Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 15 of 226
Found at i:7007351 original size:21 final size:22
Alignment explanation
Indices: 7007290--7007369 Score: 90
Period size: 26 Copynumber: 3.5 Consensus size: 22
7007280 TTATTATTTA
*
7007290 TATATTTTATAGTTTTATGATTT
1 TATATTTTATAGTTTTAT-AATT
*
7007313 TATATTTTATTAGTTAGTTTTATATT
1 TATATTTTA-TAGTT--TTATA-ATT
7007339 TATATTTTATAGTTTTATAATT
1 TATATTTTATAGTTTTATAATT
7007361 T-TATTTTAT
1 TATATTTTAT
7007370 TTAATAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 8 0.16
22 4 0.08
23 13 0.26
24 5 0.10
25 6 0.12
26 14 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (22 bp):
TATATTTTATAGTTTTATAATT
Found at i:7007781 original size:30 final size:32
Alignment explanation
Indices: 7007730--7007792 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
7007720 AAATATACAT
*
7007730 ATTATCAAAACATTAAAAAAATTATAATTATA
1 ATTATCAAAAAATTAAAAAAATTATAATTATA
*
7007762 ATTAT-AAAAAATT-AAAAAATTGTAATTATA
1 ATTATCAAAAAATTAAAAAAATTATAATTATA
7007792 A
1 A
7007793 AAATAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 17 0.59
31 7 0.24
32 5 0.17
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (32 bp):
ATTATCAAAAAATTAAAAAAATTATAATTATA
Found at i:7007799 original size:30 final size:31
Alignment explanation
Indices: 7007736--7007800 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
7007726 ACATATTATC
* **
7007736 AAAACATTAAAAAAATTATAATTATAATTAT
1 AAAAAATTAAAAAAATTATAATTATAAAAAT
*
7007767 AAAAAATT-AAAAAATTGTAATTATAAAAAT
1 AAAAAATTAAAAAAATTATAATTATAAAAAT
7007797 AAAA
1 AAAA
7007801 CAACTCAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (31 bp):
AAAAAATTAAAAAAATTATAATTATAAAAAT
Found at i:7007852 original size:27 final size:27
Alignment explanation
Indices: 7007817--7007872 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
7007807 AACCATTTTT
7007817 TATAAAATA-AAATA-AAATTATGAAAAC
1 TATAAAATATAAATATAAA-TAT-AAAAC
7007844 TATAAAATATAAATATAAATATAAAAC
1 TATAAAATATAAATATAAATATAAAAC
7007871 TA
1 TA
7007873 ACTAATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 16 0.59
28 8 0.30
29 3 0.11
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
TATAAAATATAAATATAAATATAAAAC
Found at i:7007921 original size:19 final size:19
Alignment explanation
Indices: 7007885--7007920 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7007875 TAATAAAGTA
*
7007885 TAAAAACATATTATAAAAC
1 TAAAAAAATATTATAAAAC
7007904 TAAAAAAATA-TATAAAA
1 TAAAAAAATATTATAAAA
7007921 AAAAGAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAAAAAATATTATAAAAC
Found at i:7010645 original size:246 final size:242
Alignment explanation
Indices: 7010213--7010657 Score: 565
Period size: 246 Copynumber: 1.8 Consensus size: 242
7010203 TTTGAGATAG
* *
7010213 TGTGATAAGATGAGGTTGCTTTTCTCAACTTATAATGATCCCCTAACCTTTTAACCTGAATTCTT
1 TGTGATAAGATGAGGTTGCTTTCCTCAACTTATAATGATCCCCTAACCTGTTAACCTGAATTCTT
* * * *
7010278 TTATCCATTATTGTTAGATCTGCTAGAGACATGTTTTCTTTTTTTTTTGTCCCTGCATTCTTTTC
66 TTATCCATTATTGTTAGATCTGCTAGAGACAAGTTTCCTTTTTTTTTTATCCCTACATTCTTTTC
* * * * * *
7010343 TTTTTTTTATTACACCTTTTATCTTATTAAAAATGGAAAAGCAAACTTACTTCAAGCTCTGAGCT
131 TTTTTTTGATTA-ACCTTCTATCTTAATAAAAATGCAAAAGAAAACATACTTCAAGCTCTGAGCT
7010408 ATAAGAGGAATATTCGTAAGGATACTTTATCATTCTAATTGTGGTCAT
195 ATAAGAGGAATATTCGTAAGGATACTTTATCATTCTAATTGTGGTCAT
* * * * *
7010456 TGTGATAAGATGAGGTTGGTTTCCTCCAGTTATAAATGAT-CCCTCCACCTGTTAGCCCT-AATT
1 TGTGATAAGATGAGGTTGCTTTCCTCAACTTAT-AATGATCCCCT-AACCTGTTA-ACCTGAA-T
* * * *
7010519 TCTTTTTCTCCATTATTGTTAGATCTGCTTGTGACAAGCTGTTCCTTTTTTCTTTTATCCCTACG
62 TC-TTTTATCCATTATTGTTAGATCTGCTAGAGACAAG-T-TTCCTTTTTT-TTTTATCCCTACA
* * *
7010584 TTCTTTTC-TTTTTTGCTT-ATCTTCTATCTTAATAAAAATGCAAAAGAAAACATAGTTCAAGCT
123 TTCTTTTCTTTTTTTGATTAACCTTCTATCTTAATAAAAATGCAAAAGAAAACATACTTCAAGCT
7010647 CTGAGCTATAA
188 CTGAGCTATAA
7010658 TTTGATAAAT
Statistics
Matches: 170, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
243 33 0.19
244 15 0.09
245 6 0.04
246 80 0.47
247 1 0.01
248 17 0.10
249 18 0.11
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (242 bp):
TGTGATAAGATGAGGTTGCTTTCCTCAACTTATAATGATCCCCTAACCTGTTAACCTGAATTCTT
TTATCCATTATTGTTAGATCTGCTAGAGACAAGTTTCCTTTTTTTTTTATCCCTACATTCTTTTC
TTTTTTTGATTAACCTTCTATCTTAATAAAAATGCAAAAGAAAACATACTTCAAGCTCTGAGCTA
TAAGAGGAATATTCGTAAGGATACTTTATCATTCTAATTGTGGTCAT
Found at i:7014024 original size:112 final size:111
Alignment explanation
Indices: 7013821--7014044 Score: 358
Period size: 112 Copynumber: 2.0 Consensus size: 111
7013811 AATTCTAAGA
7013821 TCATTTGAATTTATCATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
1 TCATTTGAATTTATCATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
7013886 TCATCAAATCATGATTGCAGCCAAAATGTCACTATATTTAGTAAAT
66 TCATCAAATCATGATTGCAGCCAAAATGTCACTATATTTAGTAAAT
* * * *
7013932 TCATTTGCATTTATCCTTGTGAGCACAGCTTTGATCTTTGTAGTTTATTTATTTTTCATCCTACC
1 TCATTTGAATTTATCATTGTGAGCAAAGCTTTGATCTTT-TAGTTTATTTATTTGTCATCCTACC
* * ** *
7013997 ATCATCAAATCTTGATTGTAGTTAAAATTTCACTATATTTAGTAAAT
65 ATCATCAAATCATGATTGCAGCCAAAATGTCACTATATTTAGTAAAT
7014044 T
1 T
7014045 AAAATTTTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
111 36 0.35
112 67 0.65
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (111 bp):
TCATTTGAATTTATCATTGTGAGCAAAGCTTTGATCTTTTAGTTTATTTATTTGTCATCCTACCA
TCATCAAATCATGATTGCAGCCAAAATGTCACTATATTTAGTAAAT
Found at i:7022158 original size:21 final size:21
Alignment explanation
Indices: 7022132--7022201 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
7022122 AATAAATACC
7022132 AAAAAATTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
*
7022153 AAAAAATTATTTTAAAAATATTT
1 AAAAAATTATTTT-AAAA-ATTA
* *
7022176 TAAAAA-TATTTTAAAATTTA
1 AAAAAATTATTTTAAAAATTA
7022196 AAAAAA
1 AAAAAA
7022202 ATTAAAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.17
21 17 0.40
22 10 0.24
23 8 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:7022209 original size:29 final size:28
Alignment explanation
Indices: 7022177--7022271 Score: 122
Period size: 29 Copynumber: 3.4 Consensus size: 28
7022167 AAAATATTTT
7022177 AAAAATATTTTAAAATTTAAAAAAAATTA
1 AAAAATATTTTAAAA-TTAAAAAAAATTA
* * *
7022206 AAAAGTATTTTAAAATTAAAAAATTATAA
1 AAAAATATTTTAAAATTAAAAAA-AATTA
7022235 AAAAAGTATTTTAAAATT-AAAAAAATT-
1 AAAAA-TATTTTAAAATTAAAAAAAATTA
7022262 AAAAATATTT
1 AAAAATATTT
7022272 ATTATATCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.09
27 5 0.09
28 10 0.17
29 26 0.45
30 12 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAAATATTTTAAAATTAAAAAAAATTA
Found at i:7022220 original size:11 final size:11
Alignment explanation
Indices: 7022133--7022191 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
7022123 ATAAATACCA
7022133 AAAAATTATTTT
1 AAAAA-TATTTT
**
7022145 -AAAA-ATTAA
1 AAAAATATTTT
7022154 AAAAATTATTTT
1 AAAAA-TATTTT
7022166 AAAAATATTTT
1 AAAAATATTTT
7022177 AAAAATATTTT
1 AAAAATATTTT
7022188 AAAA
1 AAAA
7022192 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 3 0.08
10 4 0.10
11 25 0.62
12 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:7022241 original size:30 final size:29
Alignment explanation
Indices: 7022177--7022266 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 29
7022167 AAAATATTTT
* *
7022177 AAAAA-TATTTTAAAATTTAAAAAAAAT-T
1 AAAAAGTATTTTAAAA-TTAAAAAATATAA
7022205 AAAAAGTATTTTAAAATTAAAAAATTATAA
1 AAAAAGTATTTTAAAATTAAAAAA-TATAA
*
7022235 AAAAAGTATTTTAAAATTAAAAAA-ATTA
1 AAAAAGTATTTTAAAATTAAAAAATATAA
7022263 AAAA
1 AAAA
7022267 TATTTATTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 20 0.36
29 12 0.21
30 24 0.43
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
AAAAAGTATTTTAAAATTAAAAAATATAA
Found at i:7024825 original size:37 final size:37
Alignment explanation
Indices: 7024768--7024862 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
7024758 TATGATCACT
*
7024768 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
7024803 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
7024840 TATCACTTTGTCTCTTGATCAGA
1 TATCACTTTGTCTCTTGATCAGA
7024863 AGTACTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 6 0.11
36 4 0.07
37 44 0.81
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:7031166 original size:25 final size:25
Alignment explanation
Indices: 7031129--7031192 Score: 65
Period size: 28 Copynumber: 2.4 Consensus size: 25
7031119 TTTAAAATAC
* *
7031129 TTTTAAAATAAATTTTTTATATTTTTTA
1 TTTTAAAA-ATATTTTTTA-A-TGTTTA
*
7031157 TTTTTAAAATAATTTTTTAATGTTTA
1 TTTTAAAAAT-ATTTTTTAATGTTTA
7031183 TTTTAAAAAT
1 TTTTAAAAAT
7031193 GGGCCGGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 14 0.45
27 2 0.06
28 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTAAAAATATTTTTTAATGTTTA
Found at i:7031171 original size:28 final size:27
Alignment explanation
Indices: 7031129--7031192 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 27
7031119 TTTAAAATAC
*
7031129 TTTTAAAATAAATTTTTTATATTTTTTAT
1 TTTTAAAATAAATTTTTTA-A-TGTTTAT
7031158 TTTTAAAAT-AATTTTTTAATGTTTAT
1 TTTTAAAATAAATTTTTTAATGTTTAT
*
7031184 TTTAAAAAT
1 TTTTAAAAT
7031193 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 14 0.42
27 1 0.03
28 9 0.27
29 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTAAAATAAATTTTTTAATGTTTAT
Found at i:7031210 original size:15 final size:15
Alignment explanation
Indices: 7031192--7031222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7031182 ATTTTAAAAA
*
7031192 TGGGCCGGGCCGGGC
1 TGGGCCGGGCCAGGC
7031207 TGGGCCGGGCCAGGC
1 TGGGCCGGGCCAGGC
7031222 T
1 T
7031223 TATGATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.32, G:0.55, T:0.10
Consensus pattern (15 bp):
TGGGCCGGGCCAGGC
Found at i:7036061 original size:46 final size:46
Alignment explanation
Indices: 7035991--7036078 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
7035981 GACAGTCGGC
* * *
7035991 CACGGTTCAATGGGAAATTGTATTTTTAATCGTAAAATGGATTCGT
1 CACGGTTCAATGGGAAATTATATTTTAAACCGTAAAATGGATTCGT
* *
7036037 CACGGTTCAAT-GGAAGGTTATATTTTAAACCTTAAAATGGAT
1 CACGGTTCAATGGGAA-ATTATATTTTAAACCGTAAAATGGAT
7036079 CAATAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 4 0.11
46 32 0.89
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (46 bp):
CACGGTTCAATGGGAAATTATATTTTAAACCGTAAAATGGATTCGT
Found at i:7053919 original size:12 final size:12
Alignment explanation
Indices: 7053902--7053926 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7053892 GCAGTAGCCC
7053902 CAGTACCAGCAG
1 CAGTACCAGCAG
7053914 CAGTACCAGCAG
1 CAGTACCAGCAG
7053926 C
1 C
7053927 GATAGTGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CAGTACCAGCAG
Found at i:7074297 original size:20 final size:20
Alignment explanation
Indices: 7074254--7074297 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
7074244 AAATCCCTTC
* * * *
7074254 AAAGTAAATTCCTTGGATTG
1 AAAGGAAATTCCTTGAAATA
7074274 AAAGGAAATTCCTTGAAATA
1 AAAGGAAATTCCTTGAAATA
7074294 AAAG
1 AAAG
7074298 ATTAAGAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (20 bp):
AAAGGAAATTCCTTGAAATA
Found at i:7074341 original size:3 final size:3
Alignment explanation
Indices: 7074333--7074402 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
7074323 AGTTTAGTTT
7074333 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7074381 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
7074403 AAGACATCAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7080274 original size:46 final size:44
Alignment explanation
Indices: 7080173--7080533 Score: 353
Period size: 46 Copynumber: 8.6 Consensus size: 44
7080163 TACGTATGAT
*
7080173 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-GCTAC
7080216 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
* *
7080262 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
* *
7080308 CACTTATCACTTTCTCACTTGATTAGATAA--GTA-C-A---A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
7080344 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
7080380 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
7080426 TACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-TAG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
7080462 CACTTATCACTTT-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
7080507 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
7080534 AGTACTCAAA
Statistics
Matches: 280, Mismatches: 12, Indels: 49
0.82 0.04 0.14
Matches are distributed among these distances:
35 15 0.05
36 74 0.26
37 3 0.01
38 4 0.01
39 1 0.00
40 3 0.01
41 3 0.01
42 3 0.01
43 12 0.04
44 10 0.04
45 33 0.12
46 119 0.43
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (44 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:7080347 original size:36 final size:36
Alignment explanation
Indices: 7080306--7080492 Score: 196
Period size: 36 Copynumber: 4.9 Consensus size: 36
7080296 AGCTAAGGCT
* *
7080306 AACACTTATCACTTTCTCACTTGATTAGATAAGTAC
1 AACACTTATCACTTTTTCACTTGATCAGATAAGTAC
*
7080342 AACACTTATCACTTTTTCACTTGATCAGATAAGTAT
1 AACACTTATCACTTTTTCACTTGATCAGATAAGTAC
*
7080378 AGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGC
1 AACACTTATCACTTTTTCACTTGATCAGATAA--GTA-C
* * **
7080417 TAAAGCTACTACTTATCACTTTGTCTCTTGATCAGATAAGTGT
1 ---A---AC-ACTTATCACTTTTTCACTTGATCAGATAAGTAC
*
7080460 AGCACTTATCAC-TTTTCACTTGATCAGATAAGT
1 AACACTTATCACTTTTTCACTTGATCAGATAAGT
7080493 GTAGCTAAAG
Statistics
Matches: 128, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
35 19 0.15
36 73 0.57
37 1 0.01
38 3 0.02
40 1 0.01
42 1 0.01
44 2 0.02
45 1 0.01
46 27 0.21
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (36 bp):
AACACTTATCACTTTTTCACTTGATCAGATAAGTAC
Found at i:7080431 original size:82 final size:82
Alignment explanation
Indices: 7080216--7080533 Score: 371
Period size: 82 Copynumber: 3.9 Consensus size: 82
7080206 GCTAGGCTAC
* * *
7080216 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
*
7080281 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* * ** ** * *
7080298 CTAAGGC-TAACAC-TTATCACTTTCTCACTTGA-T-TAGAT-AAG-TACAACACTTATCACTTT
1 C--A--CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC--CACTTATCACTTT
*
7080357 TTCACTTGATCAGATAAGTATAG
60 ATCACTTGATCAGATAAGTATAG
* * *
7080380 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
*
7080445 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
*
7080462 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
7080526 TGATCAGA
66 TGATCAGA
7080534 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 25, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.03
80 17 0.09
81 63 0.32
82 86 0.43
83 4 0.02
84 17 0.09
85 5 0.03
86 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:7080470 original size:118 final size:117
Alignment explanation
Indices: 7080262--7080497 Score: 366
Period size: 118 Copynumber: 2.0 Consensus size: 117
7080252 CTAAGGCTAC
*
7080262 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTCTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTCTCACT
*
7080327 TGATTAGATAAGTACAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTACAACACTTATCAC-TTTTCACTTGATCAGATAAGTATAG
* * *
7080380 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCT-ACTACTTATCACTTTGTCTC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC-ACTTATCACTTTCTCAC
** * *
7080444 TTGATCAGATAAGTGTAGCACTTATCACTTTTCACTTGATCAGATAAGTGTAG
65 TTGATCAGATAAGTACAACACTTATCACTTTTCACTTGATCAGATAAGTATAG
7080497 C
1 C
7080498 TAAAGCTACC
Statistics
Matches: 108, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
117 27 0.25
118 81 0.75
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (117 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTCTCACT
TGATCAGATAAGTACAACACTTATCACTTTTCACTTGATCAGATAAGTATAG
Found at i:7080489 original size:35 final size:36
Alignment explanation
Indices: 7080427--7080497 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
7080417 TAAAGCTACT
*
7080427 ACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7080463 ACTTATCACTTT-TCACTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7080498 TAAAGCTACC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (36 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
Found at i:7085904 original size:2 final size:2
Alignment explanation
Indices: 7085892--7085935 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
7085882 AATTATTAAA
* *
7085892 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7085934 AT
1 AT
7085936 CAATATAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7086027 original size:21 final size:19
Alignment explanation
Indices: 7085993--7086038 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
7085983 TTATATAAAC
7085993 TTAT-AAAAAGATTAAAAGA
1 TTATAAAAAAGATTAAAA-A
7086012 TTATAAAAAAGTATTAAAAA
1 TTATAAAAAAG-ATTAAAAA
7086032 -TATAAAA
1 TTATAAAA
7086039 TTCTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.44
20 7 0.28
21 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
TTATAAAAAAGATTAAAAA
Found at i:7086104 original size:30 final size:31
Alignment explanation
Indices: 7086052--7086128 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
7086042 TAATATATTA
*
7086052 TAAAATAATTTATATAA-TTTATAAAA-CATAT
1 TAAAATTATTTA-A-AATTTTATAAAAGCATAT
7086083 TCAAAA-TATTTAAAATTTTATAAAAGCATAT
1 T-AAAATTATTTAAAATTTTATAAAAGCATAT
*
7086114 TAAAATTCTTTAAAA
1 TAAAATTATTTAAAA
7086129 ATCATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 2 0.05
30 14 0.35
31 20 0.50
32 4 0.10
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.40
Consensus pattern (31 bp):
TAAAATTATTTAAAATTTTATAAAAGCATAT
Found at i:7086134 original size:22 final size:21
Alignment explanation
Indices: 7086085--7086134 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
7086075 AAACATATTC
7086085 AAAAT-AT-TTAAAATTTTAT
1 AAAATCATATTAAAATTTTAT
*
7086104 AAAAGCATATTAAAATTCTT-T
1 AAAATCATATTAAAATT-TTAT
7086125 AAAAATCATA
1 -AAAATCATA
7086135 AAATACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 2 0.08
21 9 0.36
22 10 0.40
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATCATATTAAAATTTTAT
Found at i:7088061 original size:2 final size:2
Alignment explanation
Indices: 7088054--7088089 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7088044 AGACTCTCAT
7088054 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7088090 TATATATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7100109 original size:20 final size:20
Alignment explanation
Indices: 7100081--7100121 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7100071 ATTAGGTGAT
* *
7100081 TAAATGACTTAATTAATAAA
1 TAAAGGACTTAAATAATAAA
7100101 TAAAGGACTTAAATAATAAA
1 TAAAGGACTTAAATAATAAA
7100121 T
1 T
7100122 GTACCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
TAAAGGACTTAAATAATAAA
Found at i:7100984 original size:17 final size:17
Alignment explanation
Indices: 7100949--7100985 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7100939 ATATATGTTC
*
7100949 TATTGTTGGAATTAAAT
1 TATTGTTGGAAATAAAT
*
7100966 TATTGTTGGAAATATAT
1 TATTGTTGGAAATAAAT
7100983 TAT
1 TAT
7100986 CGAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAAATAAAT
Found at i:7101166 original size:19 final size:21
Alignment explanation
Indices: 7101129--7101172 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
7101119 TTTTACTTTT
7101129 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
7101150 TGTTCAGCT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
7101169 TGTT
1 TGTT
7101173 GGTGTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 12 0.52
20 2 0.09
21 9 0.39
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.43
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:7101412 original size:18 final size:17
Alignment explanation
Indices: 7101391--7101434 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7101381 ATGATGGTAC
*
7101391 ATGATATATTGATATGTA
1 ATGATATATTGAAATG-A
*
7101409 ATGATATATTGAAATGG
1 ATGATATATTGAAATGA
7101426 ATGATATAT
1 ATGATATAT
7101435 GTATATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (17 bp):
ATGATATATTGAAATGA
Found at i:7109280 original size:105 final size:105
Alignment explanation
Indices: 7109098--7109291 Score: 266
Period size: 105 Copynumber: 1.8 Consensus size: 105
7109088 AATGTTTAAA
*** **
7109098 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
1 TGTAAGACCATAGCCCAGCTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
**
7109163 ACGTAAGACCATGGTTGGACCATGGCAGTATAAATACATC
66 ACGTAAGACCATGGCAGGACCATGGCAGTATAAATACATC
* *
7109203 TGTAAGACCATAGCCCAGCTATGGCATTTTGATGATAAGACCATAACTAGGG-TATGACA-CTAC
1 TGTAAGACCATAGCCCAGCTATGGCATTTTAATGAAAAGACCATAACT-GGGTTATGACACCT-C
*
7109266 AAATGTAAGACCATGGCAGGACCATG
64 AAACGTAAGACCATGGCAGGACCATG
7109292 CCAATACATG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
104 2 0.03
105 72 0.94
106 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (105 bp):
TGTAAGACCATAGCCCAGCTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
ACGTAAGACCATGGCAGGACCATGGCAGTATAAATACATC
Found at i:7109953 original size:19 final size:19
Alignment explanation
Indices: 7109929--7109968 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7109919 AGTATAGGTT
7109929 AATGTCAAAATGAGTGAGA
1 AATGTCAAAATGAGTGAGA
7109948 AATGTCAAAATGAGTGAGA
1 AATGTCAAAATGAGTGAGA
7109967 AA
1 AA
7109969 AGTGGCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.25, T:0.20
Consensus pattern (19 bp):
AATGTCAAAATGAGTGAGA
Found at i:7110906 original size:22 final size:22
Alignment explanation
Indices: 7110879--7110920 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7110869 CTGTTTTAGA
*
7110879 AATAATATTAATTTTAATATAT
1 AATAATATTAATATTAATATAT
*
7110901 AATAATATTTATATTAATAT
1 AATAATATTAATATTAATAT
7110921 TTTTCTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAATATTAATATTAATATAT
Found at i:7112313 original size:4 final size:4
Alignment explanation
Indices: 7112304--7112457 Score: 308
Period size: 4 Copynumber: 38.5 Consensus size: 4
7112294 ATAATTCAAT
7112304 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
7112352 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
7112400 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
7112448 TACA TACA TA
1 TACA TACA TA
7112458 TAACACTCAT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 150 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:7113044 original size:21 final size:21
Alignment explanation
Indices: 7113014--7113084 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
7113004 CTGAACAGAA
* *
7113014 GAACAAAAGCTCGAAAGAGCT
1 GAACAAAAGCTCGTAAGAGTT
*
7113035 GAACAGAAGCTCGTAAGAGTT
1 GAACAAAAGCTCGTAAGAGTT
7113056 GAACAAAAGCTCGTAAGAGTT
1 GAACAAAAGCTCGTAAGAGTT
7113077 GAACAAAA
1 GAACAAAA
7113085 ACTCATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.14
Consensus pattern (21 bp):
GAACAAAAGCTCGTAAGAGTT
Found at i:7119556 original size:21 final size:21
Alignment explanation
Indices: 7119532--7119600 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
7119522 ACATACAAGA
7119532 AATTATGAAAGAGAGAAGCAG
1 AATTATGAAAGAGAGAAGCAG
* * **
7119553 AATTATCAGCAG-GTCAAG-AG
1 AATTATGA-AAGAGAGAAGCAG
7119573 AAATTATGAAAGAGAGAAGCAG
1 -AATTATGAAAGAGAGAAGCAG
7119595 AATTAT
1 AATTAT
7119601 CAGCAGGTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 28 0.78
22 4 0.11
ACGTcount: A:0.49, C:0.07, G:0.25, T:0.19
Consensus pattern (21 bp):
AATTATGAAAGAGAGAAGCAG
Found at i:7119576 original size:42 final size:42
Alignment explanation
Indices: 7119529--7119615 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
7119519 ATAACATACA
7119529 AGAAATTATGAAAGAGAGAAGCAGAATTATCAGCAGGTCAAG
1 AGAAATTATGAAAGAGAGAAGCAGAATTATCAGCAGGTCAAG
7119571 AGAAATTATGAAAGAGAGAAGCAGAATTATCAGCAGGTCAAG
1 AGAAATTATGAAAGAGAGAAGCAGAATTATCAGCAGGTCAAG
7119613 AGA
1 AGA
7119616 TTAGCCCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.48, C:0.09, G:0.26, T:0.16
Consensus pattern (42 bp):
AGAAATTATGAAAGAGAGAAGCAGAATTATCAGCAGGTCAAG
Found at i:7125800 original size:24 final size:21
Alignment explanation
Indices: 7125773--7125825 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 21
7125763 TACAAACAAC
7125773 AATATAATAACAAGTATTCTATAA
1 AATATAATAA-AA-TATTCTA-AA
*
7125797 AATATAATAAAATATTTTAAA
1 AATATAATAAAATATTCTAAA
7125818 AATA-AATA
1 AATATAATA
7125826 TATAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 6 0.21
23 2 0.07
24 10 0.36
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
AATATAATAAAATATTCTAAA
Found at i:7125968 original size:23 final size:24
Alignment explanation
Indices: 7125919--7125971 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
7125909 CATTAACATG
* *
7125919 AAAAAAATGTTACCTAACTACTTTT
1 AAAAAAACGTTACCTAACTA-TCTT
*
7125944 AAAAAAACGTTATCTAACT-TCTT
1 AAAAAAACGTTACCTAACTATCTT
7125967 AAAAA
1 AAAAA
7125972 GGAAATTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
25 17 0.68
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAAAACGTTACCTAACTATCTT
Found at i:7131208 original size:2 final size:2
Alignment explanation
Indices: 7131203--7131231 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7131193 GTGTGTGTGT
7131203 GA GA GA GA GA GA GA GA GA GA GA -A GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7131232 CCTGCTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7133494 original size:3 final size:3
Alignment explanation
Indices: 7133486--7133542 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
7133476 CTCTCGCTCC
* *
7133486 TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7133534 TAA TAA TAA
1 TAA TAA TAA
7133543 AGAAAAGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7138516 original size:86 final size:86
Alignment explanation
Indices: 7138367--7138539 Score: 301
Period size: 86 Copynumber: 2.0 Consensus size: 86
7138357 GGATTGTTCA
* * * *
7138367 ACTGTACCAAGTTTAGTGAGTTCACTAGTTATGTAGATGTCATATTGTGATATGCGGTGTGCTCA
1 ACTGTACCAAGTTTAGTGAGTTCACTAATTATGTAGATGCCATATTGTGATATGAGGTATGCTCA
7138432 TGGTATGACCCTGCATATAGC
66 TGGTATGACCCTGCATATAGC
7138453 ACTGTACCAAGTTTAGTGAGTTCACTAATTATGTAGATGCCATATTGTGATATGAGGTATGCTCA
1 ACTGTACCAAGTTTAGTGAGTTCACTAATTATGTAGATGCCATATTGTGATATGAGGTATGCTCA
*
7138518 TGGTATGACGCTGCATATAGC
66 TGGTATGACCCTGCATATAGC
7138539 A
1 A
7138540 GGAACCTAGT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (86 bp):
ACTGTACCAAGTTTAGTGAGTTCACTAATTATGTAGATGCCATATTGTGATATGAGGTATGCTCA
TGGTATGACCCTGCATATAGC
Found at i:7148135 original size:31 final size:31
Alignment explanation
Indices: 7148100--7148163 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
7148090 CATTCTTTAC
7148100 AAAATCGAGACTCTGGTAGATTTCTATGACT
1 AAAATCGAGACTCTGGTAGATTTCTATGACT
7148131 AAAATCGAGACTCTGGTAGATTTCTATGACT
1 AAAATCGAGACTCTGGTAGATTTCTATGACT
7148162 AA
1 AA
7148164 CTTTCCTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (31 bp):
AAAATCGAGACTCTGGTAGATTTCTATGACT
Found at i:7154043 original size:7 final size:7
Alignment explanation
Indices: 7154026--7154054 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7154016 ACATGGCTGG
7154026 AAAAT-A
1 AAAATAA
7154032 AAAATAA
1 AAAATAA
7154039 AAAATAA
1 AAAATAA
7154046 AAAATAA
1 AAAATAA
7154053 AA
1 AA
7154055 GCGCAAGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:7155989 original size:12 final size:12
Alignment explanation
Indices: 7155969--7156009 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
7155959 TTTAAGTTTG
*
7155969 ATTTAATATTCA
1 ATTTGATATTCA
7155981 ATTTGATATTCA
1 ATTTGATATTCA
7155993 ATTT--T-TTCA
1 ATTTGATATTCA
7156002 ATTTGATA
1 ATTTGATA
7156010 CTTGAGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 8 0.32
10 1 0.04
11 1 0.04
12 15 0.60
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (12 bp):
ATTTGATATTCA
Found at i:7165917 original size:20 final size:19
Alignment explanation
Indices: 7165873--7165922 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
7165863 TCATATTAAT
*
7165873 TTTTTATTTTAAAAATTTA
1 TTTTTATTTTAAAAATTGA
**
7165892 GATTTATTTTAATAAATTGA
1 TTTTTATTTTAA-AAATTGA
7165912 TTTTTATTTTA
1 TTTTTATTTTA
7165923 TAACTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTTATTTTAAAAATTGA
Found at i:7166511 original size:20 final size:20
Alignment explanation
Indices: 7166486--7166526 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7166476 TTCAAAATTT
*
7166486 ATATTTTAAAAAAATTATAA
1 ATATTTCAAAAAAATTATAA
*
7166506 ATATTTCAAAAAAATTCTAA
1 ATATTTCAAAAAAATTATAA
7166526 A
1 A
7166527 AATATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATTTCAAAAAAATTATAA
Found at i:7178202 original size:17 final size:16
Alignment explanation
Indices: 7178180--7178222 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
7178170 ACATTACTAA
7178180 TATAAAATTTTATAAAT
1 TATAAAATTTT-TAAAT
*
7178197 TATAAAATATTTAAAT
1 TATAAAATTTTTAAAT
*
7178213 GA-AAAATTTT
1 TATAAAATTTT
7178223 CCATTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TATAAAATTTTTAAAT
Found at i:7178873 original size:21 final size:21
Alignment explanation
Indices: 7178849--7178895 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7178839 TATAAAACTA
*
7178849 ATAAAA-CAAATTTAAAATTTT
1 ATAAAATCAAA-TTAAAATTCT
*
7178870 ATAAAATCATATTAAAATTCT
1 ATAAAATCAAATTAAAATTCT
7178891 ATAAA
1 ATAAA
7178896 CATAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAATCAAATTAAAATTCT
Found at i:7179406 original size:19 final size:19
Alignment explanation
Indices: 7179379--7179538 Score: 59
Period size: 19 Copynumber: 8.4 Consensus size: 19
7179369 AGCTTTTATG
*
7179379 ATAATTTTTAATAATTTTT
1 ATAAATTTTAATAATTTTT
*
7179398 ATAAATTTT-AT-TTTGTTT
1 ATAAATTTTAATAATT-TTT
** * *
7179416 ATGATTTTTTTAAAGAATTTTA
1 AT-A-AATTTT-AATAATTTTT
*
7179438 ATACATTTTAATAATATTTT
1 ATAAATTTTAATAAT-TTTT
*
7179458 -TAATATAATTTATTAA-TTTT
1 ATAA-AT--TTTAATAATTTTT
** *
7179478 ATAAA--AAAATATTTTTT
1 ATAAATTTTAATAATTTTT
*
7179495 AT-AA-TTTATTAATTTTT
1 ATAAATTTTAATAATTTTT
*
7179512 ATAACATTTT-ATAATATTT
1 ATAA-ATTTTAATAATTTTT
7179531 ATAAATTT
1 ATAAATTT
7179539 ACATCAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 33
0.65 0.15 0.21
Matches are distributed among these distances:
16 5 0.05
17 18 0.18
18 12 0.12
19 28 0.27
20 21 0.21
21 4 0.04
22 12 0.12
23 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (19 bp):
ATAAATTTTAATAATTTTT
Found at i:7179469 original size:22 final size:22
Alignment explanation
Indices: 7179433--7179474 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7179423 TTTTAAAGAA
*
7179433 TTTTAATACATTTTAATAATAT
1 TTTTAATACAATTTAATAATAT
* *
7179455 TTTTAATATAATTTATTAAT
1 TTTTAATACAATTTAATAAT
7179475 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAATACAATTTAATAATAT
Found at i:7179498 original size:33 final size:35
Alignment explanation
Indices: 7179450--7179515 Score: 109
Period size: 33 Copynumber: 1.9 Consensus size: 35
7179440 ACATTTTAAT
7179450 AATATTTTTAATATAATTTATTAA-TTTTATAAAAA
1 AATATTTTT-ATATAATTTATTAATTTTTATAAAAA
7179485 AATATTTTT-TATAATTTATTAATTTTTATAA
1 AATATTTTTATATAATTTATTAATTTTTATAA
7179516 CATTTTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 13 0.43
34 8 0.27
35 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
AATATTTTTATATAATTTATTAATTTTTATAAAAA
Found at i:7179510 original size:17 final size:17
Alignment explanation
Indices: 7179461--7179515 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
7179451 ATATTTTTAA
7179461 TATAATTTATTAA-TTT
1 TATAATTTATTAATTTT
*** * *
7179477 TATAAAAAAATATTTTT
1 TATAATTTATTAATTTT
7179494 TATAATTTATTAATTTT
1 TATAATTTATTAATTTT
7179511 TATAA
1 TATAA
7179516 CATTTTATAA
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTTATTAATTTT
Found at i:7180182 original size:23 final size:22
Alignment explanation
Indices: 7180147--7180189 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7180137 GACATGAGTA
7180147 AATTAGAGCTGAAACAAAAAAAC
1 AATTAGAGCTG-AACAAAAAAAC
* *
7180170 AATTGGAGTTGAACAAAAAA
1 AATTAGAGCTGAACAAAAAA
7180190 GGCCTACTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.16
Consensus pattern (22 bp):
AATTAGAGCTGAACAAAAAAAC
Found at i:7193465 original size:104 final size:106
Alignment explanation
Indices: 7193200--7193449 Score: 371
Period size: 106 Copynumber: 2.4 Consensus size: 106
7193190 CATTGTTAAA
* *
7193200 TAAAATTAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAA
1 TAAAA-TAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAA
* **
7193265 TCTAATCATAAATTACTAACAAAATAACTATAAAATTATTAT
65 TCAAATCATAAATTACTAACAAAATAACTATAAAAACATTAT
*** *
7193307 TATTTTAAATTTACATTACTAAAAAATCACAAAACCCTAAACTAAACACTAACAATTTATA-AA-
1 TAAAATAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAAT
*
7193370 CAAATCATAAATTACTAACAAAATAACTATAAAAACATTTT
66 CAAATCATAAATTACTAACAAAATAACTATAAAAACATTAT
*
7193411 TAAAAT-ATTTTACATTACTAAAAAATCACAAAACACTAA
1 TAAAATAAATTTACATTACTAAAAAATCACAAAACACTAA
7193450 CATAAATTAC
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
103 31 0.24
104 40 0.31
105 2 0.02
106 53 0.41
107 2 0.02
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (106 bp):
TAAAATAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAAT
CAAATCATAAATTACTAACAAAATAACTATAAAAACATTAT
Found at i:7193475 original size:12 final size:12
Alignment explanation
Indices: 7193460--7193484 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7193450 CATAAATTAC
7193460 TAACAAAATAAT
1 TAACAAAATAAT
7193472 TAACAAAATAAT
1 TAACAAAATAAT
7193484 T
1 T
7193485 TTACATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACAAAATAAT
Found at i:7193527 original size:59 final size:63
Alignment explanation
Indices: 7193412--7193536 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 63
7193402 AAACATTTTT
* *
7193412 AAAATATTTTACATTACTAAAAAATCACAAAACACTAACATAAATTACTAACAAAATAATTAAC
1 AAAATATTTTACATTAATAAAAAATCACAAAACAC-AACATAAATCACTAACAAAATAATTAAC
7193476 AAAATAATTTTACATTAATAAAAAATCAC-AAA-AC-ACA-AAA-CACTAACAAAATAATTAAC
1 AAAAT-ATTTTACATTAATAAAAAATCACAAAACACAACATAAATCACTAACAAAATAATTAAC
7193535 AA
1 AA
7193537 TTTATAACAA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
59 20 0.34
60 3 0.05
61 3 0.05
63 2 0.03
64 8 0.14
65 22 0.38
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (63 bp):
AAAATATTTTACATTAATAAAAAATCACAAAACACAACATAAATCACTAACAAAATAATTAAC
Found at i:7194505 original size:27 final size:26
Alignment explanation
Indices: 7194474--7194541 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
7194464 CGTTCCGGGT
7194474 TCGGGTCCTTTAGAAAGAGGGTTCATG
1 TCGGGTCCTTT-GAAAGAGGGTTCATG
* *
7194501 TCGGGTCCGATTGAGAGAGGGTTCATG
1 TCGGGTCC-TTTGAAAGAGGGTTCATG
7194528 TCGGGTCCTCTTGA
1 TCGGGTCCT-TTGA
7194542 TAATACTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (26 bp):
TCGGGTCCTTTGAAAGAGGGTTCATG
Found at i:7199149 original size:121 final size:122
Alignment explanation
Indices: 7199011--7199258 Score: 410
Period size: 121 Copynumber: 2.0 Consensus size: 122
7199001 GAAAAAATAC
*
7199011 AAAAAAAACTAACACAAAAATTATTAGTCATATATTAGATATTCTAGACTACAGTGGTATTTCAG
1 AAAAAAAACTAACACAAAAATTATTAGTCATATATTAGATACTCTAGACTACAGTGGTATTTCAG
*
7199076 TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTGCATATT
66 TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTACATATT
* * *
7199133 AAAAAAAACCT-A-ACAAATATTATTAGTCATATATTAGATACTCTAGATTATAGTGGTATTTCA
1 AAAAAAAA-CTAACACAAAAATTATTAGTCATATATTAGATACTCTAGACTACAGTGGTATTTCA
*
7199196 GTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTGCCTTTTACATATT
65 GTTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTACATATT
*
7199254 CAAAA
1 AAAAA
7199259 GCAAAACATC
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
121 107 0.91
122 9 0.08
123 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (122 bp):
AAAAAAAACTAACACAAAAATTATTAGTCATATATTAGATACTCTAGACTACAGTGGTATTTCAG
TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTACATATT
Found at i:7203402 original size:21 final size:19
Alignment explanation
Indices: 7203378--7203430 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
7203368 TTAAAAATTT
7203378 ATATAAAAAATATTTTGATAA
1 ATATAAAAAATATTTT-AT-A
* * *
7203399 ATATAATAAATGTTTTATT
1 ATATAAAAAATATTTTATA
*
7203418 ATATTAAAAATAT
1 ATATAAAAAATAT
7203431 ATATTTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 10 0.38
20 2 0.08
21 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATATAAAAAATATTTTATA
Found at i:7203437 original size:23 final size:22
Alignment explanation
Indices: 7203411--7203460 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
7203401 ATAATAAATG
7203411 TTTTATTA-TATTAAAAATATAT
1 TTTTATTAGTATTAAAAATA-AT
*
7203433 ATTTTA-TAGTATTAAATATAAT
1 -TTTTATTAGTATTAAAAATAAT
7203455 TTTTAT
1 TTTTAT
7203461 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTATTAGTATTAAAAATAAT
Found at i:7203458 original size:21 final size:21
Alignment explanation
Indices: 7203386--7203462 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
7203376 TTATATAAAA
*
7203386 AATATTTTGATA-AATATAATA-
1 AATATTTT-ATATATTA-AATAT
* *
7203407 AATGTTTTATTATATTAAAAAT
1 AATATTTTA-TATATTAAATAT
7203429 ATATATTTTATAGTATTAAATAT
1 A-ATATTTTATA-TATTAAATAT
7203452 AAT-TTTTATAT
1 AATATTTTATAT
7203463 TTTTATATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
20 2 0.04
21 19 0.41
22 8 0.17
23 17 0.37
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
AATATTTTATATATTAAATAT
Found at i:7206446 original size:5 final size:5
Alignment explanation
Indices: 7206436--7206460 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7206426 ATTAGGTTTC
7206436 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
7206461 GAAGGAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:7217746 original size:13 final size:13
Alignment explanation
Indices: 7217728--7217752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7217718 GCAGATTTGC
7217728 TTTTGAAAAATAT
1 TTTTGAAAAATAT
7217741 TTTTGAAAAATA
1 TTTTGAAAAATA
7217753 ATGTGGAAAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAAATAT
Found at i:7228102 original size:34 final size:34
Alignment explanation
Indices: 7228056--7228124 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
7228046 CTCGTAAAGG
*
7228056 TTGGAAGCTGGTCGGAGTATCATCACACTATCCC
1 TTGGAAGCTGGTCGGAGTATCACCACACTATCCC
* *
7228090 TTGGAAGTTGGTCGGAGTATCACCGCACTATCCC
1 TTGGAAGCTGGTCGGAGTATCACCACACTATCCC
7228124 T
1 T
7228125 CAGCTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (34 bp):
TTGGAAGCTGGTCGGAGTATCACCACACTATCCC
Found at i:7231472 original size:27 final size:26
Alignment explanation
Indices: 7231434--7231485 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
7231424 ATATTTTGTA
**
7231434 AAAATATTATTATGTTAATAATTTATG
1 AAAATATTATTAAATTAA-AATTTATG
7231461 AAAAT-TTAATTAAATTAAAATTTAT
1 AAAATATT-ATTAAATTAAAATTTAT
7231486 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
AAAATATTATTAAATTAAAATTTATG
Found at i:7231494 original size:17 final size:17
Alignment explanation
Indices: 7231461--7231508 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
7231451 ATAATTTATG
*
7231461 AAAATTTA-ATTAAATT
1 AAAATTTATATAAAATT
7231477 AAAATTTATATAAAATT
1 AAAATTTATATAAAATT
*
7231494 AAAATTTTTATAAAA
1 AAAATTTATATAAAA
7231509 AATTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTTATATAAAATT
Found at i:7231505 original size:19 final size:17
Alignment explanation
Indices: 7231472--7231513 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
7231462 AAATTTAATT
*
7231472 AAATTAAAATTTATATA
1 AAATTAAAATTTATAAA
7231489 AAATTAAAATTTTTATAAA
1 AAATTAAAA--TTTATAAA
7231508 AAATTA
1 AAATTA
7231514 TATATTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
19 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTAAAATTTATAAA
Found at i:7243976 original size:2 final size:2
Alignment explanation
Indices: 7243939--7243964 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7243929 TTAGCCATGC
7243939 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7243965 TAACCTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7249395 original size:20 final size:20
Alignment explanation
Indices: 7249358--7249395 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7249348 TCCTAAATTG
* *
7249358 CTTATTTATAAGATTATTTT
1 CTTATTTATAAAACTATTTT
7249378 CTTATTTATAAAACTATT
1 CTTATTTATAAAACTATT
7249396 ATTTTAATAA
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:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (20 bp):
CTTATTTATAAAACTATTTT
Found at i:7249518 original size:16 final size:15
Alignment explanation
Indices: 7249505--7249534 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
7249495 GATTTTTATT
7249505 TTTTAAAGTTTTTAAA
1 TTTTAAA-TTTTTAAA
7249521 TTTTAAATTTTTAA
1 TTTTAAATTTTTAA
7249535 GAATTTAAGA
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTTAAATTTTTAAA
Found at i:7249735 original size:24 final size:25
Alignment explanation
Indices: 7249703--7249749 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7249693 GGAAGAGTGA
7249703 TTAAAATATTAA-ATTTTAATAACG
1 TTAAAATATTAATATTTTAATAACG
* *
7249727 TTAACATATTAATATTTTTATAA
1 TTAAAATATTAATATTTTAATAA
7249750 TTTACTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAAATATTAATATTTTAATAACG
Found at i:7259707 original size:20 final size:21
Alignment explanation
Indices: 7259684--7259737 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
7259674 CATTTAAGCT
*
7259684 TTAAAATTTTAAATTA-ATTA
1 TTAAAAATTTAAATTAGATTA
* **
7259704 TTAAAAACTTATGTTAGATTA
1 TTAAAAATTTAAATTAGATTA
7259725 TTAAAAATTTAAA
1 TTAAAAATTTAAA
7259738 AATGGTAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
TTAAAAATTTAAATTAGATTA
Found at i:7265265 original size:2 final size:2
Alignment explanation
Indices: 7265260--7265297 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7265250 AACAAAAAAT
7265260 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7265298 CTTTGCCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7266469 original size:19 final size:21
Alignment explanation
Indices: 7266441--7266479 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7266431 CGTATCAAAT
*
7266441 AAATACCTTTTTA-TTAATTA
1 AAATACCTTTGTAGTTAATTA
7266461 AAATA-CTTTGTAGTTAATT
1 AAATACCTTTGTAGTTAATT
7266480 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (21 bp):
AAATACCTTTGTAGTTAATTA
Found at i:7266823 original size:19 final size:19
Alignment explanation
Indices: 7266795--7266844 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
7266785 TACATAATTT
*
7266795 ATATTTTAAAAAA-TATTAA
1 ATATTATAAAAAATTATT-A
7266814 ATATTATAAAAAATTATTA
1 ATATTATAAAAAATTATTA
*
7266833 ATATGATAAAAA
1 ATATTATAAAAA
7266845 TAATTTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATATTATAAAAAATTATTA
Found at i:7269727 original size:28 final size:29
Alignment explanation
Indices: 7269670--7269730 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
7269660 AAATCAGTTC
***
7269670 ATTTCCGTAATTTTTTTAAATTTTGATTT
1 ATTTCCGTAATTTTTTTAAAAAATGATTT
*
7269699 ATTTCCGTAA-TTTTTTAAAAAATGCTTT
1 ATTTCCGTAATTTTTTTAAAAAATGATTT
7269727 ATTT
1 ATTT
7269731 AGTTGTGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (29 bp):
ATTTCCGTAATTTTTTTAAAAAATGATTT
Found at i:7291561 original size:3 final size:3
Alignment explanation
Indices: 7291553--7291599 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7291543 AAGTAATACC
7291553 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7291600 TTTTTATTCG
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7292151 original size:21 final size:22
Alignment explanation
Indices: 7292125--7292179 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
7292115 AACAGCGGTG
7292125 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
7292146 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
7292167 GCGGTGAGATTAG
1 GCGGTGAGATTAG
7292180 AAACAGCGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.40, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:7292316 original size:19 final size:19
Alignment explanation
Indices: 7292292--7292332 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7292282 AGAAGTTTTT
* *
7292292 AAAATTATTTAACAATTAC
1 AAAATTAATAAACAATTAC
*
7292311 AAAATTAATAAATAATTAC
1 AAAATTAATAAACAATTAC
7292330 AAA
1 AAA
7292333 TAATTACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTAATAAACAATTAC
Found at i:7292441 original size:36 final size:34
Alignment explanation
Indices: 7292400--7292521 Score: 124
Period size: 36 Copynumber: 3.8 Consensus size: 34
7292390 GAAAAATTCA
7292400 AAAATATCAAAATATTTTACAGATTATATTCATAAT
1 AAAATATCAAAATATTTTA-A-ATTATATTCATAAT
7292436 AAAATATCAAAATATTTTAAA-TATA--C--AAT
1 AAAATATCAAAATATTTTAAATTATATTCATAAT
7292465 -AAA-AT----AT-TTTTAAATTATATTCATAAT
1 AAAATATCAAAATATTTTAAATTATATTCATAAT
7292492 AAAATATCAAAATATTTTACAGATTATATT
1 AAAATATCAAAATATTTTA-A-ATTATATT
7292522 TGAATCAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 28
0.72 0.00 0.28
Matches are distributed among these distances:
22 7 0.10
23 6 0.08
25 1 0.01
27 5 0.07
28 6 0.08
29 5 0.07
31 1 0.01
33 6 0.08
34 6 0.08
35 2 0.03
36 27 0.38
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (34 bp):
AAAATATCAAAATATTTTAAATTATATTCATAAT
Found at i:7297019 original size:15 final size:15
Alignment explanation
Indices: 7296999--7297038 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
7296989 TCACCGATCC
*
7296999 ACCTCCACTGTCAAG
1 ACCTCCACCGTCAAG
7297014 ACCTCCACCGTCAAG
1 ACCTCCACCGTCAAG
7297029 ACCTCCACCG
1 ACCTCCACCG
7297039 ATCTACCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.47, G:0.12, T:0.15
Consensus pattern (15 bp):
ACCTCCACCGTCAAG
Found at i:7299817 original size:46 final size:46
Alignment explanation
Indices: 7299710--7299957 Score: 342
Period size: 46 Copynumber: 5.7 Consensus size: 46
7299700 TACGTATGAT
*
7299710 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
7299753 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
7299799 CACTTATCACATTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
7299845 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
7299881 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
7299927 CACTTATCACTTTGTCTCTTGATCAGATAAG
1 CACTTATCACTTTGTCACTTGATCAGATAAG
7299958 NNNNNNNNNN
Statistics
Matches: 183, Mismatches: 9, Indels: 23
0.85 0.04 0.11
Matches are distributed among these distances:
36 29 0.16
38 3 0.02
40 2 0.01
41 2 0.01
42 2 0.01
43 10 0.05
44 8 0.04
45 20 0.11
46 107 0.58
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:7299886 original size:36 final size:36
Alignment explanation
Indices: 7299845--7299917 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
7299835 CTAAGGCTAA
7299845 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
7299881 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
7299917 C
1 C
7299918 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:7299936 original size:82 final size:82
Alignment explanation
Indices: 7299799--7299957 Score: 273
Period size: 82 Copynumber: 1.9 Consensus size: 82
7299789 CTAAGGCTAC
*
7299799 CACTTATCACATTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACATTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
7299864 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* * * *
7299881 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACATTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
7299946 TGATCAGATAAG
66 TGATCAGATAAG
7299958 NNNNNNNNNN
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACATTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:7304797 original size:673 final size:675
Alignment explanation
Indices: 7303582--7304830 Score: 1648
Period size: 673 Copynumber: 1.8 Consensus size: 675
7303572 TATTCAAAAT
* *
7303582 TTTATTTTTTGGTCACCACACGTTAAATTACTAATGGAAAAATAACTCGAAAACTTTTAAAATTG
1 TTTATTTTTTGGTCACCACACATTAAATTACTAATGGAAAAATAAATCGAAAACTTTTAAAATTG
* * *
7303647 ACATAATAACAACTTTAACCTTCAATATTTATAATCATCTCAATTTATTATTGATTCAAAAAAAA
66 ACATAATAACAACTTTAACCTTCAACATTTATAATCATCTCAAATTAATATTGATTC----AAAA
* *
7303712 AAAAAAACAATCATCAACATTTGCACATTGTGTAATTTAGTTTTTTTTTTGTTTACAATTTTACA
127 AAAAAAACAATCATCAACATTTGCACATTGTGTAATTTAG--TATTTTTTGTTTACAAGTTTACA
* * * * *
7303777 TTTTATTTGTGACATCAAAGGTTAATTTTAAAATAATGAGAAAATATAAAAATTATTATATTAGA
190 TTTTATTTGTAACATCAAAGGTTAATTTTAAAATAATAAAAAAATATAAAAATTATCATATTAAA
* * *
7303842 TTTGTTTGGTGTTTTCATTTTTGACATATTTCTAGTCAAATTTAATCAATAAATTAAACATAGAA
255 TTTGTTTGGTGTTTCCATTTTTGACATATTTCTAATCAAAATTAATCAATAAATTAAACATAGAA
* * *
7303907 TTGCGTTACACTGAGGACAACATGACACCACATCAACTCAAATGCTTGTACCATCATTCTCAAAC
320 TTGCATTACACCGAGGACAACATCACACCACATCAACTCAAATGCTTGTACCATCATTCTCAAAC
*
7303972 AACACTACCAACTCAGTAGATGGCTTGTCATAATCAATAATAACCAAGTTCAAGTGATCACCATA
385 AACACTACCAACTCAGTAGATGGCTTGACATAATCAATAATAACCAAGTTCAAGTGATCACCATA
* * * * * *
7304037 CGCCAATTTAGCATTTTTAATTGCTACTCCATTCACCTTATCATAAATGTATATAATAAAGCTTG
450 CGCCAATTTAGCAATTTTAATTGCTACTCCATTCACCTCACCAGAAATGTATATAACAAACCTTG
* *
7304102 AATTTTGTTTTAAAAAATAAAAGTTTTAAAGAATGTAAATTTATTTT-TCATAGAATGACGTTAC
515 AATTTTATTTTAAAAAATAAAAGTTTCAAAGAATGTAAATTTATTTTCT-ATAGAATGACGTTAC
7304166 CTTGGGACCACTCAACATCCTTGAAGAAAAATAAGGGTAAATTATATTTCATTATCTAACTATGA
579 CTTGGGACCACTCAACATCCTTGAAGAAAAATAAGGGTAAATTATATTTCATTATCTAACTATGA
7304231 AAAATTATAAAATAATCATCCAACTAATCGGC
644 AAAATTATAAAATAATCATCCAACTAATCGGC
* * *
7304263 TTTATTTTTTTGGTCATCACCCATTAAATTACTAATGGAAAAATAAATCGACAACTTTTAAAATT
1 TTTA-TTTTTTGGTCACCACACATTAAATTACTAATGGAAAAATAAATCGAAAACTTTTAAAATT
** * * * **
7304328 GGTATAATAATAACTTTAA-CTCTCAACATTTTTAATCATGTCAAATTAATATTGA-TC-CCAAA
65 GACATAATAACAACTTTAACCT-TCAACATTTATAATCATCTCAAATTAATATTGATTCAAAAAA
* ** *
7304390 CAAATTAATCATCAACATTTGCACATTGTGTAATTT-G-ATTTTTT-TTTAC-AGTTTACTTTTT
129 AAAAACAATCATCAACATTTGCACATTGTGTAATTTAGTATTTTTTGTTTACAAGTTTACATTTT
* * * * *
7304451 ATTTGTAACATCGAGGGTTAATTTTTAAATAAATAAAAAAATATGAAAATTATCATCTTGAAATT
194 ATTTGTAACATCAAAGGTTAATTTTAAAAT-AATAAAAAAATATAAAAATTATCATATT-AAATT
** * *
7304516 T-TTT-GTGTTTCCA-TTTTGGTATA-TTCTCAATCAAAATTAGTCAATAAATTAATCATAGAAT
257 TGTTTGGTGTTTCCATTTTTGACATATTTCT-AATCAAAATTAATCAATAAATTAAACATAGAAT
* * *
7304577 TGCATTACACCGATGG-CAAGATCACACCACATCAACTCAACTGCTTGTACCATCATTCTCTAAC
321 TGCATTACACCGA-GGACAACATCACACCACATCAACTCAAATGCTTGTACCATCATTCTCAAAC
* * * *
7304641 AACATTACCAACTCAGTAGGTGGGTCT-ACATATATCATTAATAATCACCAAGTTCAAG-GAATC
385 AACACTACCAACTCAGTAGATGGCT-TGACATA-ATC---AATAATAACCAAGTTCAAGTG-ATC
* * * *
7304704 ACCATATGCCAATTTATCAATTTT-ATCTGTTACTCCATTCACCTCACCAGAAATGTATTTAACA
444 ACCATACGCCAATTTAGCAATTTTAAT-TGCTACTCCATTCACCTCACCAGAAATGTATATAACA
*
7304768 AACCTTGAATTTTATTTTAAAAAATAAAAGTTTCAAATAATGTAAATTTATTTTCTATAGAAT
508 AACCTTGAATTTTATTTTAAAAAATAAAAGTTTCAAAGAATGTAAATTTATTTTCTATAGAAT
7304831 TATGTTACAT
Statistics
Matches: 492, Mismatches: 62, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
668 4 0.01
669 118 0.24
670 50 0.10
671 31 0.06
672 14 0.03
673 130 0.26
674 1 0.00
675 1 0.00
676 36 0.07
681 8 0.02
682 99 0.20
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (675 bp):
TTTATTTTTTGGTCACCACACATTAAATTACTAATGGAAAAATAAATCGAAAACTTTTAAAATTG
ACATAATAACAACTTTAACCTTCAACATTTATAATCATCTCAAATTAATATTGATTCAAAAAAAA
AAACAATCATCAACATTTGCACATTGTGTAATTTAGTATTTTTTGTTTACAAGTTTACATTTTAT
TTGTAACATCAAAGGTTAATTTTAAAATAATAAAAAAATATAAAAATTATCATATTAAATTTGTT
TGGTGTTTCCATTTTTGACATATTTCTAATCAAAATTAATCAATAAATTAAACATAGAATTGCAT
TACACCGAGGACAACATCACACCACATCAACTCAAATGCTTGTACCATCATTCTCAAACAACACT
ACCAACTCAGTAGATGGCTTGACATAATCAATAATAACCAAGTTCAAGTGATCACCATACGCCAA
TTTAGCAATTTTAATTGCTACTCCATTCACCTCACCAGAAATGTATATAACAAACCTTGAATTTT
ATTTTAAAAAATAAAAGTTTCAAAGAATGTAAATTTATTTTCTATAGAATGACGTTACCTTGGGA
CCACTCAACATCCTTGAAGAAAAATAAGGGTAAATTATATTTCATTATCTAACTATGAAAAATTA
TAAAATAATCATCCAACTAATCGGC
Found at i:7319835 original size:33 final size:33
Alignment explanation
Indices: 7319788--7319852 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
7319778 ATAGGATTAC
7319788 CAGCCATTCTTTTAACATGTTCAAAGTAACTAT
1 CAGCCATTCTTTTAACATGTTCAAAGTAACTAT
* * *
7319821 CAGCCATT-TCTTTAACATTTTCCAGGTAACTA
1 CAGCCATTCT-TTTAACATGTTCAAAGTAACTA
7319853 AAACTAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (33 bp):
CAGCCATTCTTTTAACATGTTCAAAGTAACTAT
Found at i:7323314 original size:26 final size:26
Alignment explanation
Indices: 7323249--7323314 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
7323239 TTTAAACCAA
* *
7323249 ACTTTTTAAAAGTACTTCTCAAAAAC
1 ACTTTTCAAAAGCACTTCTCAAAAAC
* * * * **
7323275 ATTTTTCCACAGCATTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAAC
7323301 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
7323315 ATTAAAAACT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAAC
Found at i:7326930 original size:3 final size:3
Alignment explanation
Indices: 7326922--7326946 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7326912 CCATTTCACT
7326922 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
7326947 CTCTATCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:7328274 original size:21 final size:23
Alignment explanation
Indices: 7328248--7328302 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
7328238 TAAGATATTG
*
7328248 AAAAAATAACA-AGAAAATA-TA
1 AAAAAATAACAGAAAAAATAGTA
7328269 AAAAAATAACAGTAAAAAATAGTA
1 AAAAAATAACAG-AAAAAATAGTA
7328293 AAAAAA-AACA
1 AAAAAATAACA
7328303 TATTCGGGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.37
23 11 0.37
24 8 0.27
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (23 bp):
AAAAAATAACAGAAAAAATAGTA
Found at i:7328620 original size:22 final size:20
Alignment explanation
Indices: 7328573--7328623 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
7328563 TTCGACATCC
7328573 TTAAATT-ATAAATATTTTT
1 TTAAATTGATAAATATTTTT
*
7328592 TTCAAATTGATATATAATTTATT
1 TT-AAATTGATAAAT-ATTT-TT
7328615 TTAAATTGA
1 TTAAATTGA
7328624 ATCCTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 5 0.19
21 5 0.19
22 11 0.41
23 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TTAAATTGATAAATATTTTT
Found at i:7340076 original size:2 final size:2
Alignment explanation
Indices: 7340069--7340098 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7340059 CAATAGCCTG
7340069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7340099 GATGCCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7346949 original size:43 final size:43
Alignment explanation
Indices: 7346869--7346950 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
7346859 TTATTTTTAA
* *
7346869 AATTTTTTAGTGCCGTCACTTCACATGGTGTGGCCAAAATTTG
1 AATTTTTTAGTCCCGTCACTTCACATGGTGTGACCAAAATTTG
** *
7346912 AATTTTTTAGTCCCGTCACTTCATGTGGTGTTACCAAAA
1 AATTTTTTAGTCCCGTCACTTCACATGGTGTGACCAAAA
7346951 ACAGTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (43 bp):
AATTTTTTAGTCCCGTCACTTCACATGGTGTGACCAAAATTTG
Found at i:7353126 original size:2 final size:2
Alignment explanation
Indices: 7353119--7353144 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7353109 ATTCTTCCTC
7353119 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7353145 GATGTGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7354648 original size:28 final size:27
Alignment explanation
Indices: 7354529--7354637 Score: 112
Period size: 28 Copynumber: 4.0 Consensus size: 27
7354519 AATTTTGAAG
* * *
7354529 TACATATTTTTAAGTAT-AAAATGCAA
1 TACAAATTTTTAATTATAAAAATGTAA
* ** *
7354555 TGCACGTTTTTAATTTATAAAATTGTAA
1 TACAAATTTTTAA-TTATAAAAATGTAA
* *
7354583 TACAAATTTTTTAATAATAAAAATGCAA
1 TACAAA-TTTTTAATTATAAAAATGTAA
7354611 TACAAATTTTTAATTATAAAAATGTAA
1 TACAAATTTTTAATTATAAAAATGTAA
7354638 CCCATAATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 10 0.15
27 22 0.33
28 27 0.41
29 7 0.11
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (27 bp):
TACAAATTTTTAATTATAAAAATGTAA
Found at i:7354650 original size:27 final size:27
Alignment explanation
Indices: 7354561--7354648 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
7354551 GCAATGCACG
* * * *
7354561 TTTTTAATTTATAAAATTGTAATACAAA
1 TTTTTAA-TAATAAAAATGCAACACAAA
*
7354589 TTTTTTAATAATAAAAATGCAATACAAA
1 -TTTTTAATAATAAAAATGCAACACAAA
* * *
7354617 TTTTTAATTATAAAAATGTAACCCATAA
1 TTTTTAATAATAAAAATGCAACACA-AA
7354645 TTTT
1 TTTT
7354649 AAACATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 21 0.41
28 23 0.45
29 7 0.14
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (27 bp):
TTTTTAATAATAAAAATGCAACACAAA
Found at i:7369226 original size:50 final size:50
Alignment explanation
Indices: 7369164--7369318 Score: 193
Period size: 50 Copynumber: 3.1 Consensus size: 50
7369154 GTCACATCGT
* *
7369164 GACATACTGTTTTGGCCTCGTCAAGACGATGGAGTCTCTCGTCGTGCCGA
1 GACATACTGTTTTGGCCTCGTCAAGACGACGGAGTCTCTCGTCATGCCGA
* * *
7369214 GACATACTGTTTTGGCCTCGTCGAGACGACGGAGTCTCTCTTCATGCCGT
1 GACATACTGTTTTGGCCTCGTCAAGACGACGGAGTCTCTCGTCATGCCGA
* * * * * * * *
7369264 GGCATACTATTTTGGCCTTGTCAAGATGACGGTGTCTTTCGTCACGCCGT
1 GACATACTGTTTTGGCCTCGTCAAGACGACGGAGTCTCTCGTCATGCCGA
7369314 GACAT
1 GACAT
7369319 TATAAGTCAT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 90 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (50 bp):
GACATACTGTTTTGGCCTCGTCAAGACGACGGAGTCTCTCGTCATGCCGA
Found at i:7370472 original size:42 final size:41
Alignment explanation
Indices: 7370422--7370612 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 41
7370412 TGGCACACAT
7370422 AGTGCATCATCGATTAAACCGAAGCAATCATATTGGCATGTA
1 AGTGCATCATCGA-TAAACCGAAGCAATCATATTGGCATGTA
* * * *
7370464 AGTGCATCATTGGATAAACCGAAGCAATTATACTGGCAAGTA
1 AGTGCATCA-TCGATAAACCGAAGCAATCATATTGGCATGTA
* * *
7370506 AGTGCATCATCGGATATACCGAATCAATCATATTGGCACGTA
1 AGTGCATCATC-GATAAACCGAAGCAATCATATTGGCATGTA
* ** * *
7370548 AGTGCATCATCGGGTGTATCGAAGAAAAT-ATATTGGCATGTA
1 AGTGCATCATC-GATAAACCGAAG-CAATCATATTGGCATGTA
* *
7370590 AGTGCGTCATCGGCTAAACCGAA
1 AGTGCATCATC-GATAAACCGAA
7370613 ATGTATACTT
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 118 0.94
43 6 0.05
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (41 bp):
AGTGCATCATCGATAAACCGAAGCAATCATATTGGCATGTA
Found at i:7370571 original size:84 final size:84
Alignment explanation
Indices: 7370422--7370612 Score: 240
Period size: 84 Copynumber: 2.3 Consensus size: 84
7370412 TGGCACACAT
* *
7370422 AGTGCATCATC-GATTAAACCGAAGCAATCATATTGGCATGTAAGTGCATCATTGGATAAACCGA
1 AGTGCATCATCGGA-TAAACCGAAGCAATCATATTGGCACGTAAGTGCATCATCGGATAAACCGA
* *
7370486 AGCAATTATACTGGCAAGTA
65 AGAAAATATACTGGCAAGTA
* * * ** *
7370506 AGTGCATCATCGGATATACCGAATCAATCATATTGGCACGTAAGTGCATCATCGGGTGTATCGAA
1 AGTGCATCATCGGATAAACCGAAGCAATCATATTGGCACGTAAGTGCATCATCGGATAAACCGAA
* *
7370571 GAAAATATATTGGCATGTA
66 GAAAATATACTGGCAAGTA
* *
7370590 AGTGCGTCATCGGCTAAACCGAA
1 AGTGCATCATCGGATAAACCGAA
7370613 ATGTATACTT
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 89 0.98
85 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (84 bp):
AGTGCATCATCGGATAAACCGAAGCAATCATATTGGCACGTAAGTGCATCATCGGATAAACCGAA
GAAAATATACTGGCAAGTA
Found at i:7372364 original size:5 final size:5
Alignment explanation
Indices: 7372354--7372379 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7372344 TGAGCATTCG
7372354 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
7372380 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:7379825 original size:20 final size:21
Alignment explanation
Indices: 7379785--7379832 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
7379775 TACAATTTCT
7379785 CTTAAGAATTTTACCCAAAAC
1 CTTAAGAATTTTACCCAAAAC
*
7379806 CTTAAGATTTTTACCC-AAAC
1 CTTAAGAATTTTACCCAAAAC
7379826 CTTAAGA
1 CTTAAGA
7379833 CTCAATCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (21 bp):
CTTAAGAATTTTACCCAAAAC
Found at i:7380247 original size:21 final size:20
Alignment explanation
Indices: 7380204--7380259 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
7380194 AAACACAATT
**
7380204 TATCGATACTTGGTAAAAGG
1 TATCGATACTTTTTAAAAGG
*
7380224 TATCGATACTTTTTGAAAATG
1 TATCGATACTTTTT-AAAAGG
*
7380245 TATCAATACTTTTTA
1 TATCGATACTTTTTA
7380260 TAATTAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATACTTTTTAAAAGG
Found at i:7380935 original size:21 final size:20
Alignment explanation
Indices: 7380911--7380954 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
7380901 AACTTGTTTT
7380911 AAAACTCTTTTAACATGATTG
1 AAAACTCTTTTAAC-TGATTG
*
7380932 AAAA-TTTTTTAACTGAATTG
1 AAAACTCTTTTAACTG-ATTG
7380952 AAA
1 AAA
7380955 CCATTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (20 bp):
AAAACTCTTTTAACTGATTG
Found at i:7381914 original size:14 final size:14
Alignment explanation
Indices: 7381895--7381921 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7381885 ATATTAATTG
7381895 TTATTATTATTATA
1 TTATTATTATTATA
7381909 TTATTATTATTAT
1 TTATTATTATTAT
7381922 GAAATAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:7382579 original size:22 final size:24
Alignment explanation
Indices: 7382551--7382594 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7382541 TATGGCAAGA
7382551 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGCTAGAAAAGTAAGTATG
7382573 AATTAAGCTAGAAAAGTAAGTA
1 AATTAAGCTAGAAAAGTAAGTA
7382595 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.23
Consensus pattern (24 bp):
AATTAAGCTAGAAAAGTAAGTATG
Found at i:7382869 original size:24 final size:23
Alignment explanation
Indices: 7382842--7382888 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7382832 TAATCATGGG
7382842 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
7382866 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
7382889 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:7383194 original size:27 final size:26
Alignment explanation
Indices: 7383136--7383194 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
7383126 ATCTAATGCC
**
7383136 TTATTGGTGTGTTTGGGAGGATATAA
1 TTATTGGTGTGTTAAGGAGGATATAA
* *
7383162 TATATTGGTGTGTTAATGAGGATTTATA
1 T-TATTGGTGTGTTAAGGAGGATATA-A
7383190 TTATT
1 TTATT
7383195 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 24 0.89
28 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (26 bp):
TTATTGGTGTGTTAAGGAGGATATAA
Found at i:7386505 original size:19 final size:19
Alignment explanation
Indices: 7386474--7386513 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
7386464 TAAAAATCAT
7386474 TAAAATTATTTAAAAAAGTA
1 TAAAATTATTTAAAAAA-TA
7386494 TAAAATTA-TTAAAAAATA
1 TAAAATTATTTAAAAAATA
7386512 TA
1 TA
7386514 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TAAAATTATTTAAAAAATA
Found at i:7401084 original size:40 final size:39
Alignment explanation
Indices: 7401025--7401101 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
7401015 CGGTGTTGCG
* * *
7401025 ACATCTAATATTCAGTGTTGCAACATTGGGCTATGTCGTT
1 ACATCCAACATTCAATGTTGCAACATT-GGCTATGTCGTT
*
7401065 ACATCCAACATTCAATGTTGCAACATTGGCTTTGTCG
1 ACATCCAACATTCAATGTTGCAACATTGGCTATGTCG
7401102 CGACATTGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 9 0.27
40 24 0.73
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (39 bp):
ACATCCAACATTCAATGTTGCAACATTGGCTATGTCGTT
Found at i:7409731 original size:20 final size:18
Alignment explanation
Indices: 7409702--7409742 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
7409692 TTTTTTCAAC
7409702 TTTAAGGAAAAACCTAGTT
1 TTTAAGG-AAAACCTAGTT
7409721 TTTAGAGGAAAACCTAGTT
1 TTTA-AGGAAAACCTAGTT
7409740 TTT
1 TTT
7409743 TTACAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTAAGGAAAACCTAGTT
Found at i:7416707 original size:41 final size:41
Alignment explanation
Indices: 7416650--7416730 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
7416640 GAAAAAAATC
7416650 TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATGA
1 TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATGA
7416691 TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATG
1 TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATG
7416731 GTTCAACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.49
Consensus pattern (41 bp):
TTTTTTTTTCTTTCCAATAATTTACTCAAATAAATGAATGA
Found at i:7426452 original size:3 final size:3
Alignment explanation
Indices: 7426444--7426473 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7426434 ACTCCCGCTA
*
7426444 CTG CTG CTG CTG CTG CTG CTG CCG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
7426474 TGAATCGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.33, T:0.30
Consensus pattern (3 bp):
CTG
Found at i:7429210 original size:2 final size:2
Alignment explanation
Indices: 7429166--7429199 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7429156 GATTGAATTG
7429166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7429200 TATGAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7429472 original size:41 final size:40
Alignment explanation
Indices: 7429427--7429505 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
7429417 GAGACACTGG
* *
7429427 GTGTCAATTTACTACTTCGGATATATTCGATGAGACATTCA
1 GTGTCAATTTACTACTTCGAAT-TATCCGATGAGACATTCA
* *
7429468 GTGTCAATTTATTACTTCGAATTATCCGATGAGGCATT
1 GTGTCAATTTACTACTTCGAATTATCCGATGAGACATT
7429506 GGGTGCCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 14 0.41
41 20 0.59
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (40 bp):
GTGTCAATTTACTACTTCGAATTATCCGATGAGACATTCA
Found at i:7434727 original size:2 final size:2
Alignment explanation
Indices: 7434720--7434750 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7434710 ATACATGTAA
*
7434720 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7434751 CGTGTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7436091 original size:40 final size:40
Alignment explanation
Indices: 7436045--7436124 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
7436035 CTATTTCAAA
* *
7436045 TTCACTTTTGATTCAAT-CACAATTCA-ATTCAATTTCACTT
1 TTCACTTTTCAATCAATACACAATTCAGA-T-AATTTCACTT
*
7436085 TTCACTTTTCAATCAATACACAGTTCAGATAATTTCACTT
1 TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
7436125 CGATTCAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 25 0.71
41 9 0.26
42 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (40 bp):
TTCACTTTTCAATCAATACACAATTCAGATAATTTCACTT
Found at i:7436888 original size:12 final size:12
Alignment explanation
Indices: 7436873--7436903 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7436863 TTCTCTTTTA
7436873 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
7436885 TTTTTCTTTCGC
1 TTTTTCTTTCCC
7436897 TTTTTCT
1 TTTTTCT
7436904 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Done.