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAT
* * * * *
33889124 CTT-AAACTTGCTCCACTGCAACTTCAGGAAGACAAGGTTTGCTAT
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAT
* * *
33889169 CTTCAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGCTATGGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T--TA--GTAT
* * * * * * * *
33889219 ATTTAATCCGAC-CTACTACAACCTCAGAGG-TATAGGATT--TAT
1 CTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTAGTAT
* ** * * *
33889261 CGTTTTAATCCACTCCACTGCAACTTCAAGGAGATATGATTAGTAG
1 C--TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAT
* * * * *
33889307 CTTCAA-CTTGCTCCACTACAACTTCAAGGAGATAAGGTTTGTAG
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAT
* * * * * *
33889351 CTAT-GATCTGCTCTATTGCAACTTCAGAGAGATCAGATTTGTAATTTAT
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTAT
** * * * **
33889400 AGCTTCAATCTATTCCACAGTAACTTCAGGGAAATAAGATCCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAT
* *
33889447 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
33889483 GTTTACTATG
Statistics
Matches: 431, Mismatches: 111, Indels: 81
0.69 0.18 0.13
Matches are distributed among these distances:
41 25 0.06
42 3 0.01
43 12 0.03
44 217 0.50
45 65 0.15
46 10 0.02
47 7 0.02
48 2 0.00
49 4 0.01
50 29 0.07
51 57 0.13
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAT
Found at i:33889072 original size:41 final size:41
Alignment explanation
Indices: 33888994--33889073 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
33888984 GTAGCCCCAT
* *
33888994 TCTGCTCCACTGCAACTTCAAGGAGATAAAGTTTGATATGA
1 TCTGCTCCACTACAACTTCAAGGAGATAAAGTCTGATATGA
*
33889035 TCTGCTCTACTACAACTTC-AGAGAGAT-AAGATCTGATAT
1 TCTGCTCCACTACAACTTCAAG-GAGATAAAG-TCTGATAT
33889074 TTATAGCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (41 bp):
TCTGCTCCACTACAACTTCAAGGAGATAAAGTCTGATATGA
Found at i:33897532 original size:19 final size:19
Alignment explanation
Indices: 33897490--33897534 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33897480 TTATGAAACT
*
33897490 TAATGCATATGATGAAATG
1 TAATGCAGATGATGAAATG
*
33897509 TAATGCAGATGCATGAGATG
1 TAATGCAGATG-ATGAAATG
33897529 -AATGCA
1 TAATGCA
33897535 AAAGAGGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (19 bp):
TAATGCAGATGATGAAATG
Found at i:33901209 original size:15 final size:15
Alignment explanation
Indices: 33901158--33901212 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
33901148 CATAGACAAA
33901158 GACAATAATAATAAT
1 GACAATAATAATAAT
*
33901173 -ACAAATAATAATATAGGG
1 GAC-AATAATAATA-A--T
33901191 GACAATAATAATAAT
1 GACAATAATAATAAT
33901206 GACAATA
1 GACAATA
33901213 TAAACAACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 2 0.06
15 17 0.52
16 1 0.03
17 1 0.03
18 10 0.30
19 2 0.06
ACGTcount: A:0.58, C:0.07, G:0.11, T:0.24
Consensus pattern (15 bp):
GACAATAATAATAAT
Found at i:33907833 original size:7 final size:7
Alignment explanation
Indices: 33907815--33907884 Score: 92
Period size: 7 Copynumber: 10.0 Consensus size: 7
33907805 TGAGTCAGAA
33907815 AAAAATG
1 AAAAATG
33907822 AAAAAATG
1 -AAAAATG
33907830 -AAAATG
1 AAAAATG
33907836 AAAAATG
1 AAAAATG
33907843 AAAAATG
1 AAAAATG
33907850 -AAAATG
1 AAAAATG
33907856 AAAAATGG
1 AAAAAT-G
33907864 AAAAATG
1 AAAAATG
33907871 AAAAA-G
1 AAAAATG
33907877 TAAAAATG
1 -AAAAATG
33907885 GAGAGGCTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
6 13 0.23
7 29 0.51
8 15 0.26
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:33907835 original size:14 final size:14
Alignment explanation
Indices: 33907815--33907884 Score: 92
Period size: 13 Copynumber: 5.0 Consensus size: 14
33907805 TGAGTCAGAA
33907815 AAAAATGAAAAAATG
1 AAAAATG-AAAAATG
33907830 -AAAATGAAAAATG
1 AAAAATGAAAAATG
33907843 AAAAATG-AAAATG
1 AAAAATGAAAAATG
33907856 AAAAATGGAAAAATG
1 AAAAAT-GAAAAATG
33907871 AAAAA-GTAAAAATG
1 AAAAATG-AAAAATG
33907885 GAGAGGCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
13 20 0.39
14 20 0.39
15 11 0.22
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:33907840 original size:21 final size:20
Alignment explanation
Indices: 33907815--33907884 Score: 104
Period size: 21 Copynumber: 3.4 Consensus size: 20
33907805 TGAGTCAGAA
33907815 AAAAATGAAAAAATGAAAATG
1 AAAAATG-AAAAATGAAAATG
33907836 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
*
33907856 AAAAATGGAAAAATGAAAAAG
1 AAAAAT-GAAAAATGAAAATG
33907877 TAAAAATG
1 -AAAAATG
33907885 GAGAGGCTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
20 19 0.41
21 21 0.46
22 6 0.13
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:33909265 original size:45 final size:44
Alignment explanation
Indices: 33909201--33909356 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 44
33909191 AGCCACAACG
* * *
33909201 TCTTATCCCCCTGAAGTTGCAGTGGGGCAAATTGGAGATGGAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGAT-GAAAA
* * * *
33909246 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCTGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATGAAAA
* * ** * *
33909290 TCCTATCTCCCTGAAGTTGTAACGGAGCAGATTAAAG-T-AATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATGAA-A-A
**
33909334 TCTTATCTATCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
33909357 AGAGTGGATC
Statistics
Matches: 89, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 53 0.60
45 33 0.37
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATGAAAA
Found at i:33909458 original size:50 final size:50
Alignment explanation
Indices: 33909403--33909867 Score: 416
Period size: 50 Copynumber: 9.3 Consensus size: 50
33909393 GCACTGGAAC
* *
33909403 AGATTAAAGCCACATCGGTGAACCTTGCTTCCCTGGCATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGTTAAAA
* * * * * * * ** *
33909453 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA-CGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGC-ATTGCAGTTAAAA
* * * * *
33909503 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGAAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGTTAAAA
* * * ** ** * *
33909553 AGATTAAAGCTACAACAGCGAATCTTATTTCCCTGGCGGTGCAGTGGAACA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGT-TAAAA
*
33909604 A-ATTAAAGCCACAACGGTGAATCTTGCTT-CCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCT-GGCATTGCAGTTAAAA
* * ** ** *
33909653 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGCAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGTTAAAA
* *
33909703 AGATTAAAGCCACATCGGTGAATCTTGCTTACCC-GACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTT-CCCTGGCATTGCAGTTAAAA
* * * * ** ** *
33909753 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGTTAAAA
** * * *
33909803 AGATTAAAGCCACATTGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGTTAAAA
33909853 AGATTAAAGCCACAA
1 AGATTAAAGCCACAA
33909868 TGACGAATCT
Statistics
Matches: 318, Mismatches: 89, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
49 11 0.03
50 296 0.93
51 11 0.03
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGGCATTGCAGTTAAAA
Found at i:33909570 original size:100 final size:100
Alignment explanation
Indices: 33909376--33909961 Score: 823
Period size: 100 Copynumber: 5.9 Consensus size: 100
33909366 CGCATTAAAA
* * * * *
33909376 CTTATTTCCCTGGCGGTGCACTGGAACAGATTAAAGCCACATCGGTGAACCTTGCTTCCCTGGCA
1 CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
33909441 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
66 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
* * ** *
33909476 CTTACTCCCCAGGCGACGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACA
1 CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
*
33909541 TTGAAGTTAAAAAGATTAAAGCTACAACAGCGAAT
66 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
* * * *
33909576 CTTATTTCCCTGGCGGTGCAGTGGAACAAATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACA
1 CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
* *
33909641 TTGCAGTTAAAAAGATTAAAGCCACAACGGCGAAT
66 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
* *
33909676 CTTACTTCCCTGGCGGTGCAGTGCAACAGATTAAAGCCACATCGGTGAATCTTGCTTACCCGACA
1 CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
33909741 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
66 TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
* * *
33909776 CTTACTTCCCTGGCGGTGCAGTGGAATAGATTAAAGCCACATTGGTGAATCTCGCTTCCCCGACA
1 CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
* *
33909841 TTGCAGTTAAAAAGATTAAAGCCACAA-TGACGAAT
66 TTGCAGTTAAAAAGATTAAAGCTACAACAG-CGAAT
* * * * * * * * * * *
33909876 CTCACCTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAATCATACTTCCCCGACA
1 CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
* *
33909941 TTGTAGTTAAATAGATTAAAG
66 TTGCAGTTAAAAAGATTAAAG
33909962 TTACGAGTTA
Statistics
Matches: 431, Mismatches: 54, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
99 1 0.00
100 430 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
CTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACA
TTGCAGTTAAAAAGATTAAAGCTACAACAGCGAAT
Found at i:33909946 original size:50 final size:50
Alignment explanation
Indices: 33909403--33909961 Score: 390
Period size: 50 Copynumber: 11.2 Consensus size: 50
33909393 GCACTGGAAC
* * * * * * * *
33909403 AGATTAAAGCCACATCGGTGAACCTTGCTTCCCTGGCATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
* * * * *
33909453 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-CGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCC-GAC-ATTGCAGTGAAAA
* * * * *
33909503 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGAAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
* * * * ** *
33909553 AGATTAAAGCTACAACAGCGAATCTTATTTCCCTGGCGGTGCAGTGGAACA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGT-GAAAA
* * * * *
33909604 A-ATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
* * * ** * *
33909653 AGATTAAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGCAAC
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
* * * * * *
33909703 AGATTAAAGCCACATCGGTGAATCTTGCTTACCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
* * * ** * *
33909753 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
*** * ** *
33909803 AGATTAAAGCCACATTGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
* * * * ** * * *
33909853 AGATTAAAGCCACAA-TGACGAATCTCACCT-CCCTAGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAACAG-CGAATCTTACTTCCCCGA-CATTGCAGTGAAAA
* * * * * *
33909903 AGATTGAAGCTACAACAGCGAATCATACTTCCCCGACATTGTAGTTAAAT
1 AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
33909953 AGATTAAAG
1 AGATTAAAG
33909962 TTACGAGTTA
Statistics
Matches: 381, Mismatches: 118, Indels: 20
0.73 0.23 0.04
Matches are distributed among these distances:
49 14 0.04
50 352 0.92
51 15 0.04
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTACTTCCCCGACATTGCAGTGAAAA
Found at i:33914600 original size:9 final size:9
Alignment explanation
Indices: 33914586--33914610 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33914576 AGGTTTAGGT
33914586 TTTGGGCCA
1 TTTGGGCCA
33914595 TTTGGGCCA
1 TTTGGGCCA
33914604 TTTGGGC
1 TTTGGGC
33914611 TTTACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.20, G:0.36, T:0.36
Consensus pattern (9 bp):
TTTGGGCCA
Found at i:33920644 original size:17 final size:18
Alignment explanation
Indices: 33920612--33920648 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
33920602 TGAAGAAGAA
*
33920612 GAATGGATTTGAGGGTTT
1 GAATGGATTGGAGGGTTT
33920630 GAATGGA-TGGAGGGTTT
1 GAATGGATTGGAGGGTTT
33920647 GA
1 GA
33920649 TTTGAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.32
Consensus pattern (18 bp):
GAATGGATTGGAGGGTTT
Found at i:33920756 original size:7 final size:7
Alignment explanation
Indices: 33920744--33920804 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
33920734 GGTATAACAT
33920744 AAATTTA
1 AAATTTA
33920751 AAATTTA
1 AAATTTA
33920758 AAATTTA
1 AAATTTA
*
33920765 AAATAATA
1 AAAT-TTA
*
33920773 TAGA-TTA
1 -AAATTTA
*
33920780 ATAATAT-
1 A-AATTTA
33920787 AAATTTA
1 AAATTTA
33920794 AAATTTA
1 AAATTTA
33920801 AAAT
1 AAAT
33920805 AATACAGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
6 5 0.12
7 33 0.77
8 3 0.07
9 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (7 bp):
AAATTTA
Found at i:33922397 original size:29 final size:31
Alignment explanation
Indices: 33922364--33922449 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
33922354 TTGATTTATT
*
33922364 GTGCAATTGTATACATG-AACTTTAATT-CG
1 GTGCAATTGTATACATGAAACTTTAATTGAG
* * *
33922393 GTGCAATTATACACATGAAACTCTAATTGAG
1 GTGCAATTGTATACATGAAACTTTAATTGAG
* * *
33922424 GTTCAAATGTATACTTGAAACTTTAA
1 GTGCAATTGTATACATGAAACTTTAA
33922450 ATTTTACTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
29 15 0.33
30 9 0.20
31 21 0.47
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (31 bp):
GTGCAATTGTATACATGAAACTTTAATTGAG
Found at i:33922648 original size:29 final size:30
Alignment explanation
Indices: 33922586--33922651 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
33922576 AATTTACAAG
* * *
33922586 AATTGGATCAAATCAAATTTTCATGTATAA
1 AATTGCATAAAATCAAATGTTCATGTATAA
*
33922616 AATTGCATAAAATC-AATGTTCATGTATAC
1 AATTGCATAAAATCAAATGTTCATGTATAA
33922645 AATTGCA
1 AATTGCA
33922652 CTTTAAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (30 bp):
AATTGCATAAAATCAAATGTTCATGTATAA
Found at i:33923904 original size:13 final size:13
Alignment explanation
Indices: 33923886--33923917 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33923876 TCGGACCTAA
33923886 GCTACAGGATATT
1 GCTACAGGATATT
33923899 GCTACAGGATATT
1 GCTACAGGATATT
*
33923912 ACTACA
1 GCTACA
33923918 TGAAGTTCAC
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:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (13 bp):
GCTACAGGATATT
Found at i:33932343 original size:20 final size:20
Alignment explanation
Indices: 33932318--33932355 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33932308 AGTTTAAACT
*
33932318 TTTTTAACTCAATTGAAATA
1 TTTTTAAATCAATTGAAATA
*
33932338 TTTTTAAATCGATTGAAA
1 TTTTTAAATCAATTGAAA
33932356 AACTGCTCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TTTTTAAATCAATTGAAATA
Found at i:33934914 original size:48 final size:48
Alignment explanation
Indices: 33934858--33934954 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
33934848 CTTGAGCAAG
33934858 TATAGTACAAAGATTGGTTTTGGGGTACATAACTAGCCATTTTCATAC
1 TATAGTACAAAGATTGGTTTTGGGGTACATAACTAGCCATTTTCATAC
33934906 TATAGTACAAAGATTGGTTTTGGGGTACATAACTAGCCATTTTCATAC
1 TATAGTACAAAGATTGGTTTTGGGGTACATAACTAGCCATTTTCATAC
33934954 T
1 T
33934955 TACACATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (48 bp):
TATAGTACAAAGATTGGTTTTGGGGTACATAACTAGCCATTTTCATAC
Found at i:33940100 original size:25 final size:25
Alignment explanation
Indices: 33940039--33940258 Score: 134
Period size: 25 Copynumber: 8.8 Consensus size: 25
33940029 GTGTGTCAAT
33940039 TATCGAGAAGCTCAT-ACGAGCCATAA
1 TATCGAGAAGCTCATGA-GAGCCA-AA
* **
33940065 -A-CAAGAAGCTCAAAAGAGCCAAA
1 TATCGAGAAGCTCATGAGAGCCAAA
* *
33940088 TATCGAGAAGCTC-CGAAGAGCC-AT
1 TATCGAGAAGCTCATG-AGAGCCAAA
* * *
33940112 TAATCGGGAAGCTTATGAGAGCCAAT
1 T-ATCGAGAAGCTCATGAGAGCCAAA
*
33940138 TATC-AGGAAGCTCGTGAGAGCCAAA
1 TATCGA-GAAGCTCATGAGAGCCAAA
* * *
33940163 TAAT-GGGAAGCTCATGACAGCCAAT
1 T-ATCGAGAAGCTCATGAGAGCCAAA
* *
33940188 TATCAAGAAGCTCGTGAGAGCCAAA
1 TATCGAGAAGCTCATGAGAGCCAAA
* * *
33940213 TAAT-GGGAAGCTCAAGAGAGCCATA
1 T-ATCGAGAAGCTCATGAGAGCCAAA
* *
33940238 TATC-AGGATGCTCATAAGAGC
1 TATCGA-GAAGCTCATGAGAGC
33940259 TGTGGTGAGT
Statistics
Matches: 149, Mismatches: 31, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
23 2 0.01
24 23 0.15
25 116 0.78
26 8 0.05
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (25 bp):
TATCGAGAAGCTCATGAGAGCCAAA
Found at i:33940148 original size:50 final size:50
Alignment explanation
Indices: 33940069--33940250 Score: 210
Period size: 50 Copynumber: 3.6 Consensus size: 50
33940059 CCATAAACAA
** * * *
33940069 GAAGCTCAAAAGAGCCAAATATC-GAGAAGCTCCG-AAGAGCC-ATTAATCGG
1 GAAGCTCATGAGAGCCAATTATCAG-GAAGCT-CGTGAGAGCCAAATAAT-GG
*
33940119 GAAGCTTATGAGAGCCAATTATCAGGAAGCTCGTGAGAGCCAAATAATGG
1 GAAGCTCATGAGAGCCAATTATCAGGAAGCTCGTGAGAGCCAAATAATGG
* *
33940169 GAAGCTCATGACAGCCAATTATCAAGAAGCTCGTGAGAGCCAAATAATGG
1 GAAGCTCATGAGAGCCAATTATCAGGAAGCTCGTGAGAGCCAAATAATGG
* *
33940219 GAAGCTCAAGAGAGCC-ATATATCAGGATGCTC
1 GAAGCTCATGAGAGCCAAT-TATCAGGAAGCTC
33940251 ATAAGAGCTG
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
49 4 0.03
50 105 0.91
51 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (50 bp):
GAAGCTCATGAGAGCCAATTATCAGGAAGCTCGTGAGAGCCAAATAATGG
Found at i:33942832 original size:21 final size:21
Alignment explanation
Indices: 33942808--33942860 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
33942798 GTCTGGCTTA
*
33942808 TATCGGTAGAACCCT-AAGTTG
1 TATCGGTAGAACCCTCAA-TTC
** *
33942829 TATCAATAGAACTCTCAATTC
1 TATCGGTAGAACCCTCAATTC
33942850 TATCGGTAGAA
1 TATCGGTAGAA
33942861 TTTTGTAGCC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (21 bp):
TATCGGTAGAACCCTCAATTC
Found at i:33943454 original size:15 final size:14
Alignment explanation
Indices: 33943396--33943456 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
33943386 ACATAATAAT
* * *
33943396 AAAATAATATAAAT
1 AAAATAAAAAAAAC
33943410 AAAATAAAAAAGAAGC
1 AAAATAAAAAA-AA-C
33943426 -AAATAAAAGAAAAC
1 AAAATAAAA-AAAAC
33943440 AAAATAAAAATAAAC
1 AAAATAAAAA-AAAC
33943455 AA
1 AA
33943457 TTGCAGTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.28
15 26 0.67
16 2 0.05
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (14 bp):
AAAATAAAAAAAAC
Found at i:33945416 original size:46 final size:46
Alignment explanation
Indices: 33945366--33945457 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
33945356 AAAAAAAATA
**
33945366 CTTTGATTGATTAAGTTTGATATATGGATGGTTTATATGTGTACAC
1 CTTTGATTGATTAAGTTTGATATATGGATGGCGTATATGTGTACAC
33945412 CTTTGATTGATTAAGTTTGATATATGGATGGCGTATATGTGTACAC
1 CTTTGATTGATTAAGTTTGATATATGGATGGCGTATATGTGTACAC
33945458 TTATATTCGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (46 bp):
CTTTGATTGATTAAGTTTGATATATGGATGGCGTATATGTGTACAC
Found at i:33945832 original size:25 final size:25
Alignment explanation
Indices: 33945804--33945859 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
33945794 ATAAATTGAA
*
33945804 ATATCGAATAGGTAATAATATACAT
1 ATATAGAATAGGTAATAATATACAT
33945829 ATATAGAATAGGTAATAATATACAT
1 ATATAGAATAGGTAATAATATACAT
33945854 ATATAG
1 ATATAG
33945860 TTATTTCGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.32
Consensus pattern (25 bp):
ATATAGAATAGGTAATAATATACAT
Found at i:33946158 original size:41 final size:41
Alignment explanation
Indices: 33946094--33946227 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
33946084 AGGTTTAAAA
* * * *
33946094 TCTAGCAGGCTTAAG-GCCAGTGAAGTTATTCGGACTTTATG
1 TCTAGCAGGCTT-TGTGCCGGTGAAATAATTCGGACTTTATG
33946135 TCTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATG
1 TCTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATG
* * ** *
33946176 TCTAGTAGGCTTTGTGCCGGTGAAATAATTCAGACGATAAG
1 TCTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATG
33946217 TCTAGCAGGCT
1 TCTAGCAGGCT
33946228 AATTGCTGGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 81 0.99
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
TCTAGCAGGCTTTGTGCCGGTGAAATAATTCGGACTTTATG
Found at i:33961085 original size:86 final size:87
Alignment explanation
Indices: 33960977--33961163 Score: 236
Period size: 86 Copynumber: 2.2 Consensus size: 87
33960967 AAAGGTCACT
* * * * *
33960977 TTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACGCAATTGAGT-AAAAAAAATAAG-GG
1 TTTGAAGGACTTTTTGATGCATTCTGAAAGTTCAAGTACGCAATTAAGTGAAAAAAAAGAAGCGG
33961040 CTTAATTGCTTTTTTTGAAGAAG
66 CTTAATTGCTTTTTTTGAA-AAG
* * * * *
33961063 TTTGAAGGACTTTTTGATGCATTCTGAAAGTTCAAGTGCTCAATTAAGTGCAAAAAAAGGAGCTG
1 TTTGAAGGACTTTTTGATGCATTCTGAAAGTTCAAGTACGCAATTAAGTGAAAAAAAAGAAGCGG
**
33961128 CTTAATTGCTTTTTTTTTAAAG
66 CTTAATTGCTTTTTTTGAAAAG
33961150 TTTGAAGGA-TTTTT
1 TTTGAAGGACTTTTT
33961164 AGACCCTTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 48 0.55
87 21 0.24
88 18 0.21
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (87 bp):
TTTGAAGGACTTTTTGATGCATTCTGAAAGTTCAAGTACGCAATTAAGTGAAAAAAAAGAAGCGG
CTTAATTGCTTTTTTTGAAAAG
Found at i:33961241 original size:31 final size:30
Alignment explanation
Indices: 33961201--33961265 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
33961191 TTTTTTATAA
33961201 TTTATTAAAATTTATAAGAAATTTTATACGTT
1 TTTATTAAAATTTATAAG-AATTTTATAC-TT
**
33961233 TTTA-TAAAATTTATAAGTTTTTTATACTT
1 TTTATTAAAATTTATAAGAATTTTATACTT
33961262 TTTA
1 TTTA
33961266 ATATTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 6 0.19
30 8 0.26
31 13 0.42
32 4 0.13
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (30 bp):
TTTATTAAAATTTATAAGAATTTTATACTT
Found at i:33961788 original size:15 final size:16
Alignment explanation
Indices: 33961768--33961797 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33961758 TAAATTTGTT
33961768 ATTATAT-CAATTGAA
1 ATTATATACAATTGAA
33961783 ATTATATACAATTGA
1 ATTATATACAATTGA
33961798 TGAAAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTATATACAATTGAA
Found at i:33975720 original size:44 final size:44
Alignment explanation
Indices: 33975670--33975890 Score: 116
Period size: 44 Copynumber: 5.1 Consensus size: 44
33975660 GCAATAGTGG
**
33975670 AACGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
1 AACGGATCGAAGACGATGAATCTCATCTTCCCCAGGAGTAGGGA
** * * ** * *
33975714 AACGGAT-TTAGACCATTAATC-CTATC-TCCTTAAGCAATAGTGG-
1 AACGGATCGAAGACGATGAATCTC-ATCTTCC-CCAGGAGTAG-GGA
* * *
33975757 AGCGGATCGAAGACGTTAAATCTCATCTTCCCCAGGAGTAGGGA
1 AACGGATCGAAGACGATGAATCTCATCTTCCCCAGGAGTAGGGA
** * * ** * *
33975801 AACGGATTTAAG-CCATTAATC-CTATC-TCTCTAAGCAATAGTGG-
1 AACGGATCGAAGACGATGAATCTC-ATCTTC-CCCAGGAGTAG-GGA
* **
33975844 AGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
1 AACGGATCGAAGACGATGAATCTCATCTTCCCCAGGAGTAGGGA
33975888 AAC
1 AAC
33975891 AGATTTAGAC
Statistics
Matches: 121, Mismatches: 42, Indels: 28
0.63 0.22 0.15
Matches are distributed among these distances:
42 7 0.06
43 52 0.43
44 55 0.45
45 7 0.06
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (44 bp):
AACGGATCGAAGACGATGAATCTCATCTTCCCCAGGAGTAGGGA
Found at i:33975756 original size:87 final size:87
Alignment explanation
Indices: 33975645--33976150 Score: 759
Period size: 87 Copynumber: 5.8 Consensus size: 87
33975635 AAGATGGCAG
* *
33975645 ATCCTATCTCCCTAAGCAATAGTGGAACGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTA
1 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTA
33975710 GGGAAACGGATTTAGACCATTA
66 GGGAAACGGATTTAGACCATTA
***
33975732 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGTTAAATCTCATCTTCCCCAGGAGTA
1 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTA
33975797 GGGAAACGGATTTA-AGCCATTA
66 GGGAAACGGATTTAGA-CCATTA
33975819 ATCCTATCT-CTCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGT
1 ATCCTATCTCCT-TAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGT
*
33975883 AGGGAAACAGATTTAGACCATTA
65 AGGGAAACGGATTTAGACCATTA
* *
33975906 ATCCTATCTCCTTAAGTAATAGTGGAGCGGATCCAAGACGGCGAATCTCATCTTCCCCTA-GAGT
1 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCC-AGGAGT
*
33975970 AGGGAAATGGATTTAGACCATTA
65 AGGGAAACGGATTTAGACCATTA
*
33975993 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGAAGTA
1 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTA
***
33976058 GGGAAACGGATTTA-AGCCACGG
66 GGGAAACGGATTTAGA-CCATTA
* * * * * * * *
33976080 GTTCTATCTCCCTAAGCAATAGTGGAGCAGATCCAAGATGGCGAATCTCATCTTCCCCGGGAATA
1 ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTA
33976145 GGGAAA
66 GGGAAA
33976151 TAAATTTAAG
Statistics
Matches: 383, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
86 5 0.01
87 374 0.98
88 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (87 bp):
ATCCTATCTCCTTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTA
GGGAAACGGATTTAGACCATTA
Found at i:33986796 original size:23 final size:23
Alignment explanation
Indices: 33986770--33986821 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
33986760 TGATTTTTAA
* *
33986770 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
33986793 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
33986816 ATTTAG
1 ATTTAG
33986822 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:33991018 original size:18 final size:18
Alignment explanation
Indices: 33990995--33991055 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
33990985 GTTTTAGATT
33990995 CCTCTTCATTCTCAACTC
1 CCTCTTCATTCTCAACTC
** ***
33991013 CCTCTTTGTTCTCTTTTC
1 CCTCTTCATTCTCAACTC
* *
33991031 ACTCTTCATTCTCAACTT
1 CCTCTTCATTCTCAACTC
33991049 CCTCTTC
1 CCTCTTC
33991056 GTTATCAACC
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.11, C:0.39, G:0.02, T:0.48
Consensus pattern (18 bp):
CCTCTTCATTCTCAACTC
Found at i:33994138 original size:17 final size:17
Alignment explanation
Indices: 33994118--33994161 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
33994108 AGTTGTTAGA
33994118 TATTATTATATTTAAAT
1 TATTATTATATTTAAAT
* *
33994135 TATTAATTATTTTTAATT
1 TATT-ATTATATTTAAAT
*
33994153 TAATATTAT
1 TATTATTAT
33994162 GATAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATTATATTTAAAT
Found at i:33999342 original size:14 final size:14
Alignment explanation
Indices: 33999332--33999364 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
33999322 GAATGATTCG
33999332 TGTCTAATGATTAA
1 TGTCTAATGATTAA
33999346 TGTCTAATGATTAA
1 TGTCTAATGATTAA
33999360 TGTCT
1 TGTCT
33999365 TTCAGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (14 bp):
TGTCTAATGATTAA
Found at i:34000483 original size:15 final size:15
Alignment explanation
Indices: 34000463--34000510 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
34000453 GGGGTGATTT
*
34000463 GGAGGAAGAGGAGGA
1 GGAGGAAGAGGAAGA
*
34000478 GGAGGAAGAAGAAGA
1 GGAGGAAGAGGAAGA
*
34000493 AGAGGAAGAGGAAGA
1 GGAGGAAGAGGAAGA
34000508 GGA
1 GGA
34000511 AGAGCAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (15 bp):
GGAGGAAGAGGAAGA
Found at i:34000491 original size:6 final size:6
Alignment explanation
Indices: 34000464--34000514 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
34000454 GGGTGATTTG
* * * *
34000464 GAGGAA GAGGAG GAGGAG GAAGAA GAAGAA GAGGAA GAGGAA GAGGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
34000512 GAG
1 GAG
34000515 CAGATTGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:34000492 original size:21 final size:21
Alignment explanation
Indices: 34000467--34000514 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34000457 TGATTTGGAG
*
34000467 GAAGAGGAGGAGGAGGAAGAA
1 GAAGAGGAGGAAGAGGAAGAA
* *
34000488 GAAGAAGAGGAAGAGGAAGAG
1 GAAGAGGAGGAAGAGGAAGAA
34000509 GAAGAG
1 GAAGAG
34000515 CAGATTGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (21 bp):
GAAGAGGAGGAAGAGGAAGAA
Found at i:34000771 original size:62 final size:63
Alignment explanation
Indices: 34000700--34000824 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
34000690 GTTAGTGGAT
34000700 TATTAACTATTTTATTGATGACTAA-TTTTTCCCTTTTGACTTCAGTACCCCCACTGGAGTTG
1 TATTAACTATTTTATTGATGACTAATTTTTTCCCTTTTGACTTCAGTACCCCCACTGGAGTTG
*
34000762 TATTAACTATTTTATTGATGACTAATTTTTTCCTTTTTGACTTCAGTACCCCCACTGGAGTTG
1 TATTAACTATTTTATTGATGACTAATTTTTTCCCTTTTGACTTCAGTACCCCCACTGGAGTTG
34000825 AGACACCTGA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 25 0.41
63 36 0.59
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (63 bp):
TATTAACTATTTTATTGATGACTAATTTTTTCCCTTTTGACTTCAGTACCCCCACTGGAGTTG
Found at i:34003303 original size:20 final size:20
Alignment explanation
Indices: 34003265--34003303 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34003255 TATTAAAAAA
*
34003265 GTTATTTTTATTTATCTTAG
1 GTTATTTTTAGTTATCTTAG
34003285 GTTATATTTTAGTTA-CTTA
1 GTTAT-TTTTAGTTATCTTA
34003304 TGTTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (20 bp):
GTTATTTTTAGTTATCTTAG
Found at i:34008606 original size:35 final size:35
Alignment explanation
Indices: 34008559--34008659 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 35
34008549 CTGTTTGGTA
* *
34008559 TGTTTCGGTTGGACTAGCTTTTATGAGCATTGGCG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
* *
34008594 TGTTTCGCTTGGACTAGCTCTTATGAGCATTAGTG
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
* *
34008629 TGTTACGGTTGGACTAGCTCTTGTGAGCATT
1 TGTTTCGGTTGGACTAGCTCTTATGAGCATT
34008660 TGATGTGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTATGAGCATTAGCG
Found at i:34009244 original size:30 final size:30
Alignment explanation
Indices: 34009203--34009261 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
34009193 TATGATGAAA
*
34009203 TAAAAAGGATTTTTAAGTTAAAGGACTTAG
1 TAAAAAGGATTTTCAAGTTAAAGGACTTAG
* *
34009233 TAAAAATGATTTTCAAGTTAAAGGGCTTA
1 TAAAAAGGATTTTCAAGTTAAAGGACTTA
34009262 CTTGTAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (30 bp):
TAAAAAGGATTTTCAAGTTAAAGGACTTAG
Found at i:34011610 original size:25 final size:25
Alignment explanation
Indices: 34011581--34011641 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
34011571 TCCTGTACAT
* *
34011581 GTATGCTCACACGAGCTGTAAATTG
1 GTATGCTCACACGAGCTATAAATCG
34011606 GTATGCTCACACGAGCTATAAATCG
1 GTATGCTCACACGAGCTATAAATCG
*
34011631 GTATGTTCACA
1 GTATGCTCACA
34011642 TAAGCTGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCG
Found at i:34019013 original size:27 final size:27
Alignment explanation
Indices: 34018983--34019160 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34018973 ATATTGAGTC
* * * *
34018983 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34019010 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34019037 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34019065 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34019092 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34019119 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34019146 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34019161 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34019122 original size:82 final size:81
Alignment explanation
Indices: 34019004--34019159 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34018994 TGCTATATAA
* *
34019004 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34019069 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34019086 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34019150 CACTTAGTGC
65 CACTTAGTGC
34019160 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34023258 original size:16 final size:16
Alignment explanation
Indices: 34023239--34023273 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34023229 ATTCAATAGA
*
34023239 TATCTACTTGAATAAT
1 TATCAACTTGAATAAT
34023255 TATCAACTTGAATAAT
1 TATCAACTTGAATAAT
34023271 TAT
1 TAT
34023274 GACCCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
TATCAACTTGAATAAT
Found at i:34033897 original size:191 final size:191
Alignment explanation
Indices: 34033567--34033948 Score: 728
Period size: 191 Copynumber: 2.0 Consensus size: 191
34033557 GCTAAATAAC
34033567 ACCCAGAACCGAAGCTTGTATCTGATCAGAATGTTGTAGGCATTCTCTAATACGATACTCGATCG
1 ACCCAGAACCGAAGCTTGTATCTGATCAGAATGTTGTAGGCATTCTCTAATACGATACTCGATCG
* *
34033632 ACCTATATTGTAGACATGCTCCCAACCTCCTCCAGCACTCGTCCGGATGGCGCCTACCATAGTCA
66 ACCTATATTGCAGACATGCTCCCAACCTCCTCCAGCACTCGCCCGGATGGCGCCTACCATAGTCA
* *
34033697 CTGCATAGTTGAGCCATACTAGAAGGCCTATCAGGTTTGGCCCATTTTTTAGGCCTCTAAA
131 CTACATAGTTGAGCCATACTAGAAGGCCCATCAGGTTTGGCCCATTTTTTAGGCCTCTAAA
34033758 ACCCAGAACCGAAGCTTGTATCTGATCAGAATGTTGTAGGCATTCTCTAATACGATACTCGATCG
1 ACCCAGAACCGAAGCTTGTATCTGATCAGAATGTTGTAGGCATTCTCTAATACGATACTCGATCG
34033823 ACCTATATTGCAGACATGCTCCCAACCTCCTCCAGCACTCGCCCGGATGGCGCCTACCATAGTCA
66 ACCTATATTGCAGACATGCTCCCAACCTCCTCCAGCACTCGCCCGGATGGCGCCTACCATAGTCA
34033888 CTACATAGTTGAGCCATACTAGAAGGCCCATCAGGTTTGGCCCATTTTTTAGGCCTCTAAA
131 CTACATAGTTGAGCCATACTAGAAGGCCCATCAGGTTTGGCCCATTTTTTAGGCCTCTAAA
34033949 TAGAAATAGA
Statistics
Matches: 187, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 187 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (191 bp):
ACCCAGAACCGAAGCTTGTATCTGATCAGAATGTTGTAGGCATTCTCTAATACGATACTCGATCG
ACCTATATTGCAGACATGCTCCCAACCTCCTCCAGCACTCGCCCGGATGGCGCCTACCATAGTCA
CTACATAGTTGAGCCATACTAGAAGGCCCATCAGGTTTGGCCCATTTTTTAGGCCTCTAAA
Found at i:34035973 original size:6 final size:6
Alignment explanation
Indices: 34035962--34036016 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
34035952 TTGTGGAGAC
34035962 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
34036010 AAAATA A
1 AAAATA A
34036017 TATCCCAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:34041788 original size:58 final size:59
Alignment explanation
Indices: 34041652--34041780 Score: 138
Period size: 61 Copynumber: 2.2 Consensus size: 59
34041642 AATATTATTG
* * * ***
34041652 TAATAAATTTAATATTAAATTTAATTTAATATTTATCATGTAGATAAATATTTTTTTAATT
1 TAAT-AATTAAATATTAAATTTAATCTAATACTTATCA-GTAGATAAATATTAAATTAATT
* *
34041713 TAATAGATTTAATATTAAATTTAATCTAATACTTATCA-T-GATAAGTATTAAATTAATT
1 TAATA-ATTAAATATTAAATTTAATCTAATACTTATCAGTAGATAAATATTAAATTAATT
34041771 TAAT-ATTAAA
1 TAATAATTAAA
34041781 GTGATTAAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
56 5 0.08
58 19 0.32
59 1 0.02
60 1 0.02
61 34 0.57
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (59 bp):
TAATAATTAAATATTAAATTTAATCTAATACTTATCAGTAGATAAATATTAAATTAATT
Found at i:34041790 original size:32 final size:34
Alignment explanation
Indices: 34041721--34041790 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 34
34041711 TTTAATAGAT
*
34041721 TTAA-TATTAAATTTAATCTAATACTTATCATGA
1 TTAAGTATTAAATTTAATCTAATACTTATAATGA
*
34041754 -TAAGTATTAAA-TTAATTTAATA-TTA-AAGTGA
1 TTAAGTATTAAATTTAATCTAATACTTATAA-TGA
34041785 TTAAGT
1 TTAAGT
34041791 TTGATCTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
30 1 0.03
31 6 0.19
32 18 0.56
33 7 0.22
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (34 bp):
TTAAGTATTAAATTTAATCTAATACTTATAATGA
Found at i:34043847 original size:28 final size:28
Alignment explanation
Indices: 34043807--34043862 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
34043797 GTTCGAGGGG
34043807 TGATGATTATGTTAACATATCTTTTGCT
1 TGATGATTATGTTAACATATCTTTTGCT
34043835 TGATGATTATGTTAACATATCTTTTGCT
1 TGATGATTATGTTAACATATCTTTTGCT
34043863 AACTTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (28 bp):
TGATGATTATGTTAACATATCTTTTGCT
Found at i:34044627 original size:14 final size:15
Alignment explanation
Indices: 34044610--34044646 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34044600 ATCGATGAAA
34044610 TCAAATTTC-AAATT
1 TCAAATTTCAAAATT
34044624 TCAAATTTCAAAATT
1 TCAAATTTCAAAATT
*
34044639 TGAAATTT
1 TCAAATTT
34044647 GATTATATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (15 bp):
TCAAATTTCAAAATT
Found at i:34044648 original size:7 final size:7
Alignment explanation
Indices: 34044610--34044646 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
34044600 ATCGATGAAA
34044610 TCAAATT
1 TCAAATT
34044617 TCAAATT
1 TCAAATT
34044624 TCAAATT
1 TCAAATT
34044631 TCAAAATT
1 TC-AAATT
*
34044639 TGAAATT
1 TCAAATT
34044646 T
1 T
34044647 GATTATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (7 bp):
TCAAATT
Found at i:34047865 original size:47 final size:47
Alignment explanation
Indices: 34047802--34048150 Score: 635
Period size: 47 Copynumber: 7.4 Consensus size: 47
34047792 CCCTTCGGGA
* * * *
34047802 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34047849 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34047896 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34047943 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34047990 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34048037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34048084 CTTATCACATACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34048133 CTTATCACATATACACAC
1 CTTATCACATATATACAC
34048151 CTTGTACAAT
Statistics
Matches: 295, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 248 0.84
49 47 0.16
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34065002 original size:195 final size:194
Alignment explanation
Indices: 34064668--34065403 Score: 1193
Period size: 195 Copynumber: 3.8 Consensus size: 194
34064658 AATCTGTTCC
* * * * * *
34064668 ACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAGG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
* *
34064733 GAAATAAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCT
66 GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTACCT
*
34064798 TCAGCTTTAATTTATTCCACTGCAATGCCAAGGAAACGAGATTCACTGCCTTCAGCTGTAATCT
131 TCAGCTTTAATTTATTCCACTGCAATGCCAAGGAAATGAGATTCACTGCCTTCAGCTGTAATCT
* *
34064862 ACTGCAATGCCAGGGAAATAAGATTTGCTGCCTTCAACATTAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
* * *
34064927 GAAATGAGATTAGCTGGCCTTCAGCTTTAATTTACTGCAACGCCAGGGAAATAAGATTTGCTACC
66 GAAATGAGATTCGCT-ACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTACC
* * *
34064992 TTTAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATGAGATTCACTGCTTTCAGCTGTAATCT
130 TTCAGCTTTAATTTATTCCACTGCAATGCCAAGGAAATGAGATTCACTGCCTTCAGCTGTAATCT
*
34065057 ACTGCAACGCCAGGGAAATAAGATTTGCTACCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
* *
34065122 GAAATGAGATTCGCTGGCCTTCAGCTTTAATCTACTGCAACGCCAGGAAAATAAGATTTGCTACC
66 GAAATGAGATTCGCT-ACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTACC
*
34065187 TTCAGCTTTAATATATTCCACTGCAATGCCAAGGAAATGAGATTCACTGCCTTCAGCTGTAATCT
130 TTCAGCTTTAATTTATTCCACTGCAATGCCAAGGAAATGAGATTCACTGCCTTCAGCTGTAATCT
* *
34065252 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTGAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
* * * *
34065317 GAAATGAGATTCGCTACCTTCAACTTTAATCTATTGCGACGCCAGGGAAATAAGATTTGCTGCCT
66 GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTACCT
**
34065382 TCAGCTTTAATTTGCTCCACTG
131 TCAGCTTTAATTTATTCCACTG
34065404 TAACTTTAGC
Statistics
Matches: 503, Mismatches: 38, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
194 133 0.26
195 370 0.74
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (194 bp):
ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTACCT
TCAGCTTTAATTTATTCCACTGCAATGCCAAGGAAATGAGATTCACTGCCTTCAGCTGTAATCT
Found at i:34065403 original size:97 final size:97
Alignment explanation
Indices: 34064668--34065392 Score: 1108
Period size: 97 Copynumber: 7.5 Consensus size: 97
34064658 AATCTGTTCC
* * * * *
34064668 ACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAGG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* *
34064733 GAAATAAGATTCGCTACCTTCAGCTTTAATCT
66 GAAATGAGATTCGCTGCCTTCAGCTTTAATCT
* *
34064765 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATTTATTCCACTGCAATGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * *
34064830 GAAACGAGATTCACTGCCTTCAGCTGTAATCT
66 GAAATGAGATTCGCTGCCTTCAGCTTTAATCT
* * *
34064862 ACTGCAATGCCAGGGAAATAAGATTTGCTGCCTTCAACATTAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* *
34064927 GAAATGAGATTAGCTGGCCTTCAGCTTTAATTT
66 GAAATGAGATTCGCT-GCCTTCAGCTTTAATCT
* * *
34064960 ACTGCAACGCCAGGGAAATAAGATTTGCTACCTTTAGCTTTAATCTATTCCACTGCAATGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * *
34065025 GAAATGAGATTCACTGCTTTCAGCTGTAATCT
66 GAAATGAGATTCGCTGCCTTCAGCTTTAATCT
* *
34065057 ACTGCAACGCCAGGGAAATAAGATTTGCTACCTTCAACTTTAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
34065122 GAAATGAGATTCGCTGGCCTTCAGCTTTAATCT
66 GAAATGAGATTCGCT-GCCTTCAGCTTTAATCT
* * * *
34065155 ACTGCAACGCCAGGAAAATAAGATTTGCTACCTTCAGCTTTAATATATTCCACTGCAATGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* *
34065220 GAAATGAGATTCACTGCCTTCAGCTGTAATCT
66 GAAATGAGATTCGCTGCCTTCAGCTTTAATCT
*
34065252 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTGAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* *
34065317 GAAATGAGATTCGCTACCTTCAACTTTAATCT
66 GAAATGAGATTCGCTGCCTTCAGCTTTAATCT
* *
34065349 ATTGCGACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAAT
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAAT
34065393 TTGCTCCACT
Statistics
Matches: 569, Mismatches: 57, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
97 392 0.69
98 177 0.31
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (97 bp):
ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
GAAATGAGATTCGCTGCCTTCAGCTTTAATCT
Found at i:34065403 original size:292 final size:292
Alignment explanation
Indices: 34064668--34065403 Score: 1125
Period size: 292 Copynumber: 2.5 Consensus size: 292
34064658 AATCTGTTCC
* * * * *
34064668 ACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCTAGG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
*
34064733 GAAATAAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCT
66 GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCT
*
34064798 TCAGCTTTAATTTATTCCACTGCAATGCCAAGGAAACGAGATTCACTGCCTTCAGCTGTAATCTA
131 TCAGCTTTAATTTATTCCACTGCAACGCCAAGGAAACGAGATTCACTGCCTTCAGCTGTAATCTA
* * * *
34064863 CTGCAATGCCAGGGAAATAAGATTTGCTGCCTTCAACATTAATCTATTCCACTGCAACGCCAAGG
196 CTGCAACGCCAGGAAAATAAGATTTGCTACCTTCAACATTAATATATTCCACTGCAACGCCAAGG
* *
34064928 AAATGAGATTAGCTGGCCTTCAGCTTTAATTT
261 AAATGAGATTAGCTGGCCTTCAGCTGTAATCT
* * *
34064960 ACTGCAACGCCAGGGAAATAAGATTTGCTACCTTTAGCTTTAATCTATTCCACTGCAATGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * * * *
34065025 GAAATGAGATTCACTGCTTTCAGCTGTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTACCT
66 GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCT
* * * * *
34065090 TCAACTTTAATCTATTCCACTGCAACGCCAAGGAAATGAGATTCGCTGGCCTTCAGCTTTAATCT
131 TCAGCTTTAATTTATTCCACTGCAACGCCAAGGAAACGAGATTCACT-GCCTTCAGCTGTAATCT
* * *
34065155 ACTGCAACGCCAGGAAAATAAGATTTGCTACCTTCAGCTTTAATATATTCCACTGCAATGCCAAG
195 ACTGCAACGCCAGGAAAATAAGATTTGCTACCTTCAACATTAATATATTCCACTGCAACGCCAAG
34065220 GAAATGAGATTCA-CT-GCCTTCAGCTGTAATCT
260 GAAATGAGATT-AGCTGGCCTTCAGCTGTAATCT
*
34065252 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTGAATCTATTCCACTGCAACGCCAAG
1 ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
* * *
34065317 GAAATGAGATTCGCTACCTTCAACTTTAATCTATTGCGACGCCAGGGAAATAAGATTTGCTGCCT
66 GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCT
**
34065382 TCAGCTTTAATTTGCTCCACTG
131 TCAGCTTTAATTTATTCCACTG
34065404 TAACTTTAGC
Statistics
Matches: 397, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
292 309 0.78
293 87 0.22
294 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (292 bp):
ACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTGCAACGCCAAG
GAAATGAGATTCGCTACCTTCAGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCT
TCAGCTTTAATTTATTCCACTGCAACGCCAAGGAAACGAGATTCACTGCCTTCAGCTGTAATCTA
CTGCAACGCCAGGAAAATAAGATTTGCTACCTTCAACATTAATATATTCCACTGCAACGCCAAGG
AAATGAGATTAGCTGGCCTTCAGCTGTAATCT
Found at i:34065725 original size:24 final size:24
Alignment explanation
Indices: 34065693--34065746 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
34065683 TTGCCCCCAT
34065693 TGTAATCTTCAAGGTTCAATCCAC
1 TGTAATCTTCAAGGTTCAATCCAC
*
34065717 TGTAATCTTCAAGGTTCAATCCAT
1 TGTAATCTTCAAGGTTCAATCCAC
34065741 TGTAAT
1 TGTAAT
34065747 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (24 bp):
TGTAATCTTCAAGGTTCAATCCAC
Found at i:34070844 original size:10 final size:9
Alignment explanation
Indices: 34070828--34070853 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34070818 AATGTAAATT
34070828 AATAAAAAA
1 AATAAAAAA
34070837 AATAAAAAA
1 AATAAAAAA
34070846 AATAAAAA
1 AATAAAAA
34070854 CGAGTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AATAAAAAA
Found at i:34075575 original size:46 final size:46
Alignment explanation
Indices: 34075503--34075590 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
34075493 ACACCATTGC
* * * *
34075503 AACGCTAGGGAAATAAGTTTTCCTGCCTTCAGCTTTAATCTAGTGT
1 AACGCTAGGGAAAAAAGTATACCTGCCTTCAGCGTTAATCTAGTGT
34075549 AACGCTAGGGAAAAAAG-ATACGCTGCCTTCAGCGTTAATCTA
1 AACGCTAGGGAAAAAAGTATAC-CTGCCTTCAGCGTTAATCTA
34075591 TTCCACTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.05
46 35 0.95
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (46 bp):
AACGCTAGGGAAAAAAGTATACCTGCCTTCAGCGTTAATCTAGTGT
Found at i:34075627 original size:51 final size:51
Alignment explanation
Indices: 34075564--34075834 Score: 301
Period size: 51 Copynumber: 5.5 Consensus size: 51
34075554 TAGGGAAAAA
* * * *
34075564 AGATACGCTGCCTTCAGCGTTAATCTATTCCACTACAATGCTAAGGAAGTG
1 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTACAATGCCAAGGAAATG
*
34075615 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATG
1 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTACAATGCCAAGGAAATG
* * *
34075666 AGATTCGCTGCCTTCAGCTTTAATCTACTGCA--AC-A--CCAAGGAAATA
1 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTACAATGCCAAGGAAATG
* * *
34075712 AGATTTGTTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATG
1 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTACAATGCCAAGGAAATG
* * * * * * *
34075763 AGATTCGCTCCCTTCAGCTGTAATC---T--ACTGCGACGCCAGGGAAATA
1 AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTACAATGCCAAGGAAATG
*
34075809 AGATTCGCTACCTTCAGCTTTAATCT
1 AGATTCGCTGCCTTCAGCTTTAATCT
34075835 GCTCCACTGC
Statistics
Matches: 189, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
46 77 0.41
48 3 0.02
49 2 0.01
51 107 0.57
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (51 bp):
AGATTCGCTGCCTTCAGCTTTAATCTATTCCACTACAATGCCAAGGAAATG
Found at i:34075708 original size:97 final size:97
Alignment explanation
Indices: 34075606--34075846 Score: 374
Period size: 97 Copynumber: 2.5 Consensus size: 97
34075596 CTACAATGCT
* *
34075606 AAGGAAGTGAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATGAGATT
1 AAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATGAGATT
* *
34075671 CGCTGCCTTCAGCTTTAATCTACTGCAACACC
66 CGCTCCCTTCAGCTGTAATCTACTGCAACACC
* *
34075703 AAGGAAATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATGAGATT
1 AAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATGAGATT
* *
34075768 CGCTCCCTTCAGCTGTAATCTACTGCGACGCC
66 CGCTCCCTTCAGCTGTAATCTACTGCAACACC
* * **
34075800 AGGGAAATAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTGCAA
1 AAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAA
34075847 CTTTAACGGT
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 130 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (97 bp):
AAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCCACTGCAATGCCAAGGAAATGAGATT
CGCTCCCTTCAGCTGTAATCTACTGCAACACC
Found at i:34075716 original size:46 final size:46
Alignment explanation
Indices: 34075500--34075834 Score: 276
Period size: 51 Copynumber: 7.0 Consensus size: 46
34075490 GTCACACCAT
* * * *
34075500 TGCAACGCTAGGGAAATAAGTTTTC-CTGCCTTCAGCTTTAATCTAG
1 TGCAACGCCAAGGAAATAAG-ATTCGCTGCCTTCAGCTTTAATCTAC
* * * * * *
34075546 TGTAACGCTAGGGAAAAAAGATACGCTGCCTTCAGCGTTAATCTATTCCAC
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--AC
* * * * *
34075597 TACAATGCTAAGGAAGTGAGATTCGCTGCCTTCAGCTTTAATCTATTCCAC
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--AC
* *
34075648 TGCAATGCCAAGGAAATGAGATTCGCTGCCTTCAGCTTTAATCTAC
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
* * *
34075694 TGCAACACCAAGGAAATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCAC
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--AC
* * * *
34075745 TGCAATGCCAAGGAAATGAGATTCGCTCCCTTCAGCTGTAATCTAC
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
* * *
34075791 TGCGACGCCAGGGAAATAAGATTCGCTACCTTCAGCTTTAATCT
1 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
34075835 GCTCCACTGC
Statistics
Matches: 242, Mismatches: 36, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 115 0.48
48 2 0.01
49 2 0.01
51 121 0.50
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (46 bp):
TGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
Found at i:34076159 original size:24 final size:24
Alignment explanation
Indices: 34076129--34076186 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
34076119 CGGATTGCCC
34076129 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
34076153 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
34076177 CCATTGTAAT
1 CCACTGTAAT
34076187 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:34087724 original size:966 final size:969
Alignment explanation
Indices: 34085845--34087784 Score: 3595
Period size: 966 Copynumber: 2.0 Consensus size: 969
34085835 TTTCCTAAGT
* * *
34085845 AGTGAAGCTAACTCCTGCCCCTGGTCTGATTCCAGCTCGTACTTTACACTCAGTATATCAGCTTG
1 AGTGAAGCTAACTCCTGCCCCTGGTCTGATTCAAGCTCGTACTTTACACTCAGCATATCAGATTG
* * * * * *
34085910 TACTGCCAAAGTCTATAAGTAATCGGCTACCTCTCGAATCTGAGCCACAGCTTCTCCCATAATGT
66 TACTACCAAAGTCTATAAGTAATCAGCTACATCTCGAATCTGAGCCACAACCTCCCCCATAATGT
* *
34085975 GATCTTTGTTTCTGACTTGGTTCTGACAACAAATGAGCTGTTCTTTTTGACGCTCTTAACGCTCT
131 GATCTCTGTTTCTAACTTGGTTCTGACAACAAATGAGCTGTTC--TTT----CTCTTAACGCTCT
34086040 TCACTGGCTTCAAGGAATTCAATCCGCATTTCACAGTTTTTTAATGCCACTTCTAATTCCTCCAC
190 TCACTGGCTTCAAGGAATTCAATCCGCATTTCACAGTTTTTTAATGCCACTTCTAATTCCTCCAC
34086105 TCTTCTTTTCATTTGCTCAATCTAGTCTAGGCTTGCTCTTAGCTCCATTGCAGAATTACGGTTTT
255 TCTTCTTTTCATTTGCTCAATCTAGTCTAGGCTTGCTCTTAGCTCCATTGCAGAATTACGGTTTT
34086170 GATACTGATGAAGAGTTTTCTCAAGTTCAGCTACTCTAGCTTTTAGCTCACCCTTTTCATTTCAG
320 GATACTGATGAAGAGTTTTCTCAAGTTCAGCTACTCTAGCTTTTAGCTCACCCTTTTCATTTCAG
34086235 CTTTCTAACAAACTCTTCTCTAGGGTCTCATTCCGCATCTGGGCCTCCTGGAATTTCCTTTCCTA
385 CTTTCTAACAAACTCTTCTCTAGGGTCTCATTCCGCATCTGGGCCTCCTGGAATTTCCTTTCCTA
34086300 TCTATCAACCTTATCTTTTCCTCTTGAATTTCTTGACACCACTGCTCTGAAGTTTTCCCCAACCT
450 TCTATCAACCTTATCTTTTCCTCTTGAATTTCTTGACACCACTGCTCTGAAGTTTTCCCCAACCT
34086365 GGTAGCTTTTATCGAACAACGCAACCTCTTATAGTCTGTTTTCAAACTATCCAAATCTCCCTCAG
515 GGTAGCTTTTATCGAACAACGCAACCTCTTATAGTCTGTTTTCAAACTATCCAAATCTCCCTCAG
34086430 CTTTATTCTTCCCTTTTCTTAATTTCTTAGTTTCTAGCTTCTGAACATCCATGTCTAGTCTCAAG
580 CTTTATTCTTCCCTTTTCTTAATTTCTTAGTTTCTAGCTTCTGAACATCCATGTCTAGTCTCAAG
34086495 TTCATCTTCTCTTCTTCCATTTGTTCTATCTTCTTTTCTAACTCTAAATTCCTTCTTTTAAAATC
645 TTCATCTTCTCTTCTTCCATTTGTTCTATCTTCTTTTCTAACTCTAAATTCCTTCTTTTAAAATC
34086560 CTGCCTTATAATTTCTAACTCGGAGGGGACAACTCGTAAATATTTTTATATCGGCTAATTGTCTC
710 CTGCCTTATAATTTCTAACTCGGAGGGGACAACTCGTAAATATTTTTATATCGGCTAATTGTCTC
34086625 ACTGACTTGGCCCGGGGATGTTATCATTAATCCTCCTACCCCACCACTCGATATATTCAGGGATC
775 ACTGACTTGGCCCGGGGATGTTATCATTAATCCTCCTACCCCACCACTCGATATATTCAGGGATC
34086690 ATTATCGGACCTACTGCCAATCTCTTCATCCGTCGAGTCTGATTCCTAACATTGGATATCTCTCG
840 ATTATCGGACCTACTGCCAATCTCTTCATCCGTCGAGTCTGATTCCTAACATTGGATATCTCTCG
34086755 AATCTTTTTCTTGTAACCATCGCCTTTATATGAAAATTTGCACTGAGCTAGCCCTTGGGTTGCGC
905 AATCTTTTTCTTGTAACCATCGCCTTTATATGAAAATTTGCACTGAGCTAGCCCTTGGGTTGCGC
* * * *
34086820 AGTGAAGCTAACT-CTTCCCCTCGGTCTGATTCAAGCTTGTACTTTACACTTAGCGTATCAGATT
1 AGTGAAGCTAACTCCTGCCCCT-GGTCTGATTCAAGCTCGTACTTTACACTCAGCATATCAGATT
* *
34086884 GTACTACCAAAGTCTGTAAGTAATCAGCTACATTTCGAATCTGAGCCACAACCTCCCCCATAATG
65 GTACTACCAAAGTCTATAAGTAATCAGCTACATCTCGAATCTGAGCCACAACCTCCCCCATAATG
*
34086949 TGATCTCTGTTTCTAACTTGGTTCTGACAA-AAGTGGAGCTGTTC-TT-TC-TAACGCTCTTCAC
130 TGATCTCTGTTTCTAACTTGGTTCTGACAACAAAT-GAGCTGTTCTTTCTCTTAACGCTCTTCAC
34087010 TGGCTTCAAGGAATTCAATCCGCATTTCACAGTTTTTTAATGCCACTTCTAATTCCTCCACTCTT
194 TGGCTTCAAGGAATTCAATCCGCATTTCACAGTTTTTTAATGCCACTTCTAATTCCTCCACTCTT
34087075 CTTTTCATTTGCTCAATCTAGTCTAGGCTTGCTCTTAGCTCCATTGCAGAATTACGGTTTTGATA
259 CTTTTCATTTGCTCAATCTAGTCTAGGCTTGCTCTTAGCTCCATTGCAGAATTACGGTTTTGATA
34087140 CTGATGAAGAGTTTTCTCAAGTTCAGCTACTCTAGCTTTTAGCTCACCCTTTTCATTTCAGCTTT
324 CTGATGAAGAGTTTTCTCAAGTTCAGCTACTCTAGCTTTTAGCTCACCCTTTTCATTTCAGCTTT
34087205 CTAACAAACTCTTCTCTAGGGTCTCATTCCGCATCTGGGCCTCCTGGAATTTCCTTTCCTATCTA
389 CTAACAAACTCTTCTCTAGGGTCTCATTCCGCATCTGGGCCTCCTGGAATTTCCTTTCCTATCTA
34087270 TCAACCTTATCTTTTCCTCTTGAATTTCTTGACACCACTGCTCTGAAGTTTTCCCCAACCTGGTA
454 TCAACCTTATCTTTTCCTCTTGAATTTCTTGACACCACTGCTCTGAAGTTTTCCCCAACCTGGTA
34087335 GCTTTTATCGAGA-AACGCAACCTCTTATAGTCTGTTTTCAAACTATCCAAATCTCCCTCAGCTT
519 GCTTTTATCGA-ACAACGCAACCTCTTATAGTCTGTTTTCAAACTATCCAAATCTCCCTCAGCTT
34087399 TATTCTTCCCTTTTCTTAATTTCTTAGTTTCTAGCTTCTGAACATCCATGTCTAGTCTCAAGTTC
583 TATTCTTCCCTTTTCTTAATTTCTTAGTTTCTAGCTTCTGAACATCCATGTCTAGTCTCAAGTTC
34087464 ATCTTCTCTTCTTCCATTTGTTCTATCTTCTTTTCTAACTCTAAATTCCTTCTTTTAAAATCCTG
648 ATCTTCTCTTCTTCCATTTGTTCTATCTTCTTTTCTAACTCTAAATTCCTTCTTTTAAAATCCTG
34087529 CCTTATAATTTCTAACTCGGAGGGGACAACTCGTAAATATTTTTATATCGGCTAATTGTCTCACT
713 CCTTATAATTTCTAACTCGGAGGGGACAACTCGTAAATATTTTTATATCGGCTAATTGTCTCACT
34087594 GACTTGGCCCGGGGATGTTATCATTAATCCTCCTACCCCACCACTCGATATATTCAGGGATCATT
778 GACTTGGCCCGGGGATGTTATCATTAATCCTCCTACCCCACCACTCGATATATTCAGGGATCATT
34087659 ATCGGACCTACTGCCAATCTCTTCATCCGTCGAGTCTGATTCCTAACATTGGATATCTCTCGAAT
843 ATCGGACCTACTGCCAATCTCTTCATCCGTCGAGTCTGATTCCTAACATTGGATATCTCTCGAAT
34087724 CTTTTTCTTGTAACCATCGCCTTTATATGAAAATTTGCACTGAGCTAGCCCTTGGGTTGCG
908 CTTTTTCTTGTAACCATCGCCTTTATATGAAAATTTGCACTGAGCTAGCCCTTGGGTTGCG
34087785 GGTACGAACT
Statistics
Matches: 944, Mismatches: 18, Indels: 15
0.97 0.02 0.02
Matches are distributed among these distances:
966 786 0.83
967 3 0.00
972 2 0.00
974 10 0.01
975 143 0.15
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (969 bp):
AGTGAAGCTAACTCCTGCCCCTGGTCTGATTCAAGCTCGTACTTTACACTCAGCATATCAGATTG
TACTACCAAAGTCTATAAGTAATCAGCTACATCTCGAATCTGAGCCACAACCTCCCCCATAATGT
GATCTCTGTTTCTAACTTGGTTCTGACAACAAATGAGCTGTTCTTTCTCTTAACGCTCTTCACTG
GCTTCAAGGAATTCAATCCGCATTTCACAGTTTTTTAATGCCACTTCTAATTCCTCCACTCTTCT
TTTCATTTGCTCAATCTAGTCTAGGCTTGCTCTTAGCTCCATTGCAGAATTACGGTTTTGATACT
GATGAAGAGTTTTCTCAAGTTCAGCTACTCTAGCTTTTAGCTCACCCTTTTCATTTCAGCTTTCT
AACAAACTCTTCTCTAGGGTCTCATTCCGCATCTGGGCCTCCTGGAATTTCCTTTCCTATCTATC
AACCTTATCTTTTCCTCTTGAATTTCTTGACACCACTGCTCTGAAGTTTTCCCCAACCTGGTAGC
TTTTATCGAACAACGCAACCTCTTATAGTCTGTTTTCAAACTATCCAAATCTCCCTCAGCTTTAT
TCTTCCCTTTTCTTAATTTCTTAGTTTCTAGCTTCTGAACATCCATGTCTAGTCTCAAGTTCATC
TTCTCTTCTTCCATTTGTTCTATCTTCTTTTCTAACTCTAAATTCCTTCTTTTAAAATCCTGCCT
TATAATTTCTAACTCGGAGGGGACAACTCGTAAATATTTTTATATCGGCTAATTGTCTCACTGAC
TTGGCCCGGGGATGTTATCATTAATCCTCCTACCCCACCACTCGATATATTCAGGGATCATTATC
GGACCTACTGCCAATCTCTTCATCCGTCGAGTCTGATTCCTAACATTGGATATCTCTCGAATCTT
TTTCTTGTAACCATCGCCTTTATATGAAAATTTGCACTGAGCTAGCCCTTGGGTTGCGC
Found at i:34090748 original size:3 final size:3
Alignment explanation
Indices: 34090735--34090836 Score: 123
Period size: 3 Copynumber: 34.0 Consensus size: 3
34090725 AAATTGATAT
* * * ** * *
34090735 ATA AAA ATA ATA ATA ATG CTA ATA ATA ATA ATA GCA ATG ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
34090783 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
34090831 ACA ATA
1 ATA ATA
34090837 TAAAATGTGA
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:34091783 original size:14 final size:14
Alignment explanation
Indices: 34091761--34091802 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
34091751 TTTCGTTTCT
**
34091761 TAAAAAAATGTAAA
1 TAAAAAAATAAAAA
*
34091775 TAAATAAATAAAAA
1 TAAAAAAATAAAAA
34091789 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
34091803 CGAGACTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:34100075 original size:85 final size:85
Alignment explanation
Indices: 34099946--34100124 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
34099936 TATTTTATTG
34099946 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
34100011 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
34100031 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
34100096 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
34100116 CCCATGCTC
1 CCCATGCTC
34100125 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:34118924 original size:25 final size:25
Alignment explanation
Indices: 34118898--34118951 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
34118888 TTTCTCCTAA
*
34118898 TTTCAATTTTATTTAATTATTTAAAT
1 TTTCAA-TTTATTGAATTATTTAAAT
34118924 TTTCAATTTATTGAATTA-TTAATAT
1 TTTCAATTTATTGAATTATTTAA-AT
34118949 TTT
1 TTT
34118952 ATACTAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 16 0.62
26 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTCAATTTATTGAATTATTTAAAT
Found at i:34119858 original size:24 final size:25
Alignment explanation
Indices: 34119829--34119894 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 25
34119819 TCAACAAGTT
* *
34119829 GAAGAAAG-TGAGGATCCCGAAGAA
1 GAAGAAAGAAGAGGATCCCGAAAAA
*
34119853 GAAG-AAGAAGATGATCCCGAAAAA
1 GAAGAAAGAAGAGGATCCCGAAAAA
*
34119877 GAAG-AAGAAGAAGATCCC
1 GAAGAAAGAAGAGGATCCC
34119895 ATAGATATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 3 0.08
24 34 0.92
ACGTcount: A:0.50, C:0.14, G:0.29, T:0.08
Consensus pattern (25 bp):
GAAGAAAGAAGAGGATCCCGAAAAA
Found at i:34126048 original size:12 final size:13
Alignment explanation
Indices: 34126031--34126059 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34126021 CTCTTACAAG
34126031 AATAAATAAA-GC
1 AATAAATAAATGC
34126043 AATAAATAAATGC
1 AATAAATAAATGC
34126056 AATA
1 AATA
34126060 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:34132795 original size:15 final size:16
Alignment explanation
Indices: 34132775--34132804 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34132765 TACACTTGCA
34132775 CATTTTTTTT-ATTTG
1 CATTTTTTTTCATTTG
34132790 CATTTTTTTTCATTT
1 CATTTTTTTTCATTT
34132805 CAACGACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.73
Consensus pattern (16 bp):
CATTTTTTTTCATTTG
Found at i:34135884 original size:36 final size:36
Alignment explanation
Indices: 34135843--34135930 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
34135833 GCCCCTGCTC
*
34135843 TTATTATATATTAGAAAAAAT-TATAAAAATAAAAAA
1 TTATTAAATATTAGAAAAAATATA-AAAAATAAAAAA
* *
34135879 TTATTAAATTTTA-ATAAAAATATAAAAAATTAAAAA
1 TTATTAAATATTAGA-AAAAATATAAAAAATAAAAAA
*
34135915 TTATTAAAAATTAGAA
1 TTATTAAATATTAGAA
34135931 TTTTTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 1 0.02
36 40 0.91
37 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (36 bp):
TTATTAAATATTAGAAAAAATATAAAAAATAAAAAA
Found at i:34135921 original size:29 final size:28
Alignment explanation
Indices: 34135867--34135921 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
34135857 AAAAAATTAT
*
34135867 AAAAATAAAAAATTATTAAATTTTAATA
1 AAAAATAAAAAATTATAAAATTTTAATA
34135895 AAAATATAAAAAATTA-AAAATTATTAA
1 AAAA-ATAAAAAATTATAAAATT-TTAA
34135922 AAATTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATAAAAAATTATAAAATTTTAATA
Found at i:34135922 original size:26 final size:25
Alignment explanation
Indices: 34135858--34135925 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
34135848 ATATATTAGA
34135858 AAAAATTATAAAAATAAAAAATTATT
1 AAAAATTATAAAAATAAAAAA-TATT
**
34135884 AAATTTTAATAAAAATATAAAAA-ATT
1 AAAAATT-ATAAAAATA-AAAAATATT
34135910 AAAAATTATTAAAAAT
1 AAAAATTA-TAAAAAT
34135926 TAGAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 1 0.03
26 20 0.57
27 9 0.26
28 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAATTATAAAAATAAAAAATATT
Found at i:34135924 original size:46 final size:45
Alignment explanation
Indices: 34135857--34135951 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
34135847 TATATATTAG
*
34135857 AAAAAATTATAAAAATAAAAAATTATTAAATTTTAATAAAAAT-AT
1 AAAAAATTATAAAAATAAAAAATTA-GAAATTTTAATAAAAATCAT
* * *
34135902 AAAAAATTA-AAAATTATTAAAAATTAGAATTTTTTATAAAAATCAT
1 AAAAAATTATAAAA--ATAAAAAATTAGAAATTTTAATAAAAATCAT
34135948 AAAA
1 AAAA
34135952 TTTTGTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
44 4 0.09
45 23 0.53
46 16 0.37
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (45 bp):
AAAAAATTATAAAAATAAAAAATTAGAAATTTTAATAAAAATCAT
Found at i:34136345 original size:14 final size:16
Alignment explanation
Indices: 34136326--34136364 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
34136316 TTTATAACCA
34136326 AAATAATAAT-TAT-T
1 AAATAATAATATATAT
34136340 AAATAATAATATATGAT
1 AAATAATAATATAT-AT
34136357 AAATAATA
1 AAATAATA
34136365 TAATTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
17 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATAATAATATATAT
Found at i:34136349 original size:17 final size:17
Alignment explanation
Indices: 34136327--34136372 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
34136317 TTATAACCAA
34136327 AATAATAATTATTAAAT
1 AATAATAATTATTAAAT
*
34136344 AATAATATATGA-TAAAT
1 AATAATA-ATTATTAAAT
34136361 AAT-ATAATTATT
1 AATAATAATTATT
34136373 TATTTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 4 0.16
17 15 0.60
18 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATAATAATTATTAAAT
Found at i:34137621 original size:14 final size:15
Alignment explanation
Indices: 34137595--34137623 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34137585 ATATCGTGGC
34137595 TTCATATTGATTGAA
1 TTCATATTGATTGAA
34137610 TTCATA-TGATTGAA
1 TTCATATTGATTGAA
34137624 CGGATTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (15 bp):
TTCATATTGATTGAA
Found at i:34143538 original size:17 final size:18
Alignment explanation
Indices: 34143516--34143555 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
34143506 ATGATATTAG
34143516 AATGGAAAAG-GACGTGA
1 AATGGAAAAGAGACGTGA
* *
34143533 AATGGAAATGAGATGTGA
1 AATGGAAAAGAGACGTGA
34143551 AATGG
1 AATGG
34143556 TAAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.45, C:0.03, G:0.35, T:0.17
Consensus pattern (18 bp):
AATGGAAAAGAGACGTGA
Found at i:34143552 original size:18 final size:17
Alignment explanation
Indices: 34143516--34143560 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
34143506 ATGATATTAG
*
34143516 AATGGAAAAGGACGTGA
1 AATGGAAATGGACGTGA
*
34143533 AATGGAAATGAGATGTGA
1 AATGGAAATG-GACGTGA
34143551 AATGGTAAAT
1 AATGG-AAAT
34143561 TTTTTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.31, T:0.20
Consensus pattern (17 bp):
AATGGAAATGGACGTGA
Found at i:34148195 original size:15 final size:15
Alignment explanation
Indices: 34148161--34148203 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
34148151 TTAAATCTAG
*
34148161 CACTTAATTTTTCAG
1 CACTTAATTTTTCAA
* *
34148176 TACTTATTTTTTCAA
1 CACTTAATTTTTCAA
34148191 CACTTAACTTTTT
1 CACTTAA-TTTTT
34148204 TAGTTTGTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (15 bp):
CACTTAATTTTTCAA
Found at i:34149128 original size:11 final size:12
Alignment explanation
Indices: 34149106--34149138 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34149096 ATTTGAATCA
*
34149106 TATTTTATTTTT
1 TATTTCATTTTT
34149118 TATTTCATTTTT
1 TATTTCATTTTT
34149130 TATTTCATT
1 TATTTCATT
34149139 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTCATTTTT
Found at i:34161107 original size:18 final size:19
Alignment explanation
Indices: 34161073--34161108 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34161063 TAAAAAGAAA
34161073 GAAAGGGAAAAAGAATAAG
1 GAAAGGGAAAAAGAATAAG
34161092 GAAAGGGAAAAA-AATAA
1 GAAAGGGAAAAAGAATAA
34161109 ATAAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.06
Consensus pattern (19 bp):
GAAAGGGAAAAAGAATAAG
Found at i:34161116 original size:10 final size:10
Alignment explanation
Indices: 34161101--34161131 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
34161091 GGAAAGGGAA
34161101 AAAAATAAAT
1 AAAAATAAAT
34161111 AAAAATGAAAT
1 AAAAAT-AAAT
34161122 AAAAATAAAT
1 AAAAATAAAT
34161132 GGATCTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:34161612 original size:13 final size:13
Alignment explanation
Indices: 34161594--34161618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34161584 GACTAAAATT
34161594 TAAAAAATTAAAA
1 TAAAAAATTAAAA
34161607 TAAAAAATTAAA
1 TAAAAAATTAAA
34161619 TTATTGTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:34174092 original size:25 final size:25
Alignment explanation
Indices: 34174053--34174102 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
34174043 TGCTTCGATA
34174053 TTGTCCCATGCATGGCGTTCAACAG
1 TTGTCCCATGCATGGCGTTCAACAG
* * *
34174078 TTGTCCTATGTATGGCGTTTAACAG
1 TTGTCCCATGCATGGCGTTCAACAG
34174103 GAAACACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (25 bp):
TTGTCCCATGCATGGCGTTCAACAG
Found at i:34184279 original size:17 final size:19
Alignment explanation
Indices: 34184259--34184303 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
34184249 ATATAATTTG
*
34184259 AAAATAT-AT-AATACATC
1 AAAATATAATAAAAACATC
34184276 AAAA-ATAATAAAAACATC
1 AAAATATAATAAAAACATC
34184294 AAAATA-AATA
1 AAAATATAATA
34184304 TTTCCCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 6 0.25
18 15 0.62
19 1 0.04
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATAATAAAAACATC
Found at i:34186376 original size:29 final size:27
Alignment explanation
Indices: 34186358--34186427 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
34186348 ATATTAAGTC
34186358 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
34186385 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
34186413 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
34186428 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:34186421 original size:28 final size:28
Alignment explanation
Indices: 34186358--34186455 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
34186348 ATATTAAGTC
*
34186358 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34186385 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34186413 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34186442 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34186456 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34191758 original size:41 final size:42
Alignment explanation
Indices: 34191710--34191793 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
34191700 TTATCCTACA
* * * * *
34191710 AAAAAGAATTT-GAAGAGGAGAATATAATCTTGGGTTGTTGG
1 AAAAAGAATTTAAAAAAGGAGAAGAAAAACTTGGGTTGTTGG
34191751 AAAAAGAATTTAAAAAAGGAGAAGAAAAACTTGGGTTGTTGG
1 AAAAAGAATTTAAAAAAGGAGAAGAAAAACTTGGGTTGTTGG
34191793 A
1 A
34191794 TTTACCCTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 11 0.30
42 26 0.70
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.25
Consensus pattern (42 bp):
AAAAAGAATTTAAAAAAGGAGAAGAAAAACTTGGGTTGTTGG
Found at i:34199185 original size:40 final size:40
Alignment explanation
Indices: 34199148--34199373 Score: 321
Period size: 40 Copynumber: 5.7 Consensus size: 40
34199138 GCTACTCGTT
* *
34199148 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
34199188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
34199228 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34199268 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
34199308 CAAATGCCTTCGGGTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
34199349 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34199374 CATCATTCAA
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 161 0.94
41 10 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34214193 original size:24 final size:24
Alignment explanation
Indices: 34214130--34214181 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34214120 TTTCTAGAAG
* * *
34214130 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34214154 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
34214178 ATTT
1 ATTT
34214182 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:34215977 original size:11 final size:11
Alignment explanation
Indices: 34215961--34215988 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
34215951 TGTGGATCTT
34215961 TTTTTTTTCAA
1 TTTTTTTTCAA
34215972 TTTTTTTTCAA
1 TTTTTTTTCAA
34215983 TTTTTT
1 TTTTTT
34215989 AAAATAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:34236755 original size:49 final size:49
Alignment explanation
Indices: 34236578--34236930 Score: 619
Period size: 49 Copynumber: 7.3 Consensus size: 49
34236568 NNNNNNNNNN
*
34236578 GGCCTTATCAC--ATATATACAGTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
34236625 GGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
* *
34236672 GGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTC
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
34236719 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
*
34236768 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
*
34236817 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
34236866 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
34236915 GGCCTTATCACATATA
1 GGCCTTATCACATATA
34236931 CTATCATGTA
Statistics
Matches: 297, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 102 0.34
49 195 0.66
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:34240006 original size:95 final size:95
Alignment explanation
Indices: 34239843--34240028 Score: 372
Period size: 95 Copynumber: 2.0 Consensus size: 95
34239833 AACCTAACAT
34239843 GAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGGATTCC
1 GAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGGATTCC
34239908 GAAAGGACCTAATTTGGTTTCCGAACACAC
66 GAAAGGACCTAATTTGGTTTCCGAACACAC
34239938 GAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGGATTCC
1 GAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGGATTCC
34240003 GAAAGGACCTAATTTGGTTTCCGAAC
66 GAAAGGACCTAATTTGGTTTCCGAAC
34240029 TCATGAAAGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (95 bp):
GAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGGATTCC
GAAAGGACCTAATTTGGTTTCCGAACACAC
Found at i:34242343 original size:807 final size:807
Alignment explanation
Indices: 34239933--34244814 Score: 8903
Period size: 807 Copynumber: 6.1 Consensus size: 807
34239923 GGTTTCCGAA
34239933 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
* *
34239998 ATTCCGAAAGGACCTAATTTGGTTTCCGAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTT
66 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
*
34240063 TGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
131 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
34240128 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
196 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
* *
34240193 TTAGGATAATTTACATTACGGATCATTGAATCTAGTTTGCATATTTGGTCTGCCACCTTGGAGAA
261 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
* * * *
34240258 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTTATCAGTTAGAGTCTTGG-GGATAG
326 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
34240322 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
391 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
34240387 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
456 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
*
34240452 TATTTATTTGATTCATGCTTATAATGTTTGCGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
521 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
*
34240517 TATGTATTTTGTTCATACGTGATTCAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
586 TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
* *
34240582 GGCTAATGGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTAAATTGTAGG
651 GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
* * * * *
34240647 TTGCATAACAACCCTAATCAGGCTCTGTTATCTGTATAGTTTTTTGATTTGTGTGATTACATTGT
716 TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
* *
34240712 TTCAAACCTAACACGTCCCTATTACCT
781 TTCAAACCTAACACGTCCCTGTTACGT
* *
34240739 AACATGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
*
34240804 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCTAGTTGCCATGAAATATTTTTC
66 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
* *
34240869 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATATAATTGTCTGAGTTTATTTA
131 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
34240934 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
196 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
*
34240999 TTAGGATAATTTACATTAGGGATCATTAAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
261 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
* * * *
34241064 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAAGGAGCCTCATCAGTTAGAGTCTTGG-GGATAG
326 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
34241128 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
391 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
34241193 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
456 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
*
34241258 TATTTATTTGATTCATGCTTATAATGTTTGCGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
521 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
*
34241323 TATGTATTTTGTTCATACGTGATTCAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
586 TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
* *
34241388 GGCTAATGGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTAAATTGTAGG
651 GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
* * * * *
34241453 TTGCATAACAACCCTAATCAGGCTCTGTTATCTGTATAGTTTTTTGATTTGTGTGATTACATTGT
716 TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
*
34241518 TTCAAACCTAACACGTCCCTGTTACCT
781 TTCAAACCTAACACGTCCCTGTTACGT
* *
34241545 AACATGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
34241610 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
66 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
34241675 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
131 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
34241740 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
196 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
*
34241805 TTAGGATAATTTACATTAGGGATCATTAAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
261 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
*
34241870 CTATCAGCAAAAGGAGCAATGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
326 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
34241935 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
391 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
* *
34242000 TTTGTTCTTGTTTACAACAATGATAACTTAAATTTATTTAAGCTAGGATTATTTTCATTAAACAA
456 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
* *
34242065 TATTTATTTGATTCATGCTTATAATGTTTGCGCCTCAATCGATCATGTTTTCAACTAAAACCAAG
521 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
34242130 TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
586 TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
* *
34242195 GGCTAATAGATGCATAATTGAAATGCGCATGCTTAATTTAGATCCTAACTAGATTAAATTGTAGG
651 GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
*
34242260 TTACATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
716 TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
34242325 TTCAAACCTAACACGTCCCTGTTACGT
781 TTCAAACCTAACACGTCCCTGTTACGT
34242352 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
34242417 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATA-TTTTC
66 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
* *
34242481 CGAATATTATTGAGGATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
131 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
*
34242546 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTCCATTCATATTAGTCTGCAT
196 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATA-TAGTCTGCAT
*
34242611 ATTACGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGA
260 ATTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGA
*
34242676 ACTATCAGCAAAAGGAGCAATGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACA
325 ACTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACA
34242741 GCCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTT
390 GCCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTT
34242806 CTTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACA
455 CTTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACA
*
34242871 ATATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAACCAA
520 ATATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAA
*
34242936 GTATGTATTTTGTTCATACGTGATTGAAATGCACCTGAACTAGCTGAGTGATCCTAACCAGACTA
585 GTATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTA
34243001 CGGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAG
650 CGGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAG
*
34243066 GTTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGACTTGTGTGATTAAATTG
715 GTTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTG
34243131 CTTCAAACCTAACACGTCCCTGTTACGT
780 CTTCAAACCTAACACGTCCCTGTTACGT
34243159 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
34243224 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTT-
66 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
34243288 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
131 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
34243353 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTA-TTC---C----A-T-T-CATA
196 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
*
34243407 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATAATTGGTCCGCCACCTTGGAGAA
261 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
*
34243472 CTATCAGCAAAAGGAGCAAGGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
326 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
*
34243537 TCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
391 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
34243602 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
456 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
34243667 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
521 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
* *
34243732 TATGTATTTTGTTCATACGGGATTGAAATGCACCAGAATTAGCTGAGTGATCCTAACCAGACTAC
586 TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
* * *
34243797 AGCTAATGGATGCATAGTTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
651 GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
*
34243862 TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGACTTGTGTGATTAAATTGC
716 TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
34243927 TTCAAACCTAACACGTCCCTGTTACGT
781 TTCAAACCTAACACGTCCCTGTTACGT
34243954 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
*
34244019 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATAAAATATTTTTC
66 ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
*
34244084 CGAATATTAGTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
131 CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
*
34244149 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTACTTCATTCATATAGTCTGCATA
196 TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
34244214 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
261 TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
* *
34244279 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAGTTAGAGTCTTGGGTGACAG
326 CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
34244344 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
391 CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
* * *
34244409 TTTGTTTTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGTTTATTTTTATTAAACAA
456 TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
34244474 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
521 TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
* * *
34244539 TATGTATTTTGTTTATACGTGATTAAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTTC
586 TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
*
34244604 GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTATATCCTAACCAGATTAAATTGTAGG
651 GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
* * *
34244669 TTACATAACAACCCTAACCAGCCTCTGTTATCTGCATAGGTTTTAGATTTGTGTGATTAAATTGC
716 TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
34244734 TTCAAACCTAACACGTCCCTGTTACGT
781 TTCAAACCTAACACGTCCCTGTTACGT
34244761 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTA
1 CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTA
34244815 GGGTTTTTTA
Statistics
Matches: 3972, Mismatches: 89, Indels: 29
0.97 0.02 0.01
Matches are distributed among these distances:
795 668 0.17
796 108 0.03
797 4 0.00
798 1 0.00
800 1 0.00
803 1 0.00
804 1 0.00
805 1 0.00
806 1293 0.33
807 1890 0.48
808 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (807 bp):
CACACGAATGCTAAGAAACCCTTAGTAAATAAGGATCAGTAAAATGCGTATTTACTAAGTAAAGG
ATTCCGAAAGGACCTAATTTGGTTTCCAAACTCATGAAAGATCGAGTTGCCATGAAATATTTTTC
CGAATATTATTAAGCATGATGATAATAAATTAAGTTTAATTAATGTAATTGTCTTAGTTTATTTA
TGTTATAATTGTTGCAAATTGTGTTAAATTTTGCTAAAATCTATTTCATTCATATAGTCTGCATA
TTAGGATAATTTACATTAGGGATCATTGAATCTAGTTTGCATATTTGGTCCGCCACCTTGGAGAA
CTATCAGCAAAAGGAGCAACGCAAAGAAGCGAATGAGCCTCATCAATTAGAGTCTTGGCTGACAG
CCACTCTGAATTGGGTTTAATCTTTCTTTTCTTTAATTTAATTTAAAGATGTTTGCTATGTGTTC
TTTGTTCTTGTTTACAACAATGATAGCTTAAATTTATTTAAGCTAGGATTATTTTGATTAAACAA
TATTTATTTGATTCATGCTTATAATGTTTGAGCCTCAATCGATCATGTTTTCAACTAAAATCAAG
TATGTATTTTGTTCATACGTGATTGAAATGCACCTGAATTAGCTGAGTGATCCTAACCAGACTAC
GGCTAATAGATGCATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCAGATTAAATTGTAGG
TTGCATAACAACCCTAACCAGGCTCTGTTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGC
TTCAAACCTAACACGTCCCTGTTACGT
Found at i:34244960 original size:20 final size:21
Alignment explanation
Indices: 34244924--34244962 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34244914 TAGGCGCCAA
34244924 TGAATAAAATAATAATTTTTT
1 TGAATAAAATAATAATTTTTT
34244945 TGAATAAAAT-ATAATTTT
1 TGAATAAAATAATAATTTT
34244963 ATACTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
TGAATAAAATAATAATTTTTT
Found at i:34245051 original size:27 final size:27
Alignment explanation
Indices: 34245012--34245085 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
34245002 GTATTGGCGT
*
34245012 CTATCTGGAAGGCGCCAATGGTGGTGC
1 CTATCTGGGAGGCGCCAATGGTGGTGC
34245039 CTATCTGGGAGGCGCCAATGGTGGTGC
1 CTATCTGGGAGGCGCCAATGGTGGTGC
34245066 CTATCTGGGAGGCGCCAATG
1 CTATCTGGGAGGCGCCAATG
34245086 TGATTTTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.18, C:0.23, G:0.38, T:0.22
Consensus pattern (27 bp):
CTATCTGGGAGGCGCCAATGGTGGTGC
Found at i:34245174 original size:22 final size:22
Alignment explanation
Indices: 34245146--34245201 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
34245136 AACAGAAGAA
34245146 AGAAGAAAAGAAAGAAGGAAGC
1 AGAAGAAAAGAAAGAAGGAAGC
*
34245168 AGAAGAAAAGAAGGAAGGAAGC
1 AGAAGAAAAGAAAGAAGGAAGC
*
34245190 AAAAGAAAAGAA
1 AGAAGAAAAGAA
34245202 TTAGGTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (22 bp):
AGAAGAAAAGAAAGAAGGAAGC
Found at i:34246339 original size:22 final size:22
Alignment explanation
Indices: 34246314--34246356 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34246304 GGAGGTCGGC
34246314 AGAAGGCTACAATTGGCGGGTT
1 AGAAGGCTACAATTGGCGGGTT
* *
34246336 AGAAGGCTGCAATTGGTGGGT
1 AGAAGGCTACAATTGGCGGGT
34246357 ACGAGCTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.40, T:0.23
Consensus pattern (22 bp):
AGAAGGCTACAATTGGCGGGTT
Found at i:34248389 original size:6 final size:6
Alignment explanation
Indices: 34248378--34248402 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34248368 TCTGCCACTC
34248378 GCTCTG GCTCTG GCTCTG GCTCTG G
1 GCTCTG GCTCTG GCTCTG GCTCTG G
34248403 TGCATGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (6 bp):
GCTCTG
Found at i:34250058 original size:16 final size:15
Alignment explanation
Indices: 34250027--34250068 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
34250017 ACAAAATCAA
*
34250027 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
34250042 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
34250058 ATAAAAATTAA
1 ATAAAAGTTAA
34250069 ATAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:34250234 original size:38 final size:38
Alignment explanation
Indices: 34250180--34250253 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
34250170 TAAAAAACCC
34250180 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
*
34250218 AAACTTTTAATGAAATGATTTTTAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAA
34250254 ACTTTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
Found at i:34250476 original size:19 final size:19
Alignment explanation
Indices: 34250470--34250527 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 19
34250460 CATACAAAAT
*
34250470 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
34250489 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
34250511 TACAAAATTATAATATT
1 TACAAAATTACAATATT
34250528 ACAATATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 15 0.47
22 17 0.53
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:34250506 original size:30 final size:27
Alignment explanation
Indices: 34250452--34250674 Score: 225
Period size: 27 Copynumber: 9.0 Consensus size: 27
34250442 TCCTCACAAA
34250452 ACAATATTCATACAAAATTACAATATT
1 ACAATATTCATACAAAATTACAATATT
34250479 ACAATATTCATAC-AAA--A-AA-ATT
1 ACAATATTCATACAAAATTACAATATT
* *
34250501 GCAATATTCATACAAAATTATAATATT
1 ACAATATTCATACAAAATTACAATATT
34250528 ACAATATTCATAC-AAA--A-AATA-T
1 ACAATATTCATACAAAATTACAATATT
* * *
34250550 ATAATATTCATATAAAATTACAAAATT
1 ACAATATTCATACAAAATTACAATATT
34250577 ACAATATTCATACAAAA--A-AA-A-T
1 ACAATATTCATACAAAATTACAATATT
* * *
34250599 GCAATATTCATACAAAACTATAATATT
1 ACAATATTCATACAAAATTACAATATT
34250626 ACAATATTCATAC-AAA--A-AAT-TT
1 ACAATATTCATACAAAATTACAATATT
*
34250648 ATAATATTCATACAAAATTACAATATT
1 ACAATATTCATACAAAATTACAATATT
34250675 CATACAAAAA
Statistics
Matches: 166, Mismatches: 10, Indels: 40
0.77 0.05 0.19
Matches are distributed among these distances:
22 58 0.35
23 19 0.11
24 6 0.04
25 6 0.04
26 18 0.11
27 59 0.36
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (27 bp):
ACAATATTCATACAAAATTACAATATT
Found at i:34250526 original size:49 final size:48
Alignment explanation
Indices: 34250401--34250674 Score: 342
Period size: 49 Copynumber: 5.6 Consensus size: 48
34250391 ATTATAAACT
* *
34250401 AATTACAATATTCATACAAAAAATTACAATATTACAATATATCCT-C-ACAA
1 AATT-CAATATTCATAC--AAAATTACAATATTACAATAT-TCATACAAAAA
34250451 AA--CAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
1 AATTCAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
*
34250497 AATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAA
1 AATT-CAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
* *
34250546 ATATAT-AATATTCATATAAAATTACAAAATTACAATATTCATACAAAAAA
1 A-AT-TCAATATTCATACAAAATTACAATATTACAATATTCATAC-AAAAA
* * *
34250596 AATGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAA
1 AATTCAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
* *
34250644 ATTTATAATATTCATACAAAATTACAATATT
1 AATT-CAATATTCATACAAAATTACAATATT
34250675 CATACAAAAA
Statistics
Matches: 198, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
44 3 0.02
45 22 0.11
46 5 0.03
47 12 0.06
48 7 0.04
49 138 0.70
50 10 0.05
51 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (48 bp):
AATTCAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
Found at i:34250578 original size:98 final size:98
Alignment explanation
Indices: 34250454--34250670 Score: 389
Period size: 98 Copynumber: 2.2 Consensus size: 98
34250444 CTCACAAAAC
* * *
34250454 AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
34250519 TATAATATTACAATATTCATACAAAAAATATAT
66 TATAATATTACAATATTCATACAAAAAATATAT
*
34250552 AATATTCATATAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
*
34250617 TATAATATTACAATATTCATACAAAAAATTTAT
66 TATAATATTACAATATTCATACAAAAAATATAT
34250650 AATATTCATACAAAATTACAA
1 AATATTCATACAAAATTACAA
34250671 TATTCATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 113 1.00
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (98 bp):
AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAC
TATAATATTACAATATTCATACAAAAAATATAT
Found at i:34250711 original size:41 final size:44
Alignment explanation
Indices: 34250476--34250711 Score: 153
Period size: 49 Copynumber: 5.2 Consensus size: 44
34250466 AAATTACAAT
* * * *
34250476 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAAAAATT--TATAAT-ATCCAAAACTATAA
* * * *
34250524 TATTACAATATTCATACAAAAAATATATAATATTCATATAAAATTACAAA
1 -ATTACAATATTCATACAAAAAATTTATAATA-TC---CAAAACTA-TAA
** * *
34250574 ATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAACTATAA
1 ATTACAATATTCATAC--AAAAAAT-TTATAAT-ATCCAAAACTATAA
* *
34250622 TATTACAATATTCATACAAAAAATTTATAATATTC-ATAC-A-AA
1 -ATTACAATATTCATACAAAAAATTTATAATATCCAAAACTATAA
34250664 ATTACAATATTCATACAAAAAA-TTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTTA-TAATATCCAAAACTATAA
34250706 A-TACAA
1 ATTACAA
34250712 ATTTAACTAT
Statistics
Matches: 153, Mismatches: 20, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
39 3 0.02
40 7 0.05
41 29 0.19
42 5 0.03
43 1 0.01
44 3 0.02
45 4 0.03
46 9 0.06
47 7 0.05
48 9 0.06
49 61 0.40
50 2 0.01
51 7 0.05
52 5 0.03
53 1 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (44 bp):
ATTACAATATTCATACAAAAAATTTATAATATCCAAAACTATAA
Found at i:34250751 original size:63 final size:64
Alignment explanation
Indices: 34250666--34250808 Score: 261
Period size: 63 Copynumber: 2.2 Consensus size: 64
34250656 CATACAAAAT
34250666 TACAATATTCATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAACTATAAAATAAA
1 TACAATATTCATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAACTATAAAATAAA
* *
34250730 T-CAATATTCATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAAT
1 TACAATATTCATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAACTATAAAATAAA
34250793 TACAATATTCATACAA
1 TACAATATTCATACAA
34250809 CATTACAATA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 61 0.80
64 15 0.20
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (64 bp):
TACAATATTCATACAAAAAATTACTAATCCAAAACTATAAATACAAATTTAACTATAAAATAAA
Found at i:34250860 original size:22 final size:21
Alignment explanation
Indices: 34250785--34250871 Score: 99
Period size: 20 Copynumber: 4.2 Consensus size: 21
34250775 ATTTAATTAT
*
34250785 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* *
34250807 --AACATTACAATATTCATA-
1 AAAAAATTAAAATATTCATAC
*
34250825 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
34250846 AAAAAATTTAAAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
34250868 AAAA
1 AAAA
34250872 TTCTAATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
19 15 0.26
20 18 0.32
21 6 0.11
22 18 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:34261678 original size:7 final size:7
Alignment explanation
Indices: 34261668--34261711 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
34261658 ATTTTTTCAA
34261668 TCATCCC
1 TCATCCC
**
34261675 TCATCAA
1 TCATCCC
34261682 TCATCCC
1 TCATCCC
*
34261689 TTATCCC
1 TCATCCC
34261696 TCATCCC
1 TCATCCC
*
34261703 TCAACCC
1 TCATCCC
34261710 TC
1 TC
34261712 TCATCTCTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Done.