Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 27 of 208
Found at i:7728989 original size:43 final size:43
Alignment explanation
Indices: 7728942--7729060 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
7728932 TGTAATCTTG
* * *
7728942 TATCGATGCCAATAACTCAGCCATGGTCTTACACAAAATCACA
1 TATCGATGCAAATAACCCAGACATGGTCTTACACAAAATCACA
** * *
7728985 TATCGATGCAAATGTCCCAGACATGGTCTTACACAAATTCTCA
1 TATCGATGCAAATAACCCAGACATGGTCTTACACAAAATCACA
* *
7729028 TATCGATGTC--ATATCCCAGATATGGTCTTACAC
1 TATCGATG-CAAATAACCCAGACATGGTCTTACAC
7729061 GTAATCTCGG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
42 21 0.32
43 44 0.67
44 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (43 bp):
TATCGATGCAAATAACCCAGACATGGTCTTACACAAAATCACA
Found at i:7754998 original size:4 final size:4
Alignment explanation
Indices: 7754991--7755041 Score: 57
Period size: 4 Copynumber: 11.8 Consensus size: 4
7754981 GGGAGAAAAA
*
7754991 AAAG AAAG AAAG AAAAG AAAG AAAGG AAAG AAAGG AGAAG AAAG AGAG
1 AAAG AAAG AAAG -AAAG AAAG AAA-G AAAG AAA-G A-AAG AAAG AAAG
7755039 AAA
1 AAA
7755042 AAAATGTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 27 0.66
5 12 0.29
6 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:7755006 original size:13 final size:13
Alignment explanation
Indices: 7754984--7755045 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
7754974 CAGCAGAGGG
*
7754984 AGAAAAAAAAGAA
1 AGAAAGAAAAGAA
7754997 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
*
7755010 AGAAAGGAAAGAA
1 AGAAAGAAAAGAA
*
7755023 AGGAGAAG-AAAGAG
1 A-GA-AAGAAAAGAA
7755037 AGAAA-AAAA
1 AGAAAGAAAA
7755046 TGTATGTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 5 0.12
13 27 0.63
14 8 0.19
15 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:7755007 original size:9 final size:9
Alignment explanation
Indices: 7754984--7755042 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
7754974 CAGCAGAGGG
*
7754984 AGAAAAAAA
1 AGAAAAGAA
7754993 AG-AAAGAA
1 AGAAAAGAA
7755001 AGAAAAGAA
1 AGAAAAGAA
*
7755010 AGAAAGGAA
1 AGAAAAGAA
*
7755019 AGAAAGGAGA
1 AGAAAAGA-A
*
7755029 AG-AAAGAG
1 AGAAAAGAA
7755037 AGAAAA
1 AGAAAA
7755043 AAATGTATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 9 0.21
9 31 0.72
10 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:7755350 original size:100 final size:100
Alignment explanation
Indices: 7755171--7755550 Score: 460
Period size: 100 Copynumber: 3.7 Consensus size: 100
7755161 GTTAATAATT
7755171 ATTATAAATTGTTTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTATGAATGTAATTTTTTTGT
1 ATTATAAATTGTTTGTGTTTAGTTTAGTG-TTTATTGTGATTTTTTATGAATGTAATTTTTTTG-
*
7755236 TTTTTAATTATTTTAAAGTTTTTTTGTTAGTAATTTATGATTAG
64 TTTTT--TTA----AAA-TTATTTTGTTAGTAATTTATGATTAG
*
7755280 ATTATAAATTGTTTGTGTTTAGTTTAGTGCTTATTGTGATTTTTTATGAATGTAATTTTTTTGTT
1 ATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTGTT
* *
7755345 TTTTTAAAATTATTTTGTTAGTAATTTTTTATTAG
66 TTTTTAAAATTATTTTGTTAGTAATTTATGATTAG
* * * *
7755380 GTTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTGTATGAATTTAATTTTTTTAAA
1 ATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTT---
* *
7755445 AAATTATTTTAAAATTATTTTGTTAGTAATTTATGATTAG
63 --GTTTTTTTAAAATTATTTTGTTAGTAATTTATGATTAG
* * * * * *
7755485 GTTATAAATT-ATT-TGTTTAGTTTAATGTGTATTGTGATTTGTTAT-AATGTAATTTTAATTGT
1 ATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTT-TTTGT
7755547 TTTT
65 TTTT
7755551 GATTTATTTA
Statistics
Matches: 243, Mismatches: 22, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
98 4 0.02
100 80 0.33
101 3 0.01
102 10 0.04
103 30 0.12
104 2 0.01
105 47 0.19
107 5 0.02
108 33 0.14
109 29 0.12
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.59
Consensus pattern (100 bp):
ATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTTTTTGTT
TTTTTAAAATTATTTTGTTAGTAATTTATGATTAG
Found at i:7755834 original size:21 final size:20
Alignment explanation
Indices: 7755761--7755835 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
7755751 AATATGAGAT
* * *
7755761 TTATTATATTTTTTATTGTAA
1 TTATAATATTATTTACTGT-A
* *
7755782 TTATATTATTATTCTACTATA
1 TTATAATATTATT-TACTGTA
**
7755803 TTTATTGTATTATTTACTGTA
1 -TTATAATATTATTTACTGTA
7755824 TGTATAATATTA
1 T-TATAATATTA
7755836 ATATGTTTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
20 1 0.02
21 25 0.61
22 15 0.37
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATAATATTATTTACTGTA
Found at i:7757606 original size:6 final size:6
Alignment explanation
Indices: 7757595--7757628 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
7757585 TCTTGCACCC
*
7757595 GAGCCA GAGCCA GAGCCA GATCCA GAGCCA GAGC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
7757629 TACACTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.32, T:0.03
Consensus pattern (6 bp):
GAGCCA
Found at i:7758120 original size:48 final size:48
Alignment explanation
Indices: 7758051--7758158 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
7758041 AACTTTGTAT
* * ** *
7758051 TTATTT-AATTGAGATTCATTGCAACATTAAAAATTGGAACAAACTTTG
1 TTATTTAAATT-AAATTAATTGCAACATTAAAAAGAGAAACAAACTTTG
*
7758099 TTATTTAAATTAAATTAATTGCAACATTAAAACGAGAAACAAACTTTG
1 TTATTTAAATTAAATTAATTGCAACATTAAAAAGAGAAACAAACTTTG
* *
7758147 TAATATAAATTA
1 TTATTTAAATTA
7758159 GATACATTGG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 47 0.92
49 4 0.08
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (48 bp):
TTATTTAAATTAAATTAATTGCAACATTAAAAAGAGAAACAAACTTTG
Found at i:7762929 original size:46 final size:46
Alignment explanation
Indices: 7762828--7763153 Score: 392
Period size: 46 Copynumber: 7.6 Consensus size: 46
7762818 TACGTATGAT
*
7762828 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
7762871 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
7762917 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
7762963 CACTTATCACTTTGTCACTTGATCAAATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
7762999 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
7763045 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
7763081 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
7763127 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
7763154 AGTACTCAAA
Statistics
Matches: 247, Mismatches: 13, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
36 56 0.23
38 5 0.02
39 1 0.00
40 4 0.02
41 4 0.02
42 4 0.02
43 11 0.04
44 10 0.04
45 20 0.08
46 132 0.53
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:7763004 original size:36 final size:36
Alignment explanation
Indices: 7762963--7763117 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
7762953 CTAAGGCTAA
*
7762963 CACTTATCACTTTGTCACTTGATCAAATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
7762999 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
7763041 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
7763081 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
7763117 C
1 C
7763118 TAAAGCTACC
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
36 63 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:7763131 original size:128 final size:133
Alignment explanation
Indices: 7762828--7763153 Score: 398
Period size: 128 Copynumber: 2.5 Consensus size: 133
7762818 TACGTATGAT
* * *
7762828 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
*
7762891 GATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
66 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCTA
7762956 AGGCTAA
130 AGG---A
* *
7762963 CACTTATCACTTTGTCACTTGATCAAATAA--GTA--T-AG----CACTTATCACTTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
* *
7763019 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A
66 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAA
7763080 -G-
131 GGA
* *
7763081 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACT
7763146 TGATCAGA
65 TGATCAGA
7763154 AGTACTCAAA
Statistics
Matches: 168, Mismatches: 11, Indels: 31
0.80 0.05 0.15
Matches are distributed among these distances:
118 28 0.17
120 3 0.02
122 2 0.01
123 1 0.01
124 3 0.02
125 1 0.01
126 2 0.01
128 97 0.58
132 1 0.01
133 1 0.01
135 13 0.08
136 5 0.03
137 11 0.07
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (133 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAA
GGA
Found at i:7763152 original size:82 final size:82
Alignment explanation
Indices: 7762917--7763153 Score: 411
Period size: 82 Copynumber: 2.9 Consensus size: 82
7762907 CTAAGGCTAC
* * * *
7762917 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
7762982 TGATCAAATAAGTATAG
66 TGATCAGATAAGTATAG
7762999 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
7763064 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
7763081 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
7763146 TGATCAGA
66 TGATCAGA
7763154 AGTACTCAAA
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 148 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:7765204 original size:21 final size:21
Alignment explanation
Indices: 7765180--7765221 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7765170 CTTTTTGTTC
*
7765180 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
7765201 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
7765222 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:7776467 original size:3 final size:3
Alignment explanation
Indices: 7776453--7776489 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
7776443 CCTTTTACCC
* *
7776453 CAT CAT CGT CAT CAT CAT CAT TAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
7776490 GAGAACAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.03, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:7782754 original size:19 final size:19
Alignment explanation
Indices: 7782709--7782755 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
7782699 ACTCTCAATC
7782709 TCTTTTTGCTCTTTTTCAT
1 TCTTTTTGCTCTTTTTCAT
* *
7782728 TCTCTTTTTCT-TTTTTGATT
1 TCT-TTTTGCTCTTTTTCA-T
7782748 TCTTTTTG
1 TCTTTTTG
7782756 TGTCTTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.72
Consensus pattern (19 bp):
TCTTTTTGCTCTTTTTCAT
Found at i:7786659 original size:32 final size:32
Alignment explanation
Indices: 7786618--7786683 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
7786608 ATAATAAAAG
7786618 TTAGAATATCTCTCAATCATTCTCACTGTTCA
1 TTAGAATATCTCTCAATCATTCTCACTGTTCA
7786650 TTAGAATATCTCTCAATCATTCTCACTGTTCA
1 TTAGAATATCTCTCAATCATTCTCACTGTTCA
7786682 TT
1 TT
7786684 TTGAATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (32 bp):
TTAGAATATCTCTCAATCATTCTCACTGTTCA
Found at i:7809965 original size:21 final size:23
Alignment explanation
Indices: 7809923--7809965 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
7809913 TAATTAATTA
*
7809923 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
7809946 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
7809966 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:7812214 original size:9 final size:9
Alignment explanation
Indices: 7812192--7812227 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7812182 TTATAGTTGA
7812192 TATTCGAA-
1 TATTCGAAT
7812200 TATTCGAAT
1 TATTCGAAT
*
7812209 TATTCGAGT
1 TATTCGAAT
7812218 TATTCGAAT
1 TATTCGAAT
7812227 T
1 T
7812228 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7813472 original size:34 final size:34
Alignment explanation
Indices: 7813413--7813557 Score: 164
Period size: 34 Copynumber: 4.3 Consensus size: 34
7813403 GAAGAAATTA
* * *
7813413 TGCAAGAAAAGATGTGTTAACAGGAAAGATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* *
7813447 TGTAAGAAATGATGCGTGAATAGGAAAGATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* * * *
7813481 TGCAAGAAATGAAGCATTAACATGAAAGATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* * * * *
7813515 TGCAAGAAATAATGTGTGGACAGGAAATATTTCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
7813549 TGCAAGAAA
1 TGCAAGAAA
7813558 AGACAAGAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 91 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (34 bp):
TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
Found at i:7813522 original size:68 final size:68
Alignment explanation
Indices: 7813429--7813557 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 68
7813419 AAAAGATGTG
* * *
7813429 TTAACAGGAAAGATTCCCTGTAAGAAATGATGCGTGAATAGGAAAGATTCCCTGCAAGAAATGAA
1 TTAACAGGAAAGATTCCCTGCAAGAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAATGAA
7813494 GCA
66 GCA
* * * * *
7813497 TTAACATGAAAGATTCCCTGCAAGAAATAATGTGTGGACAGGAAATATTTCCTGCAAGAAA
1 TTAACAGGAAAGATTCCCTGCAAGAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAA
7813558 AGACAAGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (68 bp):
TTAACAGGAAAGATTCCCTGCAAGAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAATGAA
GCA
Found at i:7813837 original size:14 final size:13
Alignment explanation
Indices: 7813810--7813847 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
7813800 GTTTTCCAAA
7813810 TTTTCAAATTAAG
1 TTTTCAAATTAAG
7813823 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
7813837 TTTTCAAATTA
1 TTTTCAAATTA
7813848 CAAATATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:7815790 original size:17 final size:17
Alignment explanation
Indices: 7815768--7815811 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
7815758 AGTTGTCTTA
7815768 CTTGCAATGCAAACGTT
1 CTTGCAATGCAAACGTT
* *
7815785 CTTGCAATGTAAATGTT
1 CTTGCAATGCAAACGTT
*
7815802 CTTACAATGC
1 CTTGCAATGC
7815812 CACTTATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (17 bp):
CTTGCAATGCAAACGTT
Found at i:7818545 original size:18 final size:18
Alignment explanation
Indices: 7818512--7818546 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7818502 AGATATAACC
*
7818512 GAGAAAGAAGATGCAGTT
1 GAGAAAGAAGAGGCAGTT
*
7818530 GAGAAAGAAGGGGCAGT
1 GAGAAAGAAGAGGCAGT
7818547 GAATGTGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.40, T:0.11
Consensus pattern (18 bp):
GAGAAAGAAGAGGCAGTT
Found at i:7823470 original size:16 final size:18
Alignment explanation
Indices: 7823431--7823474 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
7823421 ACTTGAGAAA
7823431 AATTGAGAGAATTAAGAG
1 AATTGAGAGAATTAAGAG
* *
7823449 AGTTGAGAG-TTTAA-AG
1 AATTGAGAGAATTAAGAG
7823465 AATTGAGAGA
1 AATTGAGAGA
7823475 GTTGGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
AATTGAGAGAATTAAGAG
Found at i:7825586 original size:20 final size:20
Alignment explanation
Indices: 7825561--7825598 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7825551 AGCTGATACA
7825561 TGGTACTCTCTTCCGTTTTT
1 TGGTACTCTCTTCCGTTTTT
7825581 TGGTACTCTCTTCCGTTT
1 TGGTACTCTCTTCCGTTT
7825599 ATGTATGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.26, G:0.16, T:0.53
Consensus pattern (20 bp):
TGGTACTCTCTTCCGTTTTT
Found at i:7828048 original size:9 final size:9
Alignment explanation
Indices: 7828034--7828059 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7828024 ATAAAAAATA
7828034 TATATTTTT
1 TATATTTTT
7828043 TATATTTTT
1 TATATTTTT
7828052 TATATTTT
1 TATATTTT
7828060 AAAATATTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TATATTTTT
Found at i:7828109 original size:20 final size:20
Alignment explanation
Indices: 7828064--7828116 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
7828054 TATTTTAAAA
**
7828064 TATTTTAAAAATATTTTTATT
1 TATTTTAAAAA-ATTGGTATT
*
7828085 T-TTTTAAAAAATTGGTGTT
1 TATTTTAAAAAATTGGTATT
7828104 TATTTTTAAAAAA
1 TA-TTTTAAAAAA
7828117 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 7 0.26
20 9 0.33
21 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TATTTTAAAAAATTGGTATT
Found at i:7828705 original size:29 final size:30
Alignment explanation
Indices: 7828665--7828733 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
7828655 TTTAAAAGTC
**
7828665 AAATTTTTTTACCA-ATTTTTAAGGGGTC-A
1 AAATTTTTTTACCACA-TTTTAAGGGACCTA
7828694 AAATTTTTTTACCACATTTTAAGGGACCTA
1 AAATTTTTTTACCACATTTTAAGGGACCTA
7828724 AAATTTTTTT
1 AAATTTTTTT
7828734 TCTCCAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (30 bp):
AAATTTTTTTACCACATTTTAAGGGACCTA
Found at i:7830196 original size:205 final size:203
Alignment explanation
Indices: 7829826--7830219 Score: 734
Period size: 205 Copynumber: 1.9 Consensus size: 203
7829816 CAAAGTGTAA
* *
7829826 GTAAGTATTTAGACTTTGAAAAAAAATTTAAGGACATTTTAGGAGTTCAATAGTTTGAAAACATT
1 GTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGTTTGAAAACATT
7829891 TGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGGCGGGACATGCTCTATAGTTGGC
66 TGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGGCGGGACATGCTCTATAGTTGGC
7829956 GTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCATATTACCTTTT
131 GTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCATATTACCTTTT
7830021 TAGGGAGT
196 TAGGGAGT
7830029 GTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGTTTGAAAACATT
1 GTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGTTTGAAAACATT
*
7830094 TGAAACTTGAGATAAATGTTAATTTGATGGAAATATAGTTTAAGGCGGGACATGCTCTATAGTTG
66 TGAAACTTGAGATAAATGTTAATTTAAT-G-AATATAGTTTAAGGCGGGACATGCTCTATAGTTG
*
7830159 GCGTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCGTATTA
129 GCGTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCATATTA
7830220 GCTTGAGGGG
Statistics
Matches: 185, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
203 90 0.49
204 1 0.01
205 94 0.51
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (203 bp):
GTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGTTTGAAAACATT
TGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGGCGGGACATGCTCTATAGTTGGC
GTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCATATTACCTTTT
TAGGGAGT
Found at i:7831883 original size:15 final size:15
Alignment explanation
Indices: 7831840--7831890 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
7831830 GTTTGGATGT
*
7831840 TATATTTGTGT-ATA
1 TATATATGTGTAATA
7831854 TATA-ATGTACG-AATA
1 TATATATGT--GTAATA
7831869 TATATATGTGTAATA
1 TATATATGTGTAATA
7831884 TATATAT
1 TATATAT
7831891 AAATTCTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 3 0.10
14 5 0.16
15 19 0.61
16 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (15 bp):
TATATATGTGTAATA
Found at i:7832742 original size:41 final size:41
Alignment explanation
Indices: 7832685--7832949 Score: 435
Period size: 41 Copynumber: 6.5 Consensus size: 41
7832675 GCTTAGCGCT
*
7832685 TAGCAAGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
*
7832726 TAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
* * *
7832766 TAGCAGGCTACGTGTCGGTGAACTGAATCAGGTTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
*
7832807 TAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
* *
7832847 TAGCAGGCTAAGTGCCGATGAACTGAATCAGGTTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
7832888 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
*
7832929 TAGTAGGCTAAGTGCCGGTGA
1 TAGCAGGCTAAGTGCCGGTGA
7832950 ATTTGTTTAA
Statistics
Matches: 206, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 75 0.36
41 131 0.64
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
Found at i:7832808 original size:81 final size:81
Alignment explanation
Indices: 7832685--7832950 Score: 460
Period size: 81 Copynumber: 3.3 Consensus size: 81
7832675 GCTTAGCGCT
* *
7832685 TAGCAAGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTG
1 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTG
7832750 AATCAGGCTATAAGCC
66 AATCAGGCTATAAGCC
* *
7832766 TAGCAGGCTACGTGTCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTG
1 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTG
7832831 AATCAGGCTATAAGCC
66 AATCAGGCTATAAGCC
*
7832847 TAGCAGGCTAAGTGCCGATGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGATCT
1 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCC-GTGATCT
*
7832912 GAATCAGGTTATAAGCC
65 GAATCAGGCTATAAGCC
*
7832929 TAGTAGGCTAAGTGCCGGTGAA
1 TAGCAGGCTAAGTGCCGGTGAA
7832951 TTTGTTTAAA
Statistics
Matches: 174, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 131 0.75
82 43 0.25
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (81 bp):
TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTG
AATCAGGCTATAAGCC
Found at i:7832907 original size:122 final size:121
Alignment explanation
Indices: 7832685--7832945 Score: 432
Period size: 122 Copynumber: 2.1 Consensus size: 121
7832675 GCTTAGCGCT
* * *
7832685 TAGCAAGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTG
1 TAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGTGAACTG
* *
7832750 AATCAGGCTATAAGCCTAGCAGGCTACGTGTCGGTGAACTGAATCAGGTTATAAGCC
65 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCC
7832807 TAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGAACTG
1 TAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG-TGAACTG
* *
7832872 AATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCC
65 AATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCC
*
7832929 TAGTAGGCTAAGTGCCG
1 TAGCAGGCTAAGTGCCG
7832946 GTGAATTTGT
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
121 40 0.31
122 90 0.69
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (121 bp):
TAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGTGAACTGA
ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAGCC
Found at i:7833850 original size:2 final size:2
Alignment explanation
Indices: 7833845--7833890 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7833835 TTTAAATTTT
7833845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7833887 TA TA
1 TA TA
7833891 AGCAATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7842313 original size:30 final size:29
Alignment explanation
Indices: 7842279--7842354 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
7842269 TAATTGAATA
7842279 AATTCGGCAATGTATAACCAAATACAAATC
1 AATTCGGCAATGTATAACCAAA-ACAAATC
* * * *
7842309 AATTCGGTAATGTATATCCATAACGAATC
1 AATTCGGCAATGTATAACCAAAACAAATC
*
7842338 AATTCAGCAATGTATAA
1 AATTCGGCAATGTATAA
7842355 AACATATACA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 20 0.51
30 19 0.49
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (29 bp):
AATTCGGCAATGTATAACCAAAACAAATC
Found at i:7842349 original size:29 final size:30
Alignment explanation
Indices: 7842274--7842354 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
7842264 CTTCGTAATT
*
7842274 GAATAAATTCGGCAATGTATAACCAAATAC
1 GAATCAATTCGGCAATGTATAACCAAATAC
* * * *
7842304 AAATCAATTCGGTAATGTATATCCATA-AC
1 GAATCAATTCGGCAATGTATAACCAAATAC
*
7842333 GAATCAATTCAGCAATGTATAA
1 GAATCAATTCGGCAATGTATAA
7842355 AACATATACA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 20 0.48
30 22 0.52
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (30 bp):
GAATCAATTCGGCAATGTATAACCAAATAC
Found at i:7847535 original size:51 final size:51
Alignment explanation
Indices: 7847476--7847572 Score: 194
Period size: 51 Copynumber: 1.9 Consensus size: 51
7847466 TAAACGTAAT
7847476 GTTGATTTAACATTTAAATAATTCTTTAAATATTTAAGATCTCGTTCATTC
1 GTTGATTTAACATTTAAATAATTCTTTAAATATTTAAGATCTCGTTCATTC
7847527 GTTGATTTAACATTTAAATAATTCTTTAAATATTTAAGATCTCGTT
1 GTTGATTTAACATTTAAATAATTCTTTAAATATTTAAGATCTCGTT
7847573 TGAATGGACC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (51 bp):
GTTGATTTAACATTTAAATAATTCTTTAAATATTTAAGATCTCGTTCATTC
Found at i:7861454 original size:39 final size:39
Alignment explanation
Indices: 7861379--7861456 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
7861369 CATATTACAT
* * * *
7861379 ATATAATTACCTAACATACAAGTATATATCACAATACTC
1 ATATAATCACATAACATACAAGCATATATCAAAATACTC
** *
7861418 ATATAATCACATAACATTTAAGCATATGTCAAAATACTC
1 ATATAATCACATAACATACAAGCATATATCAAAATACTC
7861457 GAAAACATCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (39 bp):
ATATAATCACATAACATACAAGCATATATCAAAATACTC
Found at i:7865544 original size:21 final size:22
Alignment explanation
Indices: 7865518--7865559 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7865508 ATAGCAGATT
*
7865518 CAGATCATGCTTAACA-AATAA
1 CAGATCATACTTAACATAATAA
*
7865539 CAGATCGTACTTAACATAATA
1 CAGATCATACTTAACATAATA
7865560 CAAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (22 bp):
CAGATCATACTTAACATAATAA
Found at i:7878962 original size:17 final size:17
Alignment explanation
Indices: 7878929--7878962 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7878919 GTGTATTTTG
*
7878929 TGCAAAAAGGACTAAAT
1 TGCAAAAAGGACAAAAT
*
7878946 TGCAAAAAGTACAAAAT
1 TGCAAAAAGGACAAAAT
7878963 GTTAGGGGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGACAAAAT
Found at i:7880303 original size:41 final size:40
Alignment explanation
Indices: 7880258--7880402 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 40
7880248 GACTTTAAGT
*
7880258 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
*
7880299 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
* * *
7880340 CTAGCAGGCTACGTGCGGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA-C
7880381 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
7880403 ATATGTTAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
40 2 0.02
41 92 0.98
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (40 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAC
Found at i:7884857 original size:60 final size:60
Alignment explanation
Indices: 7884789--7884910 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
7884779 AGCATTACTT
* *
7884789 ATGATATCTGGATGTATGTACTATTAATTGCATAATTGCATGACTTATTTTATATGTTGC
1 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTATATGTTGC
* *
7884849 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGTATGACATATTTTGTATGTTGC
1 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTATATGTTGC
7884909 AT
1 AT
7884911 TGCGTCGAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (60 bp):
ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTATATGTTGC
Found at i:7885086 original size:23 final size:24
Alignment explanation
Indices: 7885060--7885104 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7885050 TAATCCCCAC
*
7885060 ATGGTGTGTAG-GGTTGGAGGGAG
1 ATGGTGTGTAGAGGCTGGAGGGAG
7885083 ATGGTGTGTAGAGGCTGGAGGG
1 ATGGTGTGTAGAGGCTGGAGGG
7885105 TAGGATTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.18, C:0.02, G:0.56, T:0.24
Consensus pattern (24 bp):
ATGGTGTGTAGAGGCTGGAGGGAG
Found at i:7894759 original size:3 final size:3
Alignment explanation
Indices: 7894751--7894801 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7894741 CGATGTTCCC
7894751 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
7894799 CTT
1 CTT
7894802 TTTAAAATTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:7898086 original size:28 final size:28
Alignment explanation
Indices: 7898055--7898108 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
7898045 ACTAAAAATT
* *
7898055 TTACTTTTTTGTTTCTCTCCTCTACTCC
1 TTACGTTTTTGTTTCCCTCCTCTACTCC
7898083 TTACGTTTTTGTTTCCCTCCTCTACT
1 TTACGTTTTTGTTTCCCTCCTCTACT
7898109 TCTTCTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.07, C:0.31, G:0.06, T:0.56
Consensus pattern (28 bp):
TTACGTTTTTGTTTCCCTCCTCTACTCC
Found at i:7898175 original size:23 final size:23
Alignment explanation
Indices: 7898149--7898198 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
7898139 ATTTTTCTTC
* * * *
7898149 TTGCTTATTTTGCTTGTCAAATT
1 TTGCTTAATTGGCTTCTCAAAAT
7898172 TTGC-TAATTGGCTTCTCAAAAT
1 TTGCTTAATTGGCTTCTCAAAAT
7898194 TTGCT
1 TTGCT
7898199 ACACCAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (23 bp):
TTGCTTAATTGGCTTCTCAAAAT
Found at i:7902415 original size:28 final size:28
Alignment explanation
Indices: 7902381--7902443 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
7902371 CATAGTACAA
*
7902381 ATATATGTGTGGTTCTGCTATACATAAT
1 ATATATGTGTGGTTCTACTATACATAAT
* * *
7902409 ATATATGTGTGGTTTTATTATATATAAT
1 ATATATGTGTGGTTCTACTATACATAAT
7902437 ATATATG
1 ATATATG
7902444 CAGTTATAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (28 bp):
ATATATGTGTGGTTCTACTATACATAAT
Found at i:7915583 original size:30 final size:28
Alignment explanation
Indices: 7915525--7915628 Score: 81
Period size: 30 Copynumber: 3.6 Consensus size: 28
7915515 AAAAAGGTAC
* * *
7915525 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
7915552 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
*
7915582 AAAGATAAT-TACATATATAT--ATAAAA
1 AAA-ATTATATACATATATATAGATAAAA
*
7915608 ACAAATAATAATTACATATAT
1 A-AAATTAT-A-TACATATAT
7915629 TGAAATTAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
26 9 0.14
27 8 0.12
28 16 0.25
29 11 0.17
30 17 0.26
31 4 0.06
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:7915788 original size:17 final size:17
Alignment explanation
Indices: 7915766--7915809 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7915756 TAGGAAATAA
7915766 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
7915783 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
7915800 -ATATGTATAT
1 AAAATGTATAT
7915810 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:7915843 original size:60 final size:58
Alignment explanation
Indices: 7915717--7915843 Score: 130
Period size: 60 Copynumber: 2.1 Consensus size: 58
7915707 TCAAAGTAAA
* * *
7915717 AAAATATAAAAGTATATATATATATATGCATATAAAAGTTAGGAAATAAAAAATGTAT
1 AAAATATAAAAGTAAATATATATATATGCATATAAAAGTTAGCAAATAAAAAATGAAT
** * * * *
7915775 ATGTATATAAAATGTAAATGTATATATATGTATATAAAAGTTATGCAAATAGTATAAT-AAT
1 A-AAATATAAAA-GTAAATATATATATATGCATATAAAAGTTA-GCAAATA-AAAAATGAAT
7915836 AAAATATA
1 AAAATATA
7915844 TATAATCTGT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
58 1 0.02
59 8 0.15
60 32 0.59
61 9 0.17
62 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (58 bp):
AAAATATAAAAGTAAATATATATATATGCATATAAAAGTTAGCAAATAAAAAATGAAT
Found at i:7915946 original size:3 final size:3
Alignment explanation
Indices: 7915938--7915966 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7915928 ATATATAGTA
7915938 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7915967 CTTAATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7916333 original size:19 final size:19
Alignment explanation
Indices: 7916309--7916358 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
7916299 AATCATATCT
7916309 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
7916328 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
7916347 TCTAAGATTGCA
1 TCTAAGATTGCA
7916359 CATCCTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7917146 original size:99 final size:99
Alignment explanation
Indices: 7916980--7917159 Score: 272
Period size: 99 Copynumber: 1.8 Consensus size: 99
7916970 GTAATGTCGG
* * *
7916980 GGAAACAAGATTCACCGTCGTGGCTTCAATCTACTCCGCTACAACGCCCGGAAGTAAGATTCACC
1 GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGGAAGTAAGATTCACC
7917045 GTTGCGACTTCAATCTTTTAAATTGCAATGTTGA
66 GTTGCGACTTCAATCTTTTAAATTGCAATGTTGA
* * * *
7917079 GGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCATTACACCTCCAGGAGAGTAAGATTC-C
1 GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGGA-AGTAAGATTCAC
*
7917143 CGTTGCGGCTTCAATCT
65 CGTTGCGACTTCAATCT
7917160 ACTCCACTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 62 0.86
100 10 0.14
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (99 bp):
GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGGAAGTAAGATTCACC
GTTGCGACTTCAATCTTTTAAATTGCAATGTTGA
Found at i:7917460 original size:44 final size:45
Alignment explanation
Indices: 7917411--7917573 Score: 185
Period size: 44 Copynumber: 3.7 Consensus size: 45
7917401 TGCTATTTTT
*
7917411 AACCTACTT-CACTGCTG-CTCAGGGAGATAGGATTCACAATCTTT
1 AACCTA-TTCCACTGCTGACTCAGGGAGATAGGATTCACAATCTTC
* * * *
7917455 AACCTAATGCACTGCTGAC-CAAGGAGATAGGA-CCTACAATCTTC
1 AACCTATTCCACTGCTGACTCAGGGAGATAGGATTC-ACAATCTTC
* * * *
7917499 AATCTATTCCACTGCTG-CCCAGGGAGATAGAATTCTCAATCTTC
1 AACCTATTCCACTGCTGACTCAGGGAGATAGGATTCACAATCTTC
7917543 AACCTATTCCACTGCTGACT-AGGGAGATAGG
1 AACCTATTCCACTGCTGACTCAGGGAGATAGG
7917574 GCTGGGGTCA
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 93 0.94
45 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (45 bp):
AACCTATTCCACTGCTGACTCAGGGAGATAGGATTCACAATCTTC
Found at i:7917703 original size:44 final size:44
Alignment explanation
Indices: 7917655--7917881 Score: 131
Period size: 44 Copynumber: 5.2 Consensus size: 44
7917645 CAACCTAGGG
*
7917655 AGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGTCAGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * * * *
7917699 AGGCAAGATCTGCTAT-TTTTAACTTGC-TCTGCTG-CAATCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATC-TGCTTC-GCTGTCAGTGCAGGA
* **
7917743 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTTGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * * *** *
7917787 AGGCAAGATCTGCTAT-TTTTAGCCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTGCAGGA
* *
7917831 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
*
7917875 ATGCAAG
1 AGGCAAG
7917882 ATCTGCTATT
Statistics
Matches: 123, Mismatches: 50, Indels: 20
0.64 0.26 0.10
Matches are distributed among these distances:
43 26 0.21
44 72 0.59
45 25 0.20
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
Found at i:7917710 original size:88 final size:88
Alignment explanation
Indices: 7917573--7918062 Score: 737
Period size: 88 Copynumber: 5.6 Consensus size: 88
7917563 AGGGAGATAG
* * * * *
7917573 GGCTGGGGTCATCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
7917638 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
7917661 GGCTGGTGTCTTCGATCTACTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
* *
7917726 TCTGCTGCAATCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
7917749 GGCTGGTGTCTTCGATCTGCTTCGTTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
7917814 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
7917837 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAATGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
7917902 TCCGCTGTAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * * * *
7917925 GTCTAGTGTCTTTGATTTGCTTCACTATCGGTGCAGAAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
7917990 TCTGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
7918013 GGCTGGTATCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
7918063 TTATCTTCAC
Statistics
Matches: 363, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 363 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:7920250 original size:25 final size:26
Alignment explanation
Indices: 7920197--7920257 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
7920187 AAGAAAATCC
* *
7920197 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTACTTCA
7920223 AAAAGAATGAAAAAAT-ATTAGCTT-A
1 AAAAGAATGAAAAAATAATTA-CTTCA
7920248 AAAATGAATG
1 AAAA-GAATG
7920258 CAAAGATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.25
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTACTTCA
Found at i:7924181 original size:17 final size:17
Alignment explanation
Indices: 7924159--7924202 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7924149 TAGGAATTAA
7924159 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
7924176 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
7924193 -ATATGTATAT
1 AAAATGTATAT
7924203 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:7924334 original size:3 final size:3
Alignment explanation
Indices: 7924326--7924361 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7924316 ATATATATAG
7924326 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7924362 CTTAATAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7924733 original size:24 final size:23
Alignment explanation
Indices: 7924687--7924771 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 23
7924677 AAATTAAATC
7924687 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
* *
7924710 TCTAAGATTGCATATATCATA---
1 TCTAAGATTACA-AAATCATATCT
*
7924731 TCTAAGATTAC-ATATCATA---
1 TCTAAGATTACAAAATCATATCT
*
7924750 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
7924772 AAGATTGCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
19 27 0.49
21 10 0.18
23 11 0.20
24 7 0.13
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:7924745 original size:19 final size:19
Alignment explanation
Indices: 7924723--7924777 Score: 110
Period size: 19 Copynumber: 2.9 Consensus size: 19
7924713 AAGATTGCAT
7924723 ATATCATATCTAAGATTAC
1 ATATCATATCTAAGATTAC
7924742 ATATCATATCTAAGATTAC
1 ATATCATATCTAAGATTAC
7924761 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
7924778 GCACATCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTAC
Found at i:7924765 original size:38 final size:41
Alignment explanation
Indices: 7924687--7924777 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 41
7924677 AAATTAAATC
*
7924687 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATT-CACATATCATA
*
7924731 TCTAAGATTAC-ATATCATA-TCTAAGATT-ACATATCATA
1 TCTAAGATTACAAAATCATATTCTAAGATTCACATATCATA
7924769 TCTAAGATT
1 TCTAAGATT
7924778 GCACATCCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
38 18 0.40
40 9 0.20
43 7 0.16
44 11 0.24
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (41 bp):
TCTAAGATTACAAAATCATATTCTAAGATTCACATATCATA
Found at i:7926856 original size:32 final size:30
Alignment explanation
Indices: 7926815--7926897 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 30
7926805 TAAAAGTTAT
7926815 GTGTATATATAATATATAAGTATA-GGGTTTTG
1 GTGT-TATAT-ATATATAA-TATATGGGTTTTG
* *
7926847 TTATT-TATATATA-ATATATATGGGTTTTG
1 GTGTTATATATATATA-ATATATGGGTTTTG
7926876 GTGTTATATATATATAATATAT
1 GTGTTATATATATATAATATAT
7926898 ATTTATGTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.12
29 17 0.40
30 17 0.40
31 2 0.05
32 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (30 bp):
GTGTTATATATATATAATATATGGGTTTTG
Found at i:7926890 original size:34 final size:30
Alignment explanation
Indices: 7926816--7926899 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 30
7926806 AAAAGTTATG
*
7926816 TGTATATATAATATATAA-GTATA-GGGTTT
1 TGTATATAT-ATATATAATATATATGGGTTT
*
7926845 TGT-TATTTATATATAATATATATGGGTTT
1 TGTATATATATATATAATATATATGGGTTT
*
7926874 TGGTGTTATATATATATAATATATAT
1 T-GT-ATATATATATATAATATATAT
7926900 TTATGTGCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 8 0.17
28 8 0.17
29 10 0.21
30 2 0.04
32 19 0.40
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (30 bp):
TGTATATATATATATAATATATATGGGTTT
Found at i:7926919 original size:28 final size:28
Alignment explanation
Indices: 7926886--7926990 Score: 84
Period size: 30 Copynumber: 3.6 Consensus size: 28
7926876 GTGTTATATA
*
7926886 TATATAATATATATTTATGTGCATGGGTGT
1 TATAT-ATATA-ATATATGTGCATGGGTGT
* * *
7926916 TATATGTATAATATATTTGCATGGGTCT
1 TATATATATAATATATGTGCATGGGTGT
* * ** *
7926944 ACTATATACATAATATATATGTGTGGGTTT
1 --TATATATATAATATATGTGCATGGGTGT
7926974 TATTATATATAATATAT
1 TA-TATATATAATATAT
7926991 ATACAGTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
28 17 0.28
29 17 0.28
30 27 0.44
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (28 bp):
TATATATATAATATATGTGCATGGGTGT
Found at i:7929179 original size:24 final size:23
Alignment explanation
Indices: 7929155--7929206 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
7929145 AGTCATCTTC
*
7929155 TTCTATATTT-TT-TTCTTTTCT
1 TTCTTTATTTCTTCTTCTTTTCT
7929176 TTCTATTATTTCTTCTTCTTTTCT
1 TTCT-TTATTTCTTCTTCTTTTCT
7929200 TCTCTTT
1 T-TCTTT
7929207 TCTCTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 2 0.08
24 12 0.46
25 3 0.12
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (23 bp):
TTCTTTATTTCTTCTTCTTTTCT
Found at i:7929180 original size:21 final size:24
Alignment explanation
Indices: 7929155--7929200 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7929145 AGTCATCTTC
7929155 TTCTA-TATTT-TT-TTCTTTTCT
1 TTCTATTATTTCTTCTTCTTTTCT
7929176 TTCTATTATTTCTTCTTCTTTTCT
1 TTCTATTATTTCTTCTTCTTTTCT
7929200 T
1 T
7929201 CTCTTTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.23
22 5 0.23
23 2 0.09
24 10 0.45
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (24 bp):
TTCTATTATTTCTTCTTCTTTTCT
Found at i:7936117 original size:18 final size:18
Alignment explanation
Indices: 7936087--7936128 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
7936077 CTCTTTTCTC
7936087 TTTTTCGGTTCTTTTATT
1 TTTTTCGGTTCTTTTATT
7936105 TTTTTC-GTGTCTTTTATT
1 TTTTTCGGT-TCTTTTATT
7936123 TATTTT
1 T-TTTT
7936129 GATTACTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.74
Consensus pattern (18 bp):
TTTTTCGGTTCTTTTATT
Found at i:7937930 original size:21 final size:19
Alignment explanation
Indices: 7937896--7937940 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
7937886 TAACTATACA
* *
7937896 TATAAAAGAACATATTATT
1 TATAAAAGAACATATCATG
7937915 TATAAAATGCAACATATCATG
1 TATAAAA-G-AACATATCATG
7937936 TATAA
1 TATAA
7937941 GATTCCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 1 0.05
21 14 0.64
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
TATAAAAGAACATATCATG
Found at i:7938135 original size:41 final size:41
Alignment explanation
Indices: 7938083--7938211 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 41
7938073 TCAAATACAT
* *
7938083 CCTTTTCATTTGTTATCCTTCTCGGATAACATTCTTTTCAA
1 CCTTTTCATTTGATATCCTTCTCGGATAACATCCTTTTCAA
* * * *
7938124 CCTTCTT-ATTTGATATCATTTTTGGATAGCATCCTTTTCAA
1 CCTT-TTCATTTGATATCCTTCTCGGATAACATCCTTTTCAA
* ***
7938165 TCTTTTCATTTGATATCCTT-TTTTATTAACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTCTCGGA-TAACATCCTTTTCAA
7938206 CCTTTT
1 CCTTTT
7938212 AATTGATTCA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.07
41 66 0.90
42 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (41 bp):
CCTTTTCATTTGATATCCTTCTCGGATAACATCCTTTTCAA
Found at i:7957789 original size:18 final size:19
Alignment explanation
Indices: 7957761--7957797 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
7957751 GAAACAAAAT
7957761 TGAAAATTTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
7957780 TGAAAA-TTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
7957798 GGGTTTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (19 bp):
TGAAAATTTTGGGAAAACA
Found at i:7959074 original size:41 final size:41
Alignment explanation
Indices: 7959004--7959136 Score: 176
Period size: 41 Copynumber: 3.2 Consensus size: 41
7958994 TCAGATACAT
* *
7959004 CCTTTTCATTTGTTATCCTTTTCGTATAACATCTTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGAATAACATCTTTTTCAA
* * *
7959045 CCTTTTCATTTGATATCATTTTTGGATAACATCTTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGAATAACATCTTTTTCAA
** * * *
7959086 TATTTTCATTTGAGATCCTTTTCAAATAACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGAATAACATCTTTTTCAA
7959127 CCTTTTCATT
1 CCTTTTCATT
7959137 GATTCAAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.51
Consensus pattern (41 bp):
CCTTTTCATTTGATATCCTTTTCGAATAACATCTTTTTCAA
Found at i:7962060 original size:50 final size:49
Alignment explanation
Indices: 7962005--7962129 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 49
7961995 TATCCCAGAT
* *
7962005 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTAC-TGGGAGTTCTCATATCGGTGCCAACGCCATGTCCCAAAC
* * * *
7962055 ATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACGTCATGTCCCAGAC
1 ATGGTCTTACTGGGAG--TTCTCATATCGGTGCCAACGCCATGTCCCAAAC
7962105 ATGGTCTTACGTGGGA-TGTCTCATA
1 ATGGTCTTAC-TGGGAGT-TCTCATA
7962130 ATCTTAATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
48 5 0.08
50 53 0.85
52 4 0.06
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (49 bp):
ATGGTCTTACTGGGAGTTCTCATATCGGTGCCAACGCCATGTCCCAAAC
Found at i:7963906 original size:14 final size:14
Alignment explanation
Indices: 7963887--7963919 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7963877 AAGTCTTAAG
*
7963887 TCTAATTCTAGTAC
1 TCTAATTCTAATAC
7963901 TCTAATTCTAATAC
1 TCTAATTCTAATAC
7963915 TCTAA
1 TCTAA
7963920 AAAATGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (14 bp):
TCTAATTCTAATAC
Found at i:7964788 original size:30 final size:30
Alignment explanation
Indices: 7964733--7964829 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
7964723 ATATATTTCT
* *
7964733 TATAAAACAAGACCC-A-TATACATATATA
1 TATATAACAAGACCCAAGTATATATATATA
* *
7964761 TTATATAATCAAGACCCACGTATATATATGGTA
1 -TATATAA-CAAGACCCAAGTATATATAT-ATA
*
7964794 TATATAACAA-ACCCAAGCATATAATATATA
1 TATATAACAAGACCCAAGTATAT-ATATATA
7964824 TATATA
1 TATATA
7964830 TATAACAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
29 6 0.11
30 26 0.46
31 7 0.12
32 15 0.27
33 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (30 bp):
TATATAACAAGACCCAAGTATATATATATA
Found at i:7964821 original size:35 final size:34
Alignment explanation
Indices: 7964782--7964860 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 34
7964772 AGACCCACGT
*
7964782 ATATATATGGTATATATAACAAA-CCCAAGCATATA
1 ATATATAT-ATATATATAACAAAGCCCAAGCATA-A
*
7964817 ATATATATATATATATAACAAAGCCCATGCATAA
1 ATATATATATATATATAACAAAGCCCAAGCATAA
7964851 ATAT-TATATA
1 ATATATATATA
7964861 CTGAACCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 6 0.15
34 18 0.44
35 17 0.41
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (34 bp):
ATATATATATATATATAACAAAGCCCAAGCATAA
Found at i:7966864 original size:3 final size:3
Alignment explanation
Indices: 7966856--7966920 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
7966846 ATCTATCCTT
7966856 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7966904 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
7966921 TAACTAATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7967473 original size:3 final size:3
Alignment explanation
Indices: 7967465--7967511 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7967455 ATCTATCATT
7967465 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7967512 TAACTAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7971137 original size:32 final size:35
Alignment explanation
Indices: 7971096--7971171 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
7971086 TCTTTATATT
*
7971096 TTTTTTATCA-TTTCCT-TC-TTCATCTTCCATTA
1 TTTTTTATCACTTCCCTATCTTTCATCTTCCATTA
* *
7971128 TTTTTTATCACTTCCCTCATCTTTCATCTTTCTTTA
1 TTTTTTATCACTTCCCT-ATCTTTCATCTTCCATTA
7971164 TTTTTTAT
1 TTTTTTAT
7971172 TTCATCAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 10 0.27
33 5 0.14
35 2 0.05
36 20 0.54
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTTTATCACTTCCCTATCTTTCATCTTCCATTA
Found at i:7971206 original size:25 final size:26
Alignment explanation
Indices: 7971164--7971214 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
7971154 TCTTTCTTTA
*
7971164 TTTTTTATTTCATCAATCCTTCATAG
1 TTTTTTATTTCATAAATCCTTCATAG
* *
7971190 TTTTTTTTTTCA-AAATCTTTCATAG
1 TTTTTTATTTCATAAATCCTTCATAG
7971215 CTTCACTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTTATTTCATAAATCCTTCATAG
Found at i:7972121 original size:18 final size:18
Alignment explanation
Indices: 7972098--7972133 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7972088 ATTTTATAAT
*
7972098 TATATTTGCTTTGATACC
1 TATATTTGCTCTGATACC
7972116 TATATTTGCTCTGATACC
1 TATATTTGCTCTGATACC
7972134 AAGACGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.47
Consensus pattern (18 bp):
TATATTTGCTCTGATACC
Found at i:7973276 original size:32 final size:32
Alignment explanation
Indices: 7973240--7973301 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
7973230 TATGACGAAC
7973240 AACATAATTAGATATGATAAAATATGCCTTTT
1 AACATAATTAGATATGATAAAATATGCCTTTT
7973272 AACATAATTAGATATGATAAAATATGCCTT
1 AACATAATTAGATATGATAAAATATGCCTT
7973302 CAATGTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (32 bp):
AACATAATTAGATATGATAAAATATGCCTTTT
Found at i:7986214 original size:30 final size:29
Alignment explanation
Indices: 7986178--7986258 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
7986168 GTATTTATGT
*
7986178 AAAGTCAAATATATGGTTATCAAATAATGG
1 AAAGTCAAAGATATGG-TATCAAATAATGG
*
7986208 AAAGTCAAAGATATGAGTATCAAATATTGG
1 AAAGTCAAAGATATG-GTATCAAATAATGG
*
7986238 AAAATCAAAGATATGGGTATC
1 AAAGTCAAAGATAT-GGTATC
7986259 GAGATATTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 44 0.96
31 2 0.04
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (29 bp):
AAAGTCAAAGATATGGTATCAAATAATGG
Found at i:7990883 original size:15 final size:15
Alignment explanation
Indices: 7990846--7990899 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7990836 GTATTTATGT
7990846 AAAGTCAAATATATGG
1 AAAGTCAAATA-ATGG
**
7990862 TTA-TCAAATAATGG
1 AAAGTCAAATAATGG
*
7990876 AAAGTCAAATATTGG
1 AAAGTCAAATAATGG
*
7990891 AAAATCAAA
1 AAAGTCAAA
7990900 GATATGGGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 5 0.16
15 25 0.81
16 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (15 bp):
AAAGTCAAATAATGG
Found at i:7993929 original size:22 final size:22
Alignment explanation
Indices: 7993904--7993951 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
7993894 ATTTTCCAAG
*
7993904 AGGTTTTGTTGGTTTCTGTTTA
1 AGGTTTTGTTGGTTTCTATTTA
7993926 AGGTTTTGTTGGTTTCTATTTA
1 AGGTTTTGTTGGTTTCTATTTA
7993948 AGGT
1 AGGT
7993952 CTTTTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.04, G:0.27, T:0.56
Consensus pattern (22 bp):
AGGTTTTGTTGGTTTCTATTTA
Found at i:8004969 original size:33 final size:31
Alignment explanation
Indices: 8004932--8005011 Score: 79
Period size: 35 Copynumber: 2.4 Consensus size: 31
8004922 ATAATAAAAT
* *
8004932 AATATATAAAAATCAATAAATACATTAAGTTTA
1 AATATATAAAAAT-AATAAATACATTAA-ATAA
*
8004965 AATATATGCAAAAAATAATATATACATTAAATAA
1 AATATAT---AAAAATAATAAATACATTAAATAA
*
8004999 AATAGATAAAAAT
1 AATATATAAAAAT
8005012 TTAAAAGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 6 0.15
33 7 0.17
34 8 0.20
35 13 0.32
36 6 0.15
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (31 bp):
AATATATAAAAATAATAAATACATTAAATAA
Found at i:8008747 original size:107 final size:105
Alignment explanation
Indices: 8008449--8008851 Score: 526
Period size: 104 Copynumber: 3.7 Consensus size: 105
8008439 GGAGAAAAAA
* *
8008449 GAAAAAGGAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA--ACAGTAA-TAA
1 GAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA--AATTAA
*
8008511 AAAAATTTTTGATTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
64 AAAAA---TT-CTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
** * *
8008557 GAAAAAAGTTAAAAAATTTATTTTTTTTTGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAA
1 GAAAAAAG-TAAAAAA---A--AATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA
*
8008622 TTAAAAAAAAATTCTTTTTTTTCGTGTCAGAATCAAATATCAGTATAC
60 TT--AAAAAAATTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
* * *
8008670 GAAAAAAGTAAAAAAAAATTTTGGTTGCTGGCCTATCAATGGCCGACACCCAGTACAAATTAAAA
1 GAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAA
8008735 AAATTC-TTTTTTTCGTGTCAGAATCAGATATCAGTATAC
66 AAATTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
*
8008774 GAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAA
1 GAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAA
*
8008839 AAAGTTATTTTTT
66 AAA-TTCTTTTTT
8008852 CGTATACTGA
Statistics
Matches: 261, Mismatches: 21, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
104 96 0.37
105 12 0.05
106 5 0.02
107 38 0.15
108 7 0.03
109 7 0.03
112 8 0.03
113 41 0.16
114 36 0.14
115 1 0.00
116 3 0.01
117 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (105 bp):
GAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAA
AAATTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATAC
Found at i:8008960 original size:102 final size:101
Alignment explanation
Indices: 8008846--8009044 Score: 346
Period size: 102 Copynumber: 2.0 Consensus size: 101
8008836 AAAAAAGTTA
*
8008846 TTTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAATTTAATTTGTACTGGGTGTCGGCC
1 TTTTTTCGTATACTGATATCTAATTCTAACACGAAAAAAAATTTAATTTGTACTGGGTGTCGGCC
8008911 ATTGACAGGCCAGC-ACCCAAAAAATTTTTTTTTTTAC
66 ATTGACAGGCCAGCTA-CC-AAAAATTTTTTTTTTTAC
*
8008948 TTTTTTCGTATACTGATATCTGATTCTAACACGAAAAAAAATTTAATTTGTACTGGGTGTCGGCC
1 TTTTTTCGTATACTGATATCTAATTCTAACACGAAAAAAAATTTAATTTGTACTGGGTGTCGGCC
*
8009013 ATTGACAGGCCAGCTACCTAAAATTTTTTTTT
66 ATTGACAGGCCAGCTACCAAAAATTTTTTTTT
8009045 CCTTTTTCTT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
101 13 0.14
102 79 0.85
103 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (101 bp):
TTTTTTCGTATACTGATATCTAATTCTAACACGAAAAAAAATTTAATTTGTACTGGGTGTCGGCC
ATTGACAGGCCAGCTACCAAAAATTTTTTTTTTTAC
Found at i:8010535 original size:31 final size:31
Alignment explanation
Indices: 8010495--8010561 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
8010485 AAAAACTTAG
* * *
8010495 TAGTCCAATGACTTAAGTAAAAACATTCTAA
1 TAGTTCAATGACTTAAATAAAAACATTCAAA
* *
8010526 TAGTTCAATGACTTAAATGAAAACTTTCAAA
1 TAGTTCAATGACTTAAATAAAAACATTCAAA
8010557 TAGTT
1 TAGTT
8010562 TACTGGTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (31 bp):
TAGTTCAATGACTTAAATAAAAACATTCAAA
Found at i:8011328 original size:6 final size:6
Alignment explanation
Indices: 8011318--8011347 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8011308 TCATATGGCA
*
8011318 GCATTA GCATTG GCATTG GCATTG GCATTG
1 GCATTG GCATTG GCATTG GCATTG GCATTG
8011348 ATATCTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (6 bp):
GCATTG
Found at i:8015273 original size:6 final size:6
Alignment explanation
Indices: 8015264--8015295 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8015254 CCAACCCCAA
8015264 AAAAAG AAAAA- AAAAAG -AAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
8015296 CAAGAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:8015278 original size:11 final size:11
Alignment explanation
Indices: 8015262--8015295 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8015252 CCCCAACCCC
8015262 AAAAAAAGAAA
1 AAAAAAAGAAA
8015273 AAAAAAAGAAA
1 AAAAAAAGAAA
*
8015284 AGAAAAAGAAA
1 AAAAAAAGAAA
8015295 A
1 A
8015296 CAAGAAAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:8018085 original size:21 final size:21
Alignment explanation
Indices: 8018059--8018113 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
8018049 AACAGCAGTG
*
8018059 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
8018080 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
8018101 GCGGTGAGATTAG
1 GCGGTGAGATTAG
8018114 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:8019036 original size:29 final size:30
Alignment explanation
Indices: 8018981--8019163 Score: 334
Period size: 30 Copynumber: 6.2 Consensus size: 30
8018971 ATAAACCGAG
*
8018981 TACAGTACATATATTTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAA
8019011 TACACTACATAT-TTTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAA
8019040 TACACTACATATATTTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAA
8019070 TACACTACATATA-TTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAA
*
8019099 TACACTACATATATTTCTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAA
8019129 TACACTACATATATTTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAA
8019159 TACAC
1 TACAC
8019164 AAATACAATG
Statistics
Matches: 148, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
29 58 0.39
30 90 0.61
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.52
Consensus pattern (30 bp):
TACACTACATATATTTTTTTATTTTTAAAA
Found at i:8019078 original size:59 final size:59
Alignment explanation
Indices: 8018981--8019163 Score: 330
Period size: 59 Copynumber: 3.1 Consensus size: 59
8018971 ATAAACCGAG
*
8018981 TACAGTACATATATTTTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAA
*
8019040 TACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAA
*
8019099 TACACTACATATATTTCTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAA
1 TACACTACATATATTTTTTTATTTTTAAAATACACTACATAT-TTTTTTTATTTTTAAAA
8019159 TACAC
1 TACAC
8019164 AAATACAATG
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 98 0.82
60 21 0.18
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.52
Consensus pattern (59 bp):
TACACTACATATATTTTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAAAA
Found at i:8019256 original size:43 final size:44
Alignment explanation
Indices: 8019209--8019300 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 44
8019199 TTTCCATCGA
8019209 TTCCCCTCTTCCACCGTGCCCTCATCCCATTTCCCA-TTCCCAC
1 TTCCCCTCTTCCACCGTGCCCTCATCCCATTTCCCATTTCCCAC
* *
8019252 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTTCCCAT
1 TTCCCCTCTTCCACCGTGCCCTCATCCCATTTCCCATTTCCCAC
8019296 TTCCC
1 TTCCC
8019301 ATTTCCATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 35 0.76
44 11 0.24
ACGTcount: A:0.10, C:0.53, G:0.04, T:0.33
Consensus pattern (44 bp):
TTCCCCTCTTCCACCGTGCCCTCATCCCATTTCCCATTTCCCAC
Found at i:8019314 original size:6 final size:7
Alignment explanation
Indices: 8019276--8019319 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
8019266 CGTGCCCTCC
8019276 TCCCATT
1 TCCCATT
8019283 TCCCATT
1 TCCCATT
8019290 TCCCATT
1 TCCCATT
8019297 TCCCATT
1 TCCCATT
8019304 T-CCA-T
1 TCCCATT
8019309 TCCCATT
1 TCCCATT
8019316 TCCC
1 TCCC
8019320 CTCTTCCACC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 2 0.06
6 6 0.17
7 27 0.77
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.41
Consensus pattern (7 bp):
TCCCATT
Found at i:8019369 original size:32 final size:30
Alignment explanation
Indices: 8019246--8019381 Score: 105
Period size: 30 Copynumber: 4.4 Consensus size: 30
8019236 CATTTCCCAT
* * *
8019246 TCCCACTTCCCCTCTTCCACCGTGCCCTCC
1 TCCCATTTCCCCTATTCCACCGTCCCCTCC
* ** *
8019276 TCCCATTTCCCAT-TTCC-CATTTCCCATTTCC
1 TCCCATTTCCCCTATTCCAC-CGTCCC--CTCC
* *
8019307 ATTCCCATTTCCCCTCTTCCACCGTGCCCTCC
1 --TCCCATTTCCCCTATTCCACCGTCCCCTCC
*
8019339 TCCCATTTCCCCTATTCCATCGATTCCCCTCC
1 TCCCATTTCCCCTATTCCACCG--TCCCCTCC
8019371 TCCCATTTCCC
1 TCCCATTTCCC
8019382 ATTCTCATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
28 1 0.01
29 7 0.08
30 31 0.37
31 3 0.04
32 21 0.25
33 12 0.14
34 7 0.08
35 1 0.01
ACGTcount: A:0.10, C:0.52, G:0.04, T:0.34
Consensus pattern (30 bp):
TCCCATTTCCCCTATTCCACCGTCCCCTCC
Found at i:8019392 original size:13 final size:13
Alignment explanation
Indices: 8019371--8019404 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
8019361 ATTCCCCTCC
8019371 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
8019384 TCTCATTTCCCAT
1 TCCCATTTCCCAT
8019397 TCCCATTT
1 TCCCATTT
8019405 ACGGTTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:8031043 original size:18 final size:18
Alignment explanation
Indices: 8031022--8031067 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8031012 AAGAATATAT
8031022 TTAATATTA-AGAATTTTA
1 TTAA-ATTATAGAATTTTA
* *
8031040 TTAAATTATATATTTTTA
1 TTAAATTATAGAATTTTA
8031058 TTAAATTATA
1 TTAAATTATA
8031068 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAAATTATAGAATTTTA
Found at i:8031053 original size:31 final size:30
Alignment explanation
Indices: 8031016--8031175 Score: 93
Period size: 31 Copynumber: 5.3 Consensus size: 30
8031006 TCATATAAGA
8031016 ATATATTTAATATTAAGAATTTTATTAAATT
1 ATATATTTAATATT-AGAATTTTATTAAATT
* * * *
8031047 ATATATTT-TTATTA-AATTATATTTAATA
1 ATATATTTAATATTAGAATTTTATTAAATT
* *
8031075 ATAATTATGTTAA-ATTA-TATTTTA-TAGTATT
1 AT-A-TAT-TTAATATTAGAATTTTATTA-AATT
* * *
8031106 ATATATTATGATTTTAGTAATTTAATATT-AA-G
1 ATATATT-TAATATTAG-AATTT--TATTAAATT
8031138 A-ATATTTAATATTAAGAATTTTATTAAATT
1 ATATATTTAATATT-AGAATTTTATTAAATT
8031168 ATATATTT
1 ATATATTT
8031176 TTATTAAATT
Statistics
Matches: 95, Mismatches: 18, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
28 18 0.19
29 9 0.09
30 23 0.24
31 36 0.38
32 5 0.05
33 1 0.01
34 2 0.02
35 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (30 bp):
ATATATTTAATATTAGAATTTTATTAAATT
Found at i:8031133 original size:22 final size:21
Alignment explanation
Indices: 8031084--8031135 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
8031074 AATAATTATG
*
8031084 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
8031104 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
8031127 TTAATATTA
1 TTAATATTA
8031136 AGAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:8031146 original size:16 final size:16
Alignment explanation
Indices: 8031125--8031160 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8031115 GATTTTAGTA
8031125 ATTTAATATTAAGAAT
1 ATTTAATATTAAGAAT
8031141 ATTTAATATTAAGAAT
1 ATTTAATATTAAGAAT
8031157 -TTTA
1 ATTTA
8031161 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTAATATTAAGAAT
Found at i:8031204 original size:121 final size:122
Alignment explanation
Indices: 8030917--8031209 Score: 536
Period size: 122 Copynumber: 2.4 Consensus size: 122
8030907 CAAACTTTAG
*
8030917 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
*
8030982 TTATATATTATGATTTTAGTAAATTCATATAAGAATATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATAAGAATATATTTAATATTAAGAATTTT
8031039 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
*
8031104 TTATATATTATGATTTTAGTAATTTAATATTAAG-A-ATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATA-TAAGAATATATTTAATATTAAGAATTTT
8031160 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
8031210 ATATGATTAA
Statistics
Matches: 167, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
121 71 0.43
122 92 0.55
123 4 0.02
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (122 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTAATATAAGAATATATTTAATATTAAGAATTTT
Found at i:8031282 original size:121 final size:116
Alignment explanation
Indices: 8030917--8031258 Score: 451
Period size: 122 Copynumber: 2.9 Consensus size: 116
8030907 CAAACTTTAG
*
8030917 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA-TATATTTTATAG-A
* *
8030982 TTATATATTATGATTTTAGTAAATTCATATAAGAATATATTTAATATTAAGAATTTT
64 TTATATATTATGATTTTAGT-AATTTAT-TAAGAAT-T-TATAATATTAAGAATTTT
8031039 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA-TATATTTTATAG-A
8031104 TTATATATTATGATTTTAGTAATTTAATATTAAGAATATT-TAATATTAAGAATTTT
64 TTATATATTATGATTTTAGTAA-TT--TATTAAGAAT-TTATAATATTAAGAATTTT
*
8031160 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA-ATATGATTA-A-AT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATATAT-TTTATAGAT
* * *
8031222 TATTTATTACTGATATTAATAATCTTATTAA-AATTTA
65 TATATATTA-TGATTTTAGTAAT-TTATTAAGAATTTA
8031259 ATAACAATAA
Statistics
Matches: 207, Mismatches: 6, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
114 2 0.01
115 3 0.01
116 6 0.03
117 11 0.05
118 11 0.05
119 5 0.02
120 3 0.01
121 68 0.33
122 87 0.42
123 9 0.04
124 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (116 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATATATTTTATAGATT
ATATATTATGATTTTAGTAATTTATTAAGAATTTATAATATTAAGAATTTT
Found at i:8031443 original size:16 final size:16
Alignment explanation
Indices: 8031422--8031454 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8031412 TTGATTTGCT
8031422 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
8031438 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
8031454 A
1 A
8031455 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:8040252 original size:8 final size:8
Alignment explanation
Indices: 8040239--8040268 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
8040229 TGCTTAAAAA
8040239 AAACATGC
1 AAACATGC
8040247 AAACATGC
1 AAACATGC
8040255 AAACATGC
1 AAACATGC
8040263 AAACAT
1 AAACAT
8040269 ATTAAGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.13
Consensus pattern (8 bp):
AAACATGC
Found at i:8040282 original size:23 final size:23
Alignment explanation
Indices: 8040254--8040303 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
8040244 TGCAAACATG
8040254 CAAACATGCAAACATATTAAGTT
1 CAAACATGCAAACATATTAAGTT
8040277 CAAACATGCAAACATATTAAGTT
1 CAAACATGCAAACATATTAAGTT
8040300 CAAA
1 CAAA
8040304 ATTTTACCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (23 bp):
CAAACATGCAAACATATTAAGTT
Found at i:8046840 original size:16 final size:16
Alignment explanation
Indices: 8046806--8046838 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8046796 TTTTGTAGAT
*
8046806 AATATTTTATTATATA
1 AATATATTATTATATA
8046822 AATATATTATT-TATA
1 AATATATTATTATATA
8046837 AA
1 AA
8046839 ATTGTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATATTATTATATA
Found at i:8048073 original size:16 final size:16
Alignment explanation
Indices: 8048052--8048093 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
8048042 AAGGTCACAC
*
8048052 TTTTTTTTTAAAT-AA
1 TTTTTTTATAAATAAA
8048067 TTTTTTTATAAATAAA
1 TTTTTTTATAAATAAA
8048083 TTTTTTGTATA
1 TTTTTT-TATA
8048094 GGGTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.50
16 8 0.33
17 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTTTTATAAATAAA
Found at i:8048712 original size:25 final size:25
Alignment explanation
Indices: 8048680--8048727 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8048670 AAATAATTTC
*
8048680 TAAAATTAAATAGAATACTTAATAA
1 TAAAATTAAATAGAATAATTAATAA
*
8048705 TAAAATTAAATATAATAATTAAT
1 TAAAATTAAATAGAATAATTAAT
8048728 TACATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAAATTAAATAGAATAATTAATAA
Found at i:8052765 original size:6 final size:6
Alignment explanation
Indices: 8052754--8052784 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8052744 AAGCCCTCAA
*
8052754 CCTGAC CCTGAC CCTGAC CCTCAC CCTGAC C
1 CCTGAC CCTGAC CCTGAC CCTGAC CCTGAC C
8052785 AGGTGCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.55, G:0.13, T:0.16
Consensus pattern (6 bp):
CCTGAC
Found at i:8052769 original size:12 final size:12
Alignment explanation
Indices: 8052747--8052784 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
8052737 CTCTTTCAAG
*
8052747 CCCTCAACCTGA
1 CCCTCACCCTGA
*
8052759 CCCTGACCCTGA
1 CCCTCACCCTGA
8052771 CCCTCACCCTGA
1 CCCTCACCCTGA
8052783 CC
1 CC
8052785 AGGTGCACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.55, G:0.11, T:0.16
Consensus pattern (12 bp):
CCCTCACCCTGA
Found at i:8053122 original size:9 final size:9
Alignment explanation
Indices: 8053106--8053137 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
8053096 GCCTCCACCA
8053106 CCACCGCTG
1 CCACCGCTG
*
8053115 CCATCGCTG
1 CCACCGCTG
8053124 CCACCGCTG
1 CCACCGCTG
8053133 CCACC
1 CCACC
8053138 ACCTCCGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.56, G:0.19, T:0.12
Consensus pattern (9 bp):
CCACCGCTG
Found at i:8059361 original size:12 final size:12
Alignment explanation
Indices: 8059344--8059373 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8059334 GGTTTCATGA
8059344 CCACACAGGTAG
1 CCACACAGGTAG
*
8059356 CCACACAGGTGG
1 CCACACAGGTAG
8059368 CCACAC
1 CCACAC
8059374 GGGCGGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
CCACACAGGTAG
Found at i:8059784 original size:20 final size:20
Alignment explanation
Indices: 8059748--8059785 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8059738 AGGTCACACA
*
8059748 GGCGTGTGCCCCTCCACATG
1 GGCGTGTGACCCTCCACATG
8059768 GGCGTGTTGACCC-CCACA
1 GGCGTG-TGACCCTCCACA
8059786 CGGCCTAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.13, C:0.39, G:0.29, T:0.18
Consensus pattern (20 bp):
GGCGTGTGACCCTCCACATG
Found at i:8065282 original size:13 final size:13
Alignment explanation
Indices: 8065264--8065289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8065254 ATGTTTCTTG
8065264 GATTATTATGTAA
1 GATTATTATGTAA
8065277 GATTATTATGTAA
1 GATTATTATGTAA
8065290 TAATCACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GATTATTATGTAA
Found at i:8065990 original size:9 final size:9
Alignment explanation
Indices: 8065978--8066011 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
8065968 TATCGAAATT
8065978 ATTAATATA
1 ATTAATATA
8065987 ATTAATATA
1 ATTAATATA
8065996 ATTAAT-TA
1 ATTAATATA
8066004 TATTAATA
1 -ATTAATA
8066012 CTTTTAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 21 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATATA
Found at i:8068602 original size:115 final size:114
Alignment explanation
Indices: 8068273--8068814 Score: 845
Period size: 114 Copynumber: 4.8 Consensus size: 114
8068263 AAAATAAGCA
* * * * * * **
8068273 TTAGCGACGTTTCTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAGCGACGTCGTTTCCCAAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
8068337 TCGGGGGTTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * *
8068386 TTAGCGGCGTTTTTGGAAAAGCGCTGCAAAAAAACCTAAGCCCAACGACGTCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
8068451 TCGGGGATTTAGCGGCATTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
8068500 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGAACGCCGTTTTCTAAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACG-ACGCCGTTTTCTGAGCT
*
8068565 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGTGCT
65 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
8068615 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGGCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
8068680 TCAGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCT
66 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
8068729 TTAGCGGCGTTTTTGGG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
8068793 TCGGGGATTTAGCGGCGTTTTT
66 TCGGGGATTTAGCGGCATTTTT
8068815 GGAAAAGTGC
Statistics
Matches: 395, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
113 88 0.22
114 201 0.51
115 106 0.27
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:8068732 original size:229 final size:228
Alignment explanation
Indices: 8068273--8068814 Score: 858
Period size: 229 Copynumber: 2.4 Consensus size: 228
8068263 AAAATAAGCA
* * * * * *
8068273 TTAGCGACGTTTCTGAGAAAGCGCCGC-AAAAAACCTAAG-CCCAGCGACGTCGTTTCCCAAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCCA-CGACGCCGTTTTCTAAGCT
* *
8068336 TTCGGGGGTTTAGCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * *
8068401 GAAAAGCGCTGCAAAAAAACCTAAGCCCAACGACGTCGTTTTTTGAGCTTTCGGGGATTTAGCGG
130 GAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGG
*
8068466 CATTTATAAGAAAGCGCCGCTAATGCTCAGGGCT
195 CATTTATAAGAAAGCGCCGCTAATGCTCAAGGCT
8068500 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGAACGCCGTTTTCTAAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACG-ACGCCGTTTTCTAAGCT
* *
8068565 TTCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGTGCTTTAGCGGCGTTTTT-
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
*
8068629 GAGAAAGCGCCGCAAAAAAACCTAAGGCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCG
130 GA-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCG
*
8068694 GCATTTTTAAGAAAGCGCCGCTAATGCTCAAGGCT
194 GCATTTATAAGAAAGCGCCGCTAATGCTCAAGGCT
* *
8068729 TTAGCGGCGTTTTTGGG-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGACGCCGTTTTCTAAGCTT
8068793 TCGGGGATTTAGCGGCGTTTTT
66 TCGGGGATTTAGCGGCGTTTTT
8068815 GGAAAAGTGC
Statistics
Matches: 291, Mismatches: 20, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
227 62 0.21
228 44 0.15
229 185 0.64
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (228 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCCACGACGCCGTTTTCTAAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG
AAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGGC
ATTTATAAGAAAGCGCCGCTAATGCTCAAGGCT
Done.