Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008355.1 Hibiscus syriacus cultivar Beakdansim tig00111092_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 983659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:691262 original size:33 final size:33
Alignment explanation
Indices: 691214--691294 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
691204 AAAATCGCAA
**
691214 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
691247 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
691280 TGCGATTGTCATTTC
1 TGCGATTTTCATTTC
691295 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.22, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:691297 original size:21 final size:21
Alignment explanation
Indices: 691271--691346 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
691261 CGCGTTGCGA
691271 TTCTCTCGTTGCGATTGTCAT
1 TTCTCTCGTTGCGATTGTCAT
**
691292 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTGTCAT
*
691312 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTGTCAT
*
691333 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
691347 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTGTCAT
Found at i:691327 original size:41 final size:41
Alignment explanation
Indices: 691270--691347 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
691260 TCGCGTTGCG
*
691270 ATTCTCTCGTTGCGATTGTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGACAGTC
*
691311 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGAC
691348 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGACAGTC
Found at i:691473 original size:33 final size:33
Alignment explanation
Indices: 691426--691496 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
691416 AATACTAACT
* *
691426 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
691459 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
691492 TGAAA
1 TGAAA
691497 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:691728 original size:22 final size:21
Alignment explanation
Indices: 691677--691730 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
691667 TGGTTGTGAG
**
691677 GGATTTCGCCGGAGATGGGAC
1 GGATTTCTTCGGAGATGGGAC
**
691698 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGAT-GGGAC
691720 GGATTTCTTCG
1 GGATTTCTTCG
691731 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
GGATTTCTTCGGAGATGGGAC
Found at i:691896 original size:39 final size:40
Alignment explanation
Indices: 691853--691934 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
691843 TACGCGTAGC
*
691853 GATTATAATGGCGCTTTA-A-ATATCGCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGAT-TCGCGTTGCGATTTACG
** * *
691892 GATTATCGTTGCGATTTACAGATTCTCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
691932 GAT
1 GAT
691935 ACGCGTTGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 14 0.39
40 20 0.56
41 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (40 bp):
GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
Found at i:692069 original size:20 final size:20
Alignment explanation
Indices: 691876--692068 Score: 219
Period size: 20 Copynumber: 9.7 Consensus size: 20
691866 CTTTAAATAT
691876 CGCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
* * *
691897 -TCGTTGCGATTTACAGATT
1 CGCGTTGCGATTTACGGATA
*
691916 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
691936 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
691956 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
691976 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
691996 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
692016 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
692036 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
692056 CGCGTTGCGATTT
1 CGCGTTGCGATTT
692069 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 145 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:692085 original size:21 final size:21
Alignment explanation
Indices: 692055--692137 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
692045 ATTTTCATAT
*
692055 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
692076 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
692097 TCGCATTGCGATTTT-AAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
692118 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
692138 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:692128 original size:42 final size:43
Alignment explanation
Indices: 692035--692133 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
692025 ATTTATGTGT
* *
692035 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGAAAAA
**
692076 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-AAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGAAA-AA
*
692118 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
692134 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGAAAAA
Found at i:692562 original size:15 final size:15
Alignment explanation
Indices: 692542--692573 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
692532 TTGTCGTCCC
692542 TTCGACTTCCTATTA
1 TTCGACTTCCTATTA
692557 TTCGACTTCCTATTA
1 TTCGACTTCCTATTA
692572 TT
1 TT
692574 GTGAGCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (15 bp):
TTCGACTTCCTATTA
Found at i:693117 original size:20 final size:21
Alignment explanation
Indices: 693092--693133 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
693082 TTTTAAGTTA
693092 TTATATATTTTA-GATAATTT
1 TTATATATTTTATGATAATTT
*
693112 TTATATTTTTTATTGATAATTT
1 TTATATATTTTA-TGATAATTT
693134 ATTTTCTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TTATATATTTTATGATAATTT
Found at i:697224 original size:30 final size:29
Alignment explanation
Indices: 697167--697224 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
697157 GTAAATCCCA
*
697167 AAATAAAAACCCGGAAACTCTAGTGGGCT
1 AAATAAAAACCCGGAAACTCTAATGGGCT
*
697196 AAATAAAAAACCCGGATAC-CATAATGGGC
1 AAAT-AAAAACCCGGAAACTC-TAATGGGC
697225 CCAAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.16
Consensus pattern (29 bp):
AAATAAAAACCCGGAAACTCTAATGGGCT
Found at i:698215 original size:26 final size:24
Alignment explanation
Indices: 698153--698215 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
698143 AATTTTAATC
698153 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
698177 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
698200 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
698216 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:698217 original size:22 final size:23
Alignment explanation
Indices: 698187--698231 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
698177 AAAATATATT
698187 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
698210 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
698232 AAAATAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:698246 original size:31 final size:32
Alignment explanation
Indices: 698181--698259 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
698171 ATATTTAAAA
* *
698181 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
698213 TATATTT-TTAATA-TTATAA-AAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
698244 TATATTATAATAATAT
1 TATATT-TATTAATAT
698260 AAGATGTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 7 0.18
30 5 0.13
31 14 0.36
32 8 0.21
33 5 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:698299 original size:54 final size:52
Alignment explanation
Indices: 698199--698300 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 52
698189 TTAATATTTC
*
698199 TAATAATATAATATTATATTTTTAATATTATAAAAAATAATCAATTATATTA
1 TAATAATATAATATTATATTTTTAATATTATAAAAAATAATAAATTATATTA
* * * *
698251 TAATAATATAAGATGTTATATTTTT-ATTTTAATAATATATAATAAATTAT
1 TAATAATAT-A-ATATTATATTTTTAATATT-ATAAAAAATAATAAATTAT
698301 TAATCAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 9 0.21
53 5 0.12
54 28 0.67
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (52 bp):
TAATAATATAATATTATATTTTTAATATTATAAAAAATAATAAATTATATTA
Found at i:698393 original size:27 final size:27
Alignment explanation
Indices: 698312--698404 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 27
698302 AATCAAATTT
*
698312 ATATTATTTAT-TAATTTCAATAGAAATA
1 ATATTATTTATAT-ATTT-AATATAAATA
* * *
698340 ATATT-GTTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
698367 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
*
698396 ATAATATTT
1 ATATTATTT
698405 TAATAAAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
26 4 0.08
27 16 0.32
28 18 0.36
29 12 0.24
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:698424 original size:23 final size:23
Alignment explanation
Indices: 698398--698449 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
698388 TTAATATAAT
*
698398 AATATTTTAATAAAGATATTTAA
1 AATATATTAATAAAGATATTTAA
* * *
698421 AATATATTAATTAATATTTTTAA
1 AATATATTAATAAAGATATTTAA
698444 AATATA
1 AATATA
698450 ATATAACACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AATATATTAATAAAGATATTTAA
Found at i:698585 original size:22 final size:25
Alignment explanation
Indices: 698538--698603 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 25
698528 ATTAATAAAA
* *
698538 TTATAAAAATAAT-ATTTTAATATT
1 TTATGAAAATAATAATATTAATATT
*
698562 TT-T-AAAATAATAATATTAA-GTT
1 TTATGAAAATAATAATATTAATATT
*
698584 TTATGATAAATAATATTATT
1 TTATGA-AAATAATAATATT
698604 TATTGTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 12 0.34
23 8 0.23
24 3 0.09
25 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
TTATGAAAATAATAATATTAATATT
Found at i:699496 original size:42 final size:42
Alignment explanation
Indices: 699449--699603 Score: 222
Period size: 42 Copynumber: 3.7 Consensus size: 42
699439 CGTTACCACT
*
699449 CCGACATCACCCGACACGAATCCCTCCCCGACCATCCCTACG
1 CCGACATCACCCGACACGAATCCCTCCCCGACCGTCCCTACG
699491 CCGACATCACCCGACACGAATCCCTCCCCGACCGTCCCTACG
1 CCGACATCACCCGACACGAATCCCTCCCCGACCGTCCCTACG
* * *
699533 CCAACATTACCCGACAC-AATTCCCTCCCCGACCGTCCCTACC
1 CCGACATCACCCGACACGAA-TCCCTCCCCGACCGTCCCTACG
** * *
699575 CCGACATTGCCCGACACAAATCCCACCCC
1 CCGACATCACCCGACACGAATCCCTCCCC
699604 AACTGCGCCC
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
41 2 0.02
42 100 0.96
43 2 0.02
ACGTcount: A:0.24, C:0.52, G:0.11, T:0.13
Consensus pattern (42 bp):
CCGACATCACCCGACACGAATCCCTCCCCGACCGTCCCTACG
Found at i:705570 original size:35 final size:38
Alignment explanation
Indices: 705529--705601 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 38
705519 GTGTTCAAAT
705529 TTCC-AAAACACTTCAATTACATTCTAAA-CCT-TAAA
1 TTCCAAAAACACTTCAATTACATTCTAAATCCTATAAA
* * *
705564 TTCCAAAAACATTTTAATTATATTCTAAATCCTATAAA
1 TTCCAAAAACACTTCAATTACATTCTAAATCCTATAAA
705602 CCCTAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.12
36 21 0.66
37 3 0.09
38 4 0.12
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (38 bp):
TTCCAAAAACACTTCAATTACATTCTAAATCCTATAAA
Found at i:706694 original size:18 final size:19
Alignment explanation
Indices: 706657--706694 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
706647 TAAATCCAAG
*
706657 TCATGTGATCATACCTATT
1 TCATGTGATAATACCTATT
*
706676 TCATGTTATAATA-CTATT
1 TCATGTGATAATACCTATT
706694 T
1 T
706695 ACAAATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (19 bp):
TCATGTGATAATACCTATT
Found at i:707707 original size:11 final size:12
Alignment explanation
Indices: 707682--707716 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
707672 AAGATAAAAT
707682 TATTTATTATTA
1 TATTTATTATTA
707694 TATTTATT-TTA
1 TATTTATTATTA
707705 TATTTAATTATT
1 TATTT-ATTATT
707717 TGACCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:719095 original size:2 final size:2
Alignment explanation
Indices: 719090--719117 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
719080 ATCAAAAAAA
719090 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
719118 CAACTTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:727163 original size:3 final size:3
Alignment explanation
Indices: 727145--727196 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
727135 TGTAATATTA
* * * *
727145 AAT AAT ATAT ATT AAT AAT AAT AAT TAT TAT AAT TAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
727191 AAT AAT
1 AAT AAT
727197 TATATAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:727177 original size:9 final size:9
Alignment explanation
Indices: 727137--727200 Score: 69
Period size: 9 Copynumber: 7.2 Consensus size: 9
727127 TTGGGTTTTG
727137 TAAT-ATTA
1 TAATAATTA
727145 -AATAATATA
1 TAATAAT-TA
* *
727154 TATTAATAA
1 TAATAATTA
727163 TAATAATTA
1 TAATAATTA
*
727172 TTATAATTA
1 TAATAATTA
*
727181 TAATAATAA
1 TAATAATTA
727190 TAATAATTA
1 TAATAATTA
727199 TA
1 TA
727201 TAAATAACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
7 3 0.07
8 2 0.04
9 35 0.78
10 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:727611 original size:112 final size:112
Alignment explanation
Indices: 727433--728174 Score: 1278
Period size: 112 Copynumber: 6.7 Consensus size: 112
727423 TAGAGTCATT
* *
727433 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
727494 TTATGAACTTTCTCT-GTAAAGGTTGATCTATTAAGTGATGAATTCAAG
65 TTATGAACTTTCTCTGGCAAA-GCTGATCCATCAAATGATGAATTCAAG
727542 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
727607 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATAAATTCAAG
66 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
727654 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
727719 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
66 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
* *
727766 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTTAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
727831 TATGAACTTTCTCTGGCAAAGTTGATCCATCAAATGATAAATTCAAG
66 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
*
727878 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
727943 TATGAAATTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAG
66 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
*
727990 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
728055 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
66 TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
*
728102 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
728167 TATGAACT
66 TATGAACT
728175 CTGTTGAAAA
Statistics
Matches: 604, Mismatches: 24, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
108 25 0.04
109 6 0.01
110 3 0.00
111 1 0.00
112 565 0.94
113 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (112 bp):
CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAG
Found at i:728506 original size:19 final size:19
Alignment explanation
Indices: 728482--728520 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
728472 TTGAATGCAT
728482 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
728501 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
728520 T
1 T
728521 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:728545 original size:56 final size:56
Alignment explanation
Indices: 728485--728602 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 56
728475 AATGCATTCC
*** *
728485 ATGCA-CCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGA
1 ATGCATCCGATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGA
** *
728541 ATGCATTTGATGCACAAGCCATGCATCGATGCATCAGACTATTTTTCAAACATCGA
1 ATGCATCCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGA
728597 ATGCAT
1 ATGCAT
728603 TTCATGCATC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 26 0.49
57 27 0.51
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
ATGCATCCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGA
Found at i:728554 original size:65 final size:61
Alignment explanation
Indices: 728468--728619 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 61
728458 GAATTAATTG
* * * *
728468 AACATTGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCA
1 AACATCGAATGCATTTCATGCA-CGATGCA--CGCCATGCATCGATGCA-TCAGAATATTTTTC-
728532 A
61 A
* *
728533 AACATCGAATGCATTTGATGCAC-A---A-GCCATGCATCGATGCATCAGACTATTTTTCA
1 AACATCGAATGCATTTCATGCACGATGCACGCCATGCATCGATGCATCAGAATATTTTTCA
728589 AACATCGAATGCATTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCA-CGATGCAC
728620 ACTTGGTGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
56 28 0.38
57 21 0.29
58 1 0.01
60 1 0.01
61 1 0.01
63 1 0.01
64 1 0.01
65 19 0.26
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (61 bp):
AACATCGAATGCATTTCATGCACGATGCACGCCATGCATCGATGCATCAGAATATTTTTCA
Found at i:728610 original size:56 final size:57
Alignment explanation
Indices: 728502--728610 Score: 168
Period size: 56 Copynumber: 1.9 Consensus size: 57
728492 GATGCACTCT
* *
728502 CCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTGATGCACAAG
1 CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCACAAG
*
728559 CCATGCATCGATGCA-TCAGACTATTTTTC-AAACATCGAATGCATTTCATGCA
1 CCATGCATCGATGCACTCAGAATA-TTTTCAAAACATCGAATGCATTTCATGCA
728611 TCGATGCACA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
56 28 0.58
57 20 0.42
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (57 bp):
CCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTCATGCACAAG
Found at i:729830 original size:14 final size:14
Alignment explanation
Indices: 729811--729844 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
729801 ACGCATAGCT
729811 ATGAAAATTTCAGG
1 ATGAAAATTTCAGG
729825 ATGAAAATTTCAGG
1 ATGAAAATTTCAGG
729839 ATGAAA
1 ATGAAA
729845 CCAAATGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (14 bp):
ATGAAAATTTCAGG
Found at i:734450 original size:20 final size:21
Alignment explanation
Indices: 734421--734476 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
734411 TTTGTGCTTC
*
734421 ATGCACCGATGCAT-TT-AAT
1 ATGCATCGATGCATCTTGAAT
734440 AATGCATCGATGCATCCTTGAAT
1 -ATGCATCGATGCAT-CTTGAAT
734463 ATGCATCGATGCAT
1 ATGCATCGATGCAT
734477 AAGACCATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.41
22 16 0.50
23 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAT
Found at i:736048 original size:21 final size:21
Alignment explanation
Indices: 736006--736049 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
735996 ACCCCGGGAG
*
736006 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
736027 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
736048 CT
1 CT
736050 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:737102 original size:19 final size:19
Alignment explanation
Indices: 737078--737116 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
737068 TCGAATGCAT
737078 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
737097 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
737116 T
1 T
737117 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:737221 original size:64 final size:65
Alignment explanation
Indices: 737064--737224 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
737054 GAATTAATTG
* * *** *
737064 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* * **
737129 AACATCGAATGTATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
737192 A
65 A
737193 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
737225 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:737239 original size:64 final size:64
Alignment explanation
Indices: 737064--737244 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 64
737054 GAATTAATTG
* * * *
737064 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* * ** **
737129 AACATCGAATGTATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
737193 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
737245 AGTGTTCCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.52
65 47 0.48
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:738923 original size:92 final size:92
Alignment explanation
Indices: 738822--739426 Score: 1111
Period size: 92 Copynumber: 6.6 Consensus size: 92
738812 GGTTTTATAT
*
738822 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
738887 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
738914 CAAACCAGATCAGATAACTCAAAGAACTCTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
738979 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
739006 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
739071 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
*
739098 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
*
739163 TTCAATAACTGGTTTTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
739190 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
739255 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
739282 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
739347 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
739374 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
739427 GGCATTTGTT
Statistics
Matches: 498, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 498 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (92 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
TTCAATAACTGGTTCTGTGGTTCATAC
Found at i:740800 original size:7 final size:7
Alignment explanation
Indices: 740788--740876 Score: 110
Period size: 7 Copynumber: 12.7 Consensus size: 7
740778 TTGACCCCCC
740788 TTTTTCT
1 TTTTTCT
740795 TTTTTCT
1 TTTTTCT
*
740802 TTTCTCT
1 TTTTTCT
*
740809 TTTCTCT
1 TTTTTCT
740816 TTCTTTCT
1 TT-TTTCT
740824 TTTTTCT
1 TTTTTCT
740831 CTTTTTC-
1 -TTTTTCT
740838 TTTTTCT
1 TTTTTCT
740845 TTTTTCT
1 TTTTTCT
740852 TTTTT-T
1 TTTTTCT
*
740858 CTTTTCT
1 TTTTTCT
*
740865 TTCTTCT
1 TTTTTCT
740872 TTTTT
1 TTTTT
740877 TCTTCAAGCA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
6 11 0.15
7 49 0.68
8 12 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:740811 original size:13 final size:13
Alignment explanation
Indices: 740789--740875 Score: 71
Period size: 13 Copynumber: 6.9 Consensus size: 13
740779 TGACCCCCCT
740789 TTTTCT-TTTTTC
1 TTTTCTCTTTTTC
740801 TTTTCTC-TTTTC
1 TTTTCTCTTTTTC
*
740813 TCTTTCT-TTCTT-
1 T-TTTCTCTTTTTC
740825 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
740838 TTTT-TCTTTTTTC
1 TTTTCTC-TTTTTC
*
740851 TTTT-TTTCTTTTC
1 TTTTCTCT-TTTTC
740864 -TTTCTTCTTTTT
1 TTTTC-TCTTTTT
740876 TTCTTCAAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
11 5 0.08
12 23 0.37
13 32 0.52
14 2 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:740824 original size:29 final size:28
Alignment explanation
Indices: 740788--740880 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 28
740778 TTGACCCCCC
740788 TTTTTCTTTTTTCTTTTCTCTTTTCTCT
1 TTTTTCTTTTTTCTTTTCTCTTTTCTCT
*
740816 TTCTTTCTTTTTTCTCTTTTTCTTTT-TCT
1 TT-TTTCTTTTTTCT-TTTCTCTTTTCTCT
740845 TTTTTCTTTTTTTCTTTTCT-TTCTTCT-T
1 TTTTTC-TTTTTTCTTTTCTCTT-TTCTCT
740873 TTTTTCTT
1 TTTTTCTT
740881 CAAGCATAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.07
28 19 0.33
29 26 0.45
30 9 0.16
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTTTCTTTTTTCTTTTCTCTTTTCTCT
Found at i:740829 original size:36 final size:33
Alignment explanation
Indices: 740788--740875 Score: 113
Period size: 36 Copynumber: 2.5 Consensus size: 33
740778 TTGACCCCCC
740788 TTTTTCTTTTTTCTTTTCTCTTTTCTCTTTCTTTCT
1 TTTTTCTTTTTTCTTTT-TCTTTTCTCTTT-TTT-T
*
740824 TTTTTCTCTTTTTCTTTTTCTTTTTTCTTTTTTT
1 TTTTTCT-TTTTTCTTTTTCTTTTCTCTTTTTTT
* *
740858 CTTTTCTTTCTTCTTTTT
1 TTTTTCTTTTTTCTTTTT
740876 TTCTTCAAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
33 10 0.21
34 7 0.15
35 3 0.06
36 18 0.38
37 10 0.21
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTTTCTTTTTTCTTTTTCTTTTCTCTTTTTTT
Found at i:748222 original size:15 final size:15
Alignment explanation
Indices: 748199--748230 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
748189 TGAAATGAAT
748199 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
748214 AATGCATGTATGCAA
1 AATGAATGTATGCAA
748229 AA
1 AA
748231 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:753675 original size:27 final size:27
Alignment explanation
Indices: 753633--753696 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
753623 GGTTTTGTAA
* *
753633 TATTAAATAATATATATTAATAATAAT
1 TATTATATAATATATAATAATAATAAT
753660 TATTATTATAAT-TATAATAATAATAAT
1 TATTA-TATAATATATAATAATAATAAT
753687 TATTATATAA
1 TATTATATAA
753697 ATAACATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 24 0.71
28 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TATTATATAATATATAATAATAATAAT
Found at i:755445 original size:20 final size:18
Alignment explanation
Indices: 755402--755436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
755392 TCAGCGATCT
*
755402 TATTCCCGCCAGTAATCA
1 TATTCCCACCAGTAATCA
*
755420 TATTCCCACTAGTAATC
1 TATTCCCACCAGTAATC
755437 TTATATTCCG
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:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (18 bp):
TATTCCCACCAGTAATCA
Found at i:757291 original size:29 final size:29
Alignment explanation
Indices: 757254--757324 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
757244 AAAACCGAAT
757254 TAAACGGGGACGGGGAAAA-TCGTTTATGC
1 TAAACGGGGACGGGGAAAACT-GTTTATGC
* *
757283 TAAATGGGGACGGGGAAAACTGTTTATGT
1 TAAACGGGGACGGGGAAAACTGTTTATGC
757312 TAAACGGGGACGG
1 TAAACGGGGACGG
757325 ATTTAGTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.37, T:0.21
Consensus pattern (29 bp):
TAAACGGGGACGGGGAAAACTGTTTATGC
Found at i:757372 original size:12 final size:12
Alignment explanation
Indices: 757349--757382 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
757339 GCCCCGATTA
757349 CCCGATTACCCGG
1 CCCGA-TACCCGG
757362 CCCGATACCCGG
1 CCCGATACCCGG
*
757374 CCCTATACC
1 CCCGATACC
757383 TGTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.18, C:0.50, G:0.18, T:0.15
Consensus pattern (12 bp):
CCCGATACCCGG
Found at i:758724 original size:47 final size:49
Alignment explanation
Indices: 758650--758749 Score: 159
Period size: 47 Copynumber: 2.1 Consensus size: 49
758640 GAGTTTTCGA
758650 AATTCAAAACTTTTAGAGTTTAGTGAC-AAAA-ATAGAAGAGAGAAAAT
1 AATTCAAAACTTTTAGAGTTTAGTGACAAAAATATAGAAGAGAGAAAAT
* * *
758697 AATTGAAAACTTTTAGTGTTTAGTGACAAAAATATATAAGAGAGAAAAT
1 AATTCAAAACTTTTAGAGTTTAGTGACAAAAATATAGAAGAGAGAAAAT
758746 AATT
1 AATT
758750 TAGTGATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
47 25 0.52
48 4 0.08
49 19 0.40
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (49 bp):
AATTCAAAACTTTTAGAGTTTAGTGACAAAAATATAGAAGAGAGAAAAT
Found at i:765623 original size:31 final size:30
Alignment explanation
Indices: 765574--765633 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
765564 TGTTAAGTTT
*
765574 TGGAAAAAATTGAAAGTTTAGGTACTAAAA
1 TGGAAAAAACTGAAAGTTTAGGTACTAAAA
*
765604 TGGATAAAAACTGATAGTTTAGGTACTAAA
1 TGGA-AAAAACTGAAAGTTTAGGTACTAAA
765634 CGCATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (30 bp):
TGGAAAAAACTGAAAGTTTAGGTACTAAAA
Found at i:776085 original size:2 final size:2
Alignment explanation
Indices: 776080--776104 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
776070 ATGTGACGTC
776080 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
776105 AAAGTTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:777767 original size:38 final size:38
Alignment explanation
Indices: 777725--777808 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
777715 CTATAAAAAT
* *
777725 TCGGGTCGGAGTCGAGTAGAGGGTATATATTTTTCGGG
1 TCGGGTCGGAGTCGAGTAGAGGGTATACAATTTTCGGG
* * *
777763 TCGGGTC-AAGTCGTGTGGAGGGTATACAATTTTCGGG
1 TCGGGTCGGAGTCGAGTAGAGGGTATACAATTTTCGGG
*
777800 TTGGGTCGG
1 TCGGGTCGG
777809 TTCGGGTGGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 31 0.82
38 7 0.18
ACGTcount: A:0.17, C:0.12, G:0.40, T:0.31
Consensus pattern (38 bp):
TCGGGTCGGAGTCGAGTAGAGGGTATACAATTTTCGGG
Found at i:777818 original size:37 final size:37
Alignment explanation
Indices: 777725--777820 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 37
777715 CTATAAAAAT
* * * * *
777725 TCGGGTCGGAGTCGAGTAGAGGGTATATATTTTTCGGG
1 TCGGGTC-AAGTCGGGTGGAGGGTATACAATTTTCGGG
*
777763 TCGGGTCAAGTCGTGTGGAGGGTATACAATTTTCGGG
1 TCGGGTCAAGTCGGGTGGAGGGTATACAATTTTCGGG
* *
777800 TTGGGTC-GGTTCGGGTGGAGG
1 TCGGGTCAAG-TCGGGTGGAGG
777821 TTGCATATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.02
37 41 0.84
38 7 0.14
ACGTcount: A:0.16, C:0.11, G:0.43, T:0.30
Consensus pattern (37 bp):
TCGGGTCAAGTCGGGTGGAGGGTATACAATTTTCGGG
Found at i:779798 original size:32 final size:32
Alignment explanation
Indices: 779757--779820 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
779747 TATCACTTAC
779757 ATATTTAAAAGTAATTACAATAATATTCCTTT
1 ATATTTAAAAGTAATTACAATAATATTCCTTT
779789 ATATTTAAAAGTAATTACAATAATATTCCTTT
1 ATATTTAAAAGTAATTACAATAATATTCCTTT
779821 GTATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (32 bp):
ATATTTAAAAGTAATTACAATAATATTCCTTT
Found at i:779829 original size:2 final size:2
Alignment explanation
Indices: 779822--779854 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
779812 TATTCCTTTG
779822 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
779855 CCTGCAGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:782334 original size:21 final size:22
Alignment explanation
Indices: 782308--782350 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
782298 CAAATGTCAA
782308 ATTTGAAATTAACTT-TTTTTT
1 ATTTGAAATTAACTTCTTTTTT
782329 ATTTGAAATTAACTTCTTTTTT
1 ATTTGAAATTAACTTCTTTTTT
782351 GTTAACTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (22 bp):
ATTTGAAATTAACTTCTTTTTT
Found at i:782625 original size:20 final size:20
Alignment explanation
Indices: 782586--782625 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
782576 CGGTAAAGCA
* *
782586 TTACCTAAAATATTATTTTC
1 TTACCGAAAATATTAATTTC
*
782606 TTACCGAAAATGTTAATTTC
1 TTACCGAAAATATTAATTTC
782626 GCTACTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (20 bp):
TTACCGAAAATATTAATTTC
Found at i:790773 original size:205 final size:206
Alignment explanation
Indices: 790298--790903 Score: 1133
Period size: 205 Copynumber: 2.9 Consensus size: 206
790288 TTAGAAACTG
*
790298 TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCGAAGC
1 TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCAAAGC
* * *
790363 ATAAACGTTCATTTTTTCTAACGAGTAATAAACGGACCAACGGTCTCCTTTACCCTTATTCACAG
66 ATAAACGTTCATTTTTTCTAACAAGTAATAAATGGACCAACGATC-CCTTTACCCTTATTCACAG
790428 TGATGTTTGGGGGCCTTCCACTATTTCTAACATAACTGGGGCTAGATGTTTTTTGTCTTTAATCT
130 TGATGTTTGGGGGCCTTCCACTATTTCTAACATAACTGGGGCTAGATG-TTTTTGTCTTTAATCT
790493 TAGAAACTATGTT
194 TAGAAACTATGTT
790506 TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCAAAGC
1 TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCAAAGC
790571 ATAAACGTTCATTTTTTCTAACAAGTAATAAATGGACCAACGATCCCTTTACCCTTATTCACAGT
66 ATAAACGTTCATTTTTTCTAACAAGTAATAAATGGACCAACGATCCCTTTACCCTTATTCACAGT
790636 GATGTTTGGGGGCCTTCCACTATTTCTAACATAACTGGGGCTAGATG-TTTTGTCTTTAATCTTA
131 GATGTTTGGGGGCCTTCCACTATTTCTAACATAACTGGGGCTAGATGTTTTTGTCTTTAATCTTA
790700 GAAACTATGTT
196 GAAACTATGTT
790711 TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCAAAGC
1 TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCAAAGC
790776 ATAAACGTTCATTTTTTCTAACAAGTAATAAATGGACCAACGATCCCTTTACCCTTATTCACAGT
66 ATAAACGTTCATTTTTTCTAACAAGTAATAAATGGACCAACGATCCCTTTACCCTTATTCACAGT
790841 GATGTTTGGGGGCCTTCCACTATTTTCTAACATAACTGGGGCTAGATGTTTTGTGTCTTTAAT
131 GATGTTTGGGGGCCTTCCACTA-TTTCTAACATAACTGGGGCTAGATGTTTT-TGTCTTTAAT
790904 AGACGATTGT
Statistics
Matches: 391, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
205 180 0.46
206 25 0.06
207 70 0.18
208 116 0.30
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (206 bp):
TCTCTCATTGTGTAATTCCTTAAATGTTGAAGAATTTCATTGTGAAGTTTGTGAATTTGCAAAGC
ATAAACGTTCATTTTTTCTAACAAGTAATAAATGGACCAACGATCCCTTTACCCTTATTCACAGT
GATGTTTGGGGGCCTTCCACTATTTCTAACATAACTGGGGCTAGATGTTTTTGTCTTTAATCTTA
GAAACTATGTT
Found at i:808046 original size:35 final size:35
Alignment explanation
Indices: 807995--808074 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
807985 GCAATCTTCG
*
807995 TCCCCATCCCCATTTGAGTTTCAAGGATAAAACTT
1 TCCCCATCCCCATTTGAGCTTCAAGGATAAAACTT
* *
808030 TCCCTATCCCCATTTGAGCTTCAGGGATAAAACTT
1 TCCCCATCCCCATTTGAGCTTCAAGGATAAAACTT
* *
808065 TTCTCATCCC
1 TCCCCATCCC
808075 GTCGATTCGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (35 bp):
TCCCCATCCCCATTTGAGCTTCAAGGATAAAACTT
Found at i:809168 original size:31 final size:31
Alignment explanation
Indices: 809080--809174 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
809070 GAACCTCGGC
* * * *
809080 AACTGTCCATAGGTCCCAAATAACCTAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
**
809111 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCAAAGAACATAGGTA
* *
809142 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCAAAGAACATAGGTA
809173 AA
1 AA
809175 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 48 0.92
32 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCAAAGAACATAGGTA
Found at i:809340 original size:17 final size:19
Alignment explanation
Indices: 809308--809343 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
809298 CATATATCTC
809308 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
809327 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
809344 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:809938 original size:64 final size:65
Alignment explanation
Indices: 809827--809975 Score: 196
Period size: 64 Copynumber: 2.3 Consensus size: 65
809817 TCTTTCAATG
* * * *
809827 AAGGTATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTT-TTTATTTTA
1 AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT-
809891 A
65 A
* * *
809892 AAGG-ATGCATCGATGCATTAGC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTTCTTTT
1 AAGGAATGCATCGATGCACTA-CTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTT
809955 A
65 A
809956 AAGGAATGCATCGATGCACT
1 AAGGAATGCATCGATGCACT
809976 TATGAATGTG
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 48 0.65
65 26 0.35
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTCTTTATTTTA
Found at i:811571 original size:21 final size:21
Alignment explanation
Indices: 811554--811599 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
811544 TATTAATTAT
811554 TTATATT-TTAATAATAATCAA
1 TTATATTATTAA-AATAATCAA
811575 TTATATTATTAAAATAATCAA
1 TTATATTATTAAAATAATCAA
811596 TTAT
1 TTAT
811600 TAATAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATTATTAAAATAATCAA
Found at i:811601 original size:24 final size:24
Alignment explanation
Indices: 811548--811601 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 24
811538 CTCTTATATT
811548 AATTATTTATATTTTAATAATAATC
1 AATTA-TTATATTTTAATAATAATC
*
811573 AATTA-TAT-TATTAA-AATAATC
1 AATTATTATATTTTAATAATAATC
811594 AATTATTA
1 AATTATTA
811602 ATAAATGCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.44
22 7 0.26
23 3 0.11
25 5 0.19
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATTATATTTTAATAATAATC
Found at i:822773 original size:35 final size:35
Alignment explanation
Indices: 822732--822807 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
822722 TTATCATTAA
*
822732 GATCAAATCCACTAGCTTGTTTAGAGATACTCATT
1 GATCAAATCCACTAGCTCGTTTAGAGATACTCATT
822767 GATCAAATCCACTAGCTCGTTTAGAGATACTCATT
1 GATCAAATCCACTAGCTCGTTTAGAGATACTCATT
822802 GATCAA
1 GATCAA
822808 CCCTCTACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (35 bp):
GATCAAATCCACTAGCTCGTTTAGAGATACTCATT
Found at i:824398 original size:29 final size:31
Alignment explanation
Indices: 824342--824410 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
824332 TTTCATTTAA
824342 GTACCTAAAGTTATCATTTTGGTCAAAATAG
1 GTACCTAAAGTTATCATTTTGGTCAAAATAG
* *
824373 GTACCTAAA-TTAT-TTTTTGGTTAAAATAG
1 GTACCTAAAGTTATCATTTTGGTCAAAATAG
*
824402 GTACATAAA
1 GTACCTAAA
824411 ATACACTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 22 0.63
30 4 0.11
31 9 0.26
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (31 bp):
GTACCTAAAGTTATCATTTTGGTCAAAATAG
Found at i:826006 original size:3 final size:3
Alignment explanation
Indices: 825998--826044 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
825988 AAAGGGGAAA
825998 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
826045 TTGACAGCTC
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:827014 original size:23 final size:23
Alignment explanation
Indices: 826970--827014 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
826960 TACGATATAC
* *
826970 ATATATATTTCTTCATATGTGAT
1 ATATATATATCTACATATGTGAT
826993 ATATATATATCATACATA-GTGA
1 ATATATATATC-TACATATGTGA
827015 GGAACTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (23 bp):
ATATATATATCTACATATGTGAT
Found at i:830983 original size:64 final size:64
Alignment explanation
Indices: 830882--831023 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
830872 AATGCAATTC
** * * * *
830882 GTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCGGTGCATCGATGCATAAGGA
1 GTGCATCGATGCATCCCAACAATAATGAAACATCGAATACAATCGATGCACCGATGCATAAGGA
* ** * * *
830946 GTGCATCGATGCATCCCAACAATAAT-ACTACATCGAATACCTTTGATGCACCGATGCATCAGTA
1 GTGCATCGATGCATCCCAACAATAATGA-AACATCGAATACAATCGATGCACCGATGCATAAGGA
831010 GTGCATCGATGCAT
1 GTGCATCGATGCAT
831024 TCCTTCATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 1 0.02
64 64 0.98
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATCCCAACAATAATGAAACATCGAATACAATCGATGCACCGATGCATAAGGA
Found at i:831349 original size:12 final size:12
Alignment explanation
Indices: 831332--831366 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
831322 ATATATGTTC
831332 ATGTGATATGAT
1 ATGTGATATGAT
831344 ATGTGATATGAT
1 ATGTGATATGAT
831356 ATGTGATATGA
1 ATGTGATATGA
831367 CATATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:831376 original size:24 final size:24
Alignment explanation
Indices: 831317--831378 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
831307 ACATGCATAA
*
831317 GACATATATATGTTCATGTGATAT
1 GACATATATATGATCATGTGATAT
* *
831341 GATATGTGATATGAT-ATGTGATAT
1 GACATAT-ATATGATCATGTGATAT
831365 GACATATAATATGA
1 GACATAT-ATATGA
831379 GAACATGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (24 bp):
GACATATATATGATCATGTGATAT
Found at i:831541 original size:15 final size:15
Alignment explanation
Indices: 831523--831584 Score: 115
Period size: 15 Copynumber: 4.1 Consensus size: 15
831513 GAGGGTATAA
831523 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
831538 TAGTCCTTCGGGGTG
1 TAGTCCTTCGGGATG
831553 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
831568 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
831583 TA
1 TA
831585 ATGGTCCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.13, C:0.19, G:0.34, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:831597 original size:18 final size:19
Alignment explanation
Indices: 831568--831623 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 19
831558 CTTCGGGATG
*
831568 TAGTCCTTCGGGATG-TAA
1 TAGTCCTACGGGATGATAA
*
831586 TGGTCCTACGGGACATAGATAA
1 TAGTCCTACGGG--AT-GATAA
831608 TAGTCCTACGGGATGA
1 TAGTCCTACGGGATGA
831624 ACACTGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 10 0.32
19 2 0.06
20 4 0.13
21 1 0.03
22 14 0.45
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (19 bp):
TAGTCCTACGGGATGATAA
Found at i:837942 original size:64 final size:64
Alignment explanation
Indices: 837841--837982 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
837831 AATGCAATTC
** * * * *
837841 GTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCGGTGCATCGATGCATAAGGA
1 GTGCATCGATGCATCCCAACAATAATGAAACATCGAATACAATCGATGCACCGATGCATAAGGA
* ** * * *
837905 GTGCATCGATGCATCCCAACAATAAT-ACTACATCGAATACCTTTGATGCACCGATGCATCAGTA
1 GTGCATCGATGCATCCCAACAATAATGA-AACATCGAATACAATCGATGCACCGATGCATAAGGA
837969 GTGCATCGATGCAT
1 GTGCATCGATGCAT
837983 ACCTTCATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 1 0.02
64 64 0.98
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATCCCAACAATAATGAAACATCGAATACAATCGATGCACCGATGCATAAGGA
Found at i:838308 original size:12 final size:12
Alignment explanation
Indices: 838290--838325 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
838280 TATATATGTT
838290 CATGTGATATGA
1 CATGTGATATGA
*
838302 TATGTGATATGA
1 CATGTGATATGA
*
838314 CATGTAATATGA
1 CATGTGATATGA
838326 GAACTTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:838490 original size:15 final size:15
Alignment explanation
Indices: 838470--838546 Score: 154
Period size: 15 Copynumber: 5.1 Consensus size: 15
838460 GAGGGTATAA
838470 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
838485 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
838500 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
838515 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
838530 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
838545 TA
1 TA
838547 ATGGTCCTAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 62 1.00
ACGTcount: A:0.14, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:839965 original size:21 final size:21
Alignment explanation
Indices: 839936--839978 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
839926 CTCTTTGGAA
*
839936 GCTATTATCCATGATTTTATG
1 GCTACTATCCATGATTTTATG
839957 GCTACTATCCATGATTTTATG
1 GCTACTATCCATGATTTTATG
839978 G
1 G
839979 ATTCTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.44
Consensus pattern (21 bp):
GCTACTATCCATGATTTTATG
Found at i:839985 original size:21 final size:21
Alignment explanation
Indices: 839941--839985 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
839931 TGGAAGCTAT
*
839941 TATCCATGATTTTATGGCTAC
1 TATCCATGATTTTATGGATAC
*
839962 TATCCATGATTTTATGGATTC
1 TATCCATGATTTTATGGATAC
839983 TAT
1 TAT
839986 AAAGGCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (21 bp):
TATCCATGATTTTATGGATAC
Found at i:842754 original size:32 final size:32
Alignment explanation
Indices: 842718--842802 Score: 77
Period size: 32 Copynumber: 2.7 Consensus size: 32
842708 GGAATATATT
* *
842718 GGGGCTCGAGAGCCTACCCAAGAAGGTTACTC-
1 GGGGCTCGAGAGCCTACCCAAGAAAGAT-CTCA
* * *
842750 GGGGC-CACAGGGCCTACGCAAGAAAGATCTCA
1 GGGGCTC-GAGAGCCTACCCAAGAAAGATCTCA
*
842782 GGGTCTCG-GAGCCTACCCAAG
1 GGGGCTCGAGAGCCTACCCAAG
842803 GGTCACCTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
31 15 0.37
32 25 0.61
33 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.32, T:0.13
Consensus pattern (32 bp):
GGGGCTCGAGAGCCTACCCAAGAAAGATCTCA
Found at i:843007 original size:32 final size:32
Alignment explanation
Indices: 842980--843041 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
842970 AACCCAATTG
* *
842980 AGTTTCTTGGGGCCTGAGAACCTACCCAAGAA
1 AGTTTCTCGGGGCCTCAGAACCTACCCAAGAA
*
843012 AGTTTCTCGGGGCCTCAGAGCCTACCCAAG
1 AGTTTCTCGGGGCCTCAGAACCTACCCAAG
843042 GGTCACCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (32 bp):
AGTTTCTCGGGGCCTCAGAACCTACCCAAGAA
Found at i:844107 original size:27 final size:27
Alignment explanation
Indices: 844075--844131 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
844065 TTTTGGATTC
* * *
844075 TTTTACTCTTCAGGGGTATTTTAGTCA
1 TTTTACACTTCAAGGGTATTTCAGTCA
* *
844102 TTTTACAGTTTAAGGGTATTTCAGTCA
1 TTTTACACTTCAAGGGTATTTCAGTCA
844129 TTT
1 TTT
844132 CCTTCAGTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (27 bp):
TTTTACACTTCAAGGGTATTTCAGTCA
Found at i:845631 original size:66 final size:64
Alignment explanation
Indices: 845524--845687 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
845514 TTTGATGAAG
* * * * *
845524 GTGCATCGATGCACATGGAGTGTATCGATGTA-CTCATTTAAAATAAATAAACATCGAAT-GACA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCACCTCA-TTAAAAT--ACAAACATCGAATAGA-A
845587 TTA
62 TTA
* *
845590 GTGCATCGATGCATAAGGAGTGGATCGATGCACCTGC-TTAAAATACAAACATCGAATAGGATTT
1 GTGCATCGATGCATAAGGAGTGCATCGATGCACCT-CATTAAAATACAAACATCGAATA-GAATT
845654 A
64 A
*
845655 -TGCATCGATGCAT-GGGTAGTGCATCGATGCACC
1 GTGCATCGATGCATAAGG-AGTGCATCGATGCACC
845688 CGTCAAGGGA
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
63 2 0.02
64 40 0.47
65 3 0.04
66 37 0.44
67 2 0.02
68 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCACCTCATTAAAATACAAACATCGAATAGAATTA
Found at i:846262 original size:22 final size:22
Alignment explanation
Indices: 846237--846335 Score: 137
Period size: 22 Copynumber: 4.5 Consensus size: 22
846227 GGTATATTAG
846237 TCCTTCGGGACGTATCCAGTGT
1 TCCTTCGGGACGTATCCAGTGT
*
846259 TCCTTCGGGACGTATCTAGTGGT
1 TCCTTCGGGACGTATCCAGT-GT
* *
846282 T-CTTCGGGACGTATCTAGTGG
1 TCCTTCGGGACGTATCCAGTGT
* *
846303 TCCTTCAGGACGTATCCAGTGA
1 TCCTTCGGGACGTATCCAGTGT
846325 TCCTTCGGGAC
1 TCCTTCGGGAC
846336 ATAGTGGTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.03
22 64 0.93
23 3 0.04
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.31
Consensus pattern (22 bp):
TCCTTCGGGACGTATCCAGTGT
Found at i:849163 original size:20 final size:20
Alignment explanation
Indices: 849138--849183 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
849128 AGAATTCGCA
*
849138 TTGCGATTTACATATTATCG
1 TTGCGATTTACATATTAGCG
* *
849158 TTGCGATTTACCTATTCGCG
1 TTGCGATTTACATATTAGCG
849178 TTGCGA
1 TTGCGA
849184 ATTTGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACATATTAGCG
Found at i:849315 original size:40 final size:40
Alignment explanation
Indices: 849271--849366 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
849261 AATTTGGAGA
* * *
849271 ATTCGCGTTGTGATTTACATATTATCGTTGCGGTTTACCT
1 ATTCGCGTTGTGAATTACATATTATCGTTGCGATTTAACT
* *
849311 ATTCGTGTTTTGAATTACATATTATCGTTGCGATTTAACT
1 ATTCGCGTTGTGAATTACATATTATCGTTGCGATTTAACT
*
849351 ATTCGCGTTGCGAATT
1 ATTCGCGTTGTGAATT
849367 TGGAAAATCA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.45
Consensus pattern (40 bp):
ATTCGCGTTGTGAATTACATATTATCGTTGCGATTTAACT
Found at i:849734 original size:20 final size:20
Alignment explanation
Indices: 849705--849775 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
849695 GGAGAAATTG
*
849705 CGTTGTGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
* **
849725 CGTTGCGATTTACCTATTCG
1 CGTTGCGATTTACATATTAT
*
849745 CGTTGCGAATTACATATTAT
1 CGTTGCGATTTACATATTAT
* *
849765 TGTTACGATTT
1 CGTTGCGATTT
849776 TGACTTTCGC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:849795 original size:20 final size:20
Alignment explanation
Indices: 849770--849816 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
849760 ATTATTGTTA
*
849770 CGATTTTGACTTTCGCTTTG
1 CGATTTTGACTTTCGCGTTG
849790 CGATTTTGACTTTCGCGTTG
1 CGATTTTGACTTTCGCGTTG
849810 CGATTTT
1 CGATTTT
849817 AGAACCTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (20 bp):
CGATTTTGACTTTCGCGTTG
Found at i:850326 original size:31 final size:32
Alignment explanation
Indices: 850286--850395 Score: 95
Period size: 31 Copynumber: 3.5 Consensus size: 32
850276 TTTTGTTTGC
850286 TTTGTTTTTGTTGTGATGAGGTTT-T-TTTTTT
1 TTTG-TTTTGTTGTGATGAGGTTTCTATTTTTT
* * *
850317 TTTGCTTTTGTTATGAT-ATGTTTCTATTTTCT
1 TTTG-TTTTGTTGTGATGAGGTTTCTATTTTTT
* *
850349 TTAG-TTTGTTGTGATG-GGTTTCTGTTTTTTT
1 TTTGTTTTGTTGTGATGAGGTTTCT-ATTTTTT
**
850380 TTTGGCTTGTTGTGAT
1 TTTGTTTTGTTGTGAT
850396 TATTTTTCCT
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
30 21 0.33
31 24 0.38
32 18 0.29
ACGTcount: A:0.08, C:0.05, G:0.22, T:0.65
Consensus pattern (32 bp):
TTTGTTTTGTTGTGATGAGGTTTCTATTTTTT
Found at i:850370 original size:30 final size:30
Alignment explanation
Indices: 850292--850376 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 30
850282 TTGCTTTGTT
* *
850292 TTTGTTGTGATGAGGTTT-TTTTTTTTTTGC
1 TTTGTTGTGATG-GGTTTCTTTTTCTTTAGC
* **
850322 TTTTGTTATGATATGTTTCTATTTTCTTTAG-
1 -TTTGTTGTGATGGGTTTCT-TTTTCTTTAGC
850353 TTTGTTGTGATGGGTTTCTGTTTT
1 TTTGTTGTGATGGGTTTCT-TTTT
850377 TTTTTTGGCT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
30 24 0.56
31 11 0.26
32 8 0.19
ACGTcount: A:0.09, C:0.05, G:0.21, T:0.65
Consensus pattern (30 bp):
TTTGTTGTGATGGGTTTCTTTTTCTTTAGC
Found at i:851736 original size:28 final size:27
Alignment explanation
Indices: 851697--851751 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
851687 ATTTTTTCTA
851697 AAAATATTAGAG-TTTAACTAAAATTTT
1 AAAATATTAGAGATTTAA-TAAAATTTT
* *
851724 AAAATTTTGAGAGATTTAATAAGATTTT
1 AAAATATT-AGAGATTTAATAAAATTTT
851752 TTTTTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 12 0.50
29 5 0.21
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (27 bp):
AAAATATTAGAGATTTAATAAAATTTT
Found at i:852386 original size:36 final size:36
Alignment explanation
Indices: 852339--852414 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
852329 ATTACTAAAC
* *
852339 CCGTCCCCGTTTAACATAAATGATTTTTTCCC-ATCT
1 CCGTCACCGTTTAACATAAACGA-TTTTTCCCTATCT
**
852375 CCGTCACCGTTTAGTATAAACGATTTTTCCCTATCT
1 CCGTCACCGTTTAACATAAACGATTTTTCCCTATCT
852411 CCGT
1 CCGT
852415 TTAATTCGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 8 0.23
36 27 0.77
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (36 bp):
CCGTCACCGTTTAACATAAACGATTTTTCCCTATCT
Found at i:854180 original size:22 final size:23
Alignment explanation
Indices: 854122--854186 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
854112 GTGTTTACAA
*
854122 AAATTAAAATAGATAAATAATAAT
1 AAATTAAAAT-GAAAAATAATAAT
* *
854146 AATACTATTAATGAAAAATAAT-AT
1 AA-ATTA-AAATGAAAAATAATAAT
854170 AAATTAAAATGATAAAA
1 AAATTAAAATGA-AAAA
854187 AGTAAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.15
23 7 0.21
24 6 0.18
25 12 0.36
26 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (23 bp):
AAATTAAAATGAAAAATAATAAT
Found at i:857812 original size:12 final size:12
Alignment explanation
Indices: 857797--857827 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
857787 ATTATTTAAA
*
857797 CGGGTATCGGGT
1 CGGGTATCGGGC
857809 CGGGTATCGGGC
1 CGGGTATCGGGC
857821 CGGGTAT
1 CGGGTAT
857828 ATATATTTAA
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:0.10, C:0.19, G:0.48, T:0.23
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:858484 original size:2 final size:2
Alignment explanation
Indices: 858477--858504 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
858467 TGCTTTTATC
858477 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
858505 CGGTTACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:862092 original size:37 final size:36
Alignment explanation
Indices: 862002--862106 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 36
861992 TCTTTTCGTC
*
862002 CTACTAGAATTTAAACTCCTAAAAATATGATAGAATT
1 CTACTAG-ATTTAAACTCCTAAAAATAGGATAGAATT
* * * * *
862039 TTGCTAGGATTCAAACTCTTAAAAATAGGATAGAGTT
1 CTACTA-GATTTAAACTCCTAAAAATAGGATAGAATT
*
862076 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTA-GATTTAAACTCCTAAAAATAGGAT
862107 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
37 54 0.98
38 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (36 bp):
CTACTAGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:862879 original size:19 final size:18
Alignment explanation
Indices: 862846--862884 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
862836 GTTTTTGATT
*
862846 TTTTTATATTATATTATA
1 TTTTCATATTATATTATA
862864 TTTTCATATTACTATTATA
1 TTTTCATATTA-TATTATA
862883 TT
1 TT
862885 GTTATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTCATATTATATTATA
Found at i:862910 original size:34 final size:34
Alignment explanation
Indices: 862854--862919 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
862844 TTTTTTTATA
862854 TTATATTATATTTTCATATTACT-A-TTATATTG
1 TTATATTATATTTTCATATTACTCATTTATATTG
* *
862886 TTATGATTATTATTTTTATTTTACTCATTTATAT
1 TTAT-ATTA-TATTTTCATATTACTCATTTATAT
862920 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.14
33 4 0.14
34 13 0.46
35 1 0.04
36 6 0.21
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (34 bp):
TTATATTATATTTTCATATTACTCATTTATATTG
Found at i:862974 original size:16 final size:16
Alignment explanation
Indices: 862953--863011 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 16
862943 CATTCATCTA
*
862953 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
862969 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
862984 TATT-TTTATTCTTTA-T
1 T-TTATTTATT-TTTACT
*
863000 TTT-TTCATTTTT
1 TTTATTTATTTTT
863012 TCATTTTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.08
15 18 0.47
16 13 0.34
17 4 0.11
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:862981 original size:25 final size:26
Alignment explanation
Indices: 862953--863004 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
862943 CATTCATCTA
* *
862953 TTTATTTATTTTTCCT-TTTATTTTT
1 TTTACTTATTTTTACTCTTTATTTTT
*
862978 TTTACTTATTTTTATTCTTTATTTTT
1 TTTACTTATTTTTACTCTTTATTTTT
863004 T
1 T
863005 CATTTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTACTTATTTTTACTCTTTATTTTT
Found at i:862986 original size:13 final size:13
Alignment explanation
Indices: 862953--863004 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
862943 CATTCATCTA
862953 TTTATTTATTTTTCC
1 TTTATTT-TTTTT-C
862968 TTTTATTTTTTTTAC
1 -TTTATTTTTTTT-C
*
862983 -TTATTTTTATTC
1 TTTATTTTTTTTC
862995 TTTATTTTTT
1 TTTATTTTTT
863005 CATTTTTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.03
13 18 0.56
15 6 0.19
16 7 0.22
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTTTC
Found at i:867455 original size:15 final size:16
Alignment explanation
Indices: 867437--867523 Score: 64
Period size: 15 Copynumber: 5.8 Consensus size: 16
867427 ATCAAGAACA
867437 AAAAAG-AAAAGAAGC
1 AAAAAGAAAAAGAAGC
*
867452 AAAATAAGAAAAAAAAG-
1 -AAA-AAGAAAAAGAAGC
*
867469 AAAAAGAAAAAGAAAC
1 AAAAAGAAAAAGAAGC
867485 -AAAAGAAAAA-AAG-
1 AAAAAGAAAAAGAAGC
*
867498 --AAAGAACAAA-AATC
1 AAAAAGAA-AAAGAAGC
867512 AAAAAGAAAAAG
1 AAAAAGAAAAAG
867524 GGACAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
12 6 0.10
13 5 0.09
14 2 0.03
15 23 0.40
16 12 0.21
17 3 0.05
18 7 0.12
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAGAAGC
Found at i:867462 original size:17 final size:15
Alignment explanation
Indices: 867430--867499 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 15
867420 AGATCCAATC
867430 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
867445 AAGAAGCAAAATAAGAA
1 AAGAA-CAAAA-AAGAA
*
867462 AA-AAAAGAAAAAGAAA
1 AAGAACA-AAAAAG-AA
*
867478 AAGAAACAAAAGAAAAA
1 AAG-AACAAAA-AAGAA
867495 AAGAA
1 AAGAA
867500 AGAACAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
15 9 0.20
16 16 0.36
17 15 0.33
18 5 0.11
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.01
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:867464 original size:9 final size:9
Alignment explanation
Indices: 867430--867522 Score: 57
Period size: 9 Copynumber: 9.9 Consensus size: 9
867420 AGATCCAATC
867430 AAGAACAAAA
1 AAGAA-AAAA
*
867440 AAG-AAAAG
1 AAGAAAAAA
* *
867448 AAGCAAAAT
1 AAGAAAAAA
867457 AAGAAAAAA
1 AAGAAAAAA
867466 AAGAAAAAGAAA
1 AAG--AAA-AAA
*
867478 AAGAAACAA
1 AAGAAAAAA
867487 AAG-AAAAA
1 AAGAAAAAA
867495 AAGAAAGAACA
1 AAGAAA-AA-A
*
867506 AA-AATCAAA
1 AAGAA-AAAA
867515 AAGAAAAA
1 AAGAAAAA
867523 GGGACAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
8 13 0.20
9 27 0.41
10 14 0.21
11 6 0.09
12 6 0.09
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:867473 original size:33 final size:34
Alignment explanation
Indices: 867436--867508 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
867426 AATCAAGAAC
* *
867436 AAAAAAG-AAAAGAAGCAAAATAAGAAAAA-AAAG
1 AAAAAAGAAAAAGAAACAAAAGAA-AAAAAGAAAG
867469 -AAAAAGAAAAAGAAACAAAAGAAAAAAAGAAAG
1 AAAAAAGAAAAAGAAACAAAAGAAAAAAAGAAAG
867502 AACAAAA
1 AA-AAAA
867509 ATCAAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 11 0.32
33 18 0.53
34 1 0.03
35 4 0.12
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.01
Consensus pattern (34 bp):
AAAAAAGAAAAAGAAACAAAAGAAAAAAAGAAAG
Found at i:867474 original size:6 final size:6
Alignment explanation
Indices: 867463--867523 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
867453 AAATAAGAAA
* * *
867463 AAAAAG AAAAAG AAAAAG AAACAA- AAGAA- AAAAAG AAAGAAC AAAAATC
1 AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAA-AAG AAAAA-G
867512 AAAAAG AAAAAG
1 AAAAAG AAAAAG
867524 GGACAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
5 6 0.13
6 28 0.60
7 13 0.28
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:867481 original size:21 final size:20
Alignment explanation
Indices: 867457--867523 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 20
867447 GAAGCAAAAT
867457 AAGAAAAAAAAGAAAAAGAAA
1 AAGAAAAAAAA-AAAAAGAAA
*
867478 AAGAAACAAAAGAAAAAA-AGA
1 AAGAAA-AAAA-AAAAAAGAAA
*
867499 AAGAACAAAAATCAAAAAGAAA
1 AAGAA-AAAAA-AAAAAAGAAA
867521 AAG
1 AAG
867524 GGACAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 22 0.58
22 15 0.39
23 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.01
Consensus pattern (20 bp):
AAGAAAAAAAAAAAAAGAAA
Found at i:869195 original size:106 final size:106
Alignment explanation
Indices: 869070--870125 Score: 1488
Period size: 106 Copynumber: 10.0 Consensus size: 106
869060 ATATCGTGCC
* * * *
869070 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
** *
869135 AATTTCAGAGCCAATTTCAACTTCACAATGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869176 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
869241 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869282 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
869347 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869388 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
869453 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869494 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTTTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
869559 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869600 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * * *
869664 AATTTTAGAGCTAGTTTCAACTTCGCAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869705 ACTCCAGACAACGCAAGTTCAGCTTCA-AGACGAAGGGACCGCTGGTTGTTAATAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACA-ACGAAGGGACCGCTGGTTGTCAACAAACAATTTCC
*
869769 CAATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** *
869811 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATTACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * *
869876 AATTTTAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
869917 AC-CCAAGACAACACAAGCTT-AACTTCACGACGAAGGGACGGTTGATTGTCAAC-AA-AATTT-
1 ACTCC-AGACAACGCAAG-TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTC
*
869977 -C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
870017 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * * *
870082 AGTTCCAGAG-TAATTTCAACTTCAC-GACGGAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
870122 ACTC
1 ACTC
870126 GGAACAATGT
Statistics
Matches: 866, Mismatches: 70, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
99 2 0.00
100 77 0.09
101 4 0.00
102 6 0.01
104 5 0.01
105 123 0.14
106 647 0.75
107 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:869862 original size:423 final size:423
Alignment explanation
Indices: 869070--870106 Score: 1633
Period size: 423 Copynumber: 2.5 Consensus size: 423
869060 ATATCGTGCC
* *
869070 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
** * * *
869135 AATTTCAGAGCCAATTTCAACTTCACAATGAATGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* *
869200 TCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACAACGAAGGGACGGCTGGTTGTCAA-CAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
869265 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
195 ACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTG
* *
869330 TCAATAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
260 TCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAA
869395 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCA
325 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCA
869460 GAGCCAATTTCAACTTCACAGCGAAGGATATTGG
390 GAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869494 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTTTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
869559 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
* * * *
869624 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTTAGAGCTAGTTTCAACTTCG
131 TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCA
*
869689 CAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAGCTTCAAGACGAAGGGACCGCTGGTTGT
196 CAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGT
* *
869754 TAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATATTGGACTCCAAA
261 CAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAA
** *
869819 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATTACTTCCCAATTTTAG
326 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAG
* *
869884 AGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
391 AGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
869917 AC-CCAAGACAACACAAGCTT-AACTTCACGACGAAGGGACGGTTGATTGTCAAC-AA-AA-TT-
1 ACTCC-AGACAACACAAG-TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTC
* *
869976 TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAA
64 TCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAA
* * * * *
870039 CTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCCTAGTTCCAGAG-TAATTTCAACT
129 CTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTCAACT
870103 TCAC
193 TCAC
870107 GACGGAGGAT
Statistics
Matches: 567, Mismatches: 43, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
417 101 0.18
418 18 0.03
419 2 0.00
420 2 0.00
421 2 0.00
422 4 0.01
423 289 0.51
424 149 0.26
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (423 bp):
ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACT
TCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGT
CAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAA
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAG
AGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:870877 original size:37 final size:37
Alignment explanation
Indices: 870827--870923 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
870817 TCCTAATAGA
* *
870827 ATTCAAACTCCTAAAAATAGGATAGAATTTTGCTAGG
1 ATTCAAACTCCTAAAAATAGGATAGAATTCTACTAGG
* *
870864 ATTCAAACTCCTAAAAATAGGATAGAGTTCTACTATG
1 ATTCAAACTCCTAAAAATAGGATAGAATTCTACTAGG
* *
870901 ATTTAAACTCCTAAAGATAGGAT
1 ATTCAAACTCCTAAAAATAGGAT
870924 CTACAAGCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
ATTCAAACTCCTAAAAATAGGATAGAATTCTACTAGG
Found at i:871708 original size:18 final size:19
Alignment explanation
Indices: 871682--871717 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
871672 TTTTTGATTT
*
871682 TTTTTATATTA-TATTATA
1 TTTTCATATTACTATTATA
871700 TTTTCATATTACTATTAT
1 TTTTCATATTACTATTAT
871718 TATTGTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCATATTACTATTATA
Found at i:871810 original size:16 final size:16
Alignment explanation
Indices: 871789--871839 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
871779 CATTCATTTA
*
871789 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
871805 TTTATTTATTTTTACT
1 TTTATTTATTTTTACT
871821 TATT-TTTATTCTTTA-T
1 T-TTATTTATT-TTTACT
871837 TTT
1 TTT
871840 TTCATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.06
16 24 0.75
17 6 0.19
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:872429 original size:2 final size:2
Alignment explanation
Indices: 872422--872491 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
872412 CTATTTTTGG
872422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
872464 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
872492 GAATTAGGGG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:872996 original size:20 final size:20
Alignment explanation
Indices: 872971--873025 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
872961 CATGAGTGAT
*
872971 TGATCAATGAATCAGATAAA
1 TGATCAATAAATCAGATAAA
*
872991 TGATCAATAAATTAGATAAA
1 TGATCAATAAATCAGATAAA
* * *
873011 TAATTAATAATTCAG
1 TGATCAATAAATCAG
873026 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (20 bp):
TGATCAATAAATCAGATAAA
Found at i:873053 original size:202 final size:202
Alignment explanation
Indices: 872707--873110 Score: 700
Period size: 202 Copynumber: 2.0 Consensus size: 202
872697 AAAATGGGTA
* * *
872707 AAATTATGCTAAATGGATCCAATAAGAAATGGTGGCTTTATAGAATTTATAACATGAGTGACTGA
1 AAATTATGCTAAATGGATCCAATAAAAAATGATGACTTTATAGAATTTATAACATGAGTGACTGA
872772 TCAATGAATCAGATAAATGATCAAAAAATTAGATAAATAATTAACAATTCAATTTAATTTTCCGT
66 TCAATGAATCAGATAAATGATCAAAAAATTAGATAAATAATTAACAATTCAATTTAATTTTCCGT
*
872837 CACTCACATTAATAATTAACTTCGAGTGATCAATTTATTATAAATTGATAATATTAATAATCAAT
131 CACCCACATTAATAATTAACTTCGAGTGATCAATTTATTATAAATTGATAATATTAATAATCAAT
872902 TGTTGCT
196 TGTTGCT
* *
872909 AAATTATGCTAAATGGATCCAATAAAAAATGATGATTTTATAGAATTTATAACATGAGTGATTGA
1 AAATTATGCTAAATGGATCCAATAAAAAATGATGACTTTATAGAATTTATAACATGAGTGACTGA
* * * **
872974 TCAATGAATCAGATAAATGATCAATAAATTAGATAAATAATTAATAATTCAGTTTAATTTTTTGT
66 TCAATGAATCAGATAAATGATCAAAAAATTAGATAAATAATTAACAATTCAATTTAATTTTCCGT
*
873039 CACCCACATTAATAATTAACTTCGAGTGATCCATTTATTATAAATTGATAATATTAATAATCAAT
131 CACCCACATTAATAATTAACTTCGAGTGATCAATTTATTATAAATTGATAATATTAATAATCAAT
873104 TGTTGCT
196 TGTTGCT
873111 TTTAAAACTT
Statistics
Matches: 190, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
202 190 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (202 bp):
AAATTATGCTAAATGGATCCAATAAAAAATGATGACTTTATAGAATTTATAACATGAGTGACTGA
TCAATGAATCAGATAAATGATCAAAAAATTAGATAAATAATTAACAATTCAATTTAATTTTCCGT
CACCCACATTAATAATTAACTTCGAGTGATCAATTTATTATAAATTGATAATATTAATAATCAAT
TGTTGCT
Found at i:881498 original size:31 final size:31
Alignment explanation
Indices: 881462--881521 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
881452 AACTTAAAAG
* *
881462 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
881493 AGTTTTATAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
881522 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:881989 original size:24 final size:24
Alignment explanation
Indices: 881962--882053 Score: 139
Period size: 24 Copynumber: 3.7 Consensus size: 24
881952 TAATATAATA
881962 TTAAAAAATTAATATTTAATTTAT
1 TTAAAAAATTAATATTTAATTTAT
*
881986 TTAAAAAATTAATATCTATAATATAAT
1 TTAAAAAATTAATAT-T-TAAT-TTAT
882013 ATTAAAAAATTAATATTTAATTTAT
1 -TTAAAAAATTAATATTTAATTTAT
882038 TTAAAAAATTAATATT
1 TTAAAAAATTAATATT
882054 AAAATTAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
24 31 0.50
25 4 0.06
26 8 0.13
27 4 0.06
28 15 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAAAAATTAATATTTAATTTAT
Found at i:882005 original size:52 final size:52
Alignment explanation
Indices: 881944--882052 Score: 218
Period size: 52 Copynumber: 2.1 Consensus size: 52
881934 TATAGTTTAA
881944 AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATT
1 AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATT
881996 AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATT
1 AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATT
882048 AATAT
1 AATAT
882053 TAAAATTAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (52 bp):
AATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATT
Found at i:889321 original size:21 final size:23
Alignment explanation
Indices: 889297--889339 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
889287 TTTTTTATTA
*
889297 AAATA-TACTAAA-ATATTATAG
1 AAATATTAATAAATATATTATAG
889318 AAATATTAATAAATATATTATA
1 AAATATTAATAAATATATTATA
889340 TTATATTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATATTAATAAATATATTATAG
Found at i:890055 original size:28 final size:29
Alignment explanation
Indices: 890008--890143 Score: 138
Period size: 28 Copynumber: 4.8 Consensus size: 29
889998 TTCAATGACT
* * * *
890008 TTAACGAGCAACAAGGCGAGTAAC-AAGC
1 TTAACGAGCAACGAGTCGAGCAACAAATC
*
890036 TTAACGAGCAATGAGTCGAGCAACAAAATTTC
1 TTAACGAGCAACGAGTCGAGCAAC-AAA--TC
*
890068 TTAACGAGC-ACGAGTCGAGC-A-AAATT
1 TTAACGAGCAACGAGTCGAGCAACAAATC
* *
890094 TTAACGAGCAATGAGTCGAGCAACAAATT
1 TTAACGAGCAACGAGTCGAGCAACAAATC
890123 TTAACGAGC-ACGAGTCGAGCA
1 TTAACGAGCAACGAGTCGAGCA
890144 TAATTTTAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.11
27 10 0.11
28 35 0.38
29 14 0.15
30 3 0.03
31 10 0.11
32 10 0.11
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.18
Consensus pattern (29 bp):
TTAACGAGCAACGAGTCGAGCAACAAATC
Found at i:890150 original size:55 final size:58
Alignment explanation
Indices: 890036--890153 Score: 206
Period size: 55 Copynumber: 2.1 Consensus size: 58
890026 AGTAACAAGC
890036 TTAACGAGCAATGAGTCGAGCAACAAAATTTCTTAACGAGCACGAGTCGAGCAAAATT
1 TTAACGAGCAATGAGTCGAGCAACAAAATTTCTTAACGAGCACGAGTCGAGCAAAATT
*
890094 TTAACGAGCAATGAGTCGAGCAAC-AAA-TT-TTAACGAGCACGAGTCGAGCATAATT
1 TTAACGAGCAATGAGTCGAGCAACAAAATTTCTTAACGAGCACGAGTCGAGCAAAATT
890149 TTAAC
1 TTAAC
890154 AAGCTTAATG
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
55 30 0.51
56 2 0.03
57 3 0.05
58 24 0.41
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (58 bp):
TTAACGAGCAATGAGTCGAGCAACAAAATTTCTTAACGAGCACGAGTCGAGCAAAATT
Found at i:890655 original size:21 final size:20
Alignment explanation
Indices: 890623--890681 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
890613 AATAATATTT
**
890623 TTTAGGATTTGAGTTTTTGG
1 TTTAGGATTTGAGTTTAAGG
*
890643 TTTAGAGTTTTGAGTTTAAGG
1 TTTAG-GATTTGAGTTTAAGG
890664 TTTAGGATTTGAGATTTA
1 TTTAGGATTTGAG-TTTA
890682 GATAAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (20 bp):
TTTAGGATTTGAGTTTAAGG
Done.