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 147 of 226
Found at i:48505988 original size:21 final size:21
Alignment explanation
Indices: 48505962--48506032 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
48505952 CTACAACTTA
* *
48505962 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
48505983 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
48506004 AAGCGGAGGTTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
48506025 AAGCAGAG
1 AAGCAGAG
48506033 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.48, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:48506478 original size:42 final size:42
Alignment explanation
Indices: 48506356--48506478 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
48506346 GTTTTTGTAT
* * * *
48506356 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAA
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTAA
** **
48506398 AAAAATGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTAA
**
48506440 CTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT
48506479 GTTTGTAAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTAA
Found at i:48506956 original size:20 final size:19
Alignment explanation
Indices: 48506931--48506981 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
48506921 AGCAATGAAT
*
48506931 CTGTTCACCAAGAGATATAA
1 CTGTTCA-CAAGAGATACAA
48506951 CTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
48506968 CTGTTCATCAAGAG
1 CTGTTCA-CAAGAG
48506982 TCAGAACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:48507355 original size:31 final size:29
Alignment explanation
Indices: 48507283--48507356 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
48507273 ACCTTAGGTT
*
48507283 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* ***
48507312 ACATTTTTGTCACTTATGTTATCGTGTTGTA
1 ACATTTTAGTCACTTATGTT-T-GAAATGTA
48507343 ACATTTTAGTCACT
1 ACATTTTAGTCACT
48507357 GAGCTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 1 0.03
31 17 0.46
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:48509956 original size:41 final size:40
Alignment explanation
Indices: 48509849--48509956 Score: 107
Period size: 39 Copynumber: 2.7 Consensus size: 40
48509839 TATATGTACG
*
48509849 TATATATTTTTAATATTGTAATTATTA-TTTAATATATATA
1 TATATATTTTT-ATAATGTAATTATTATTTTAATATATATA
* **
48509889 TATATACTTTT-T-ATGT-ATCTATTTATTTTCCTATATATA
1 TATATATTTTTATAATGTAAT-TA-TTATTTTAATATATATA
*
48509928 TGTATATTTTCTATAATGTAATTATTATT
1 TATATATTTT-TATAATGTAATTATTATT
48509957 ATTATTTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
36 2 0.04
37 5 0.09
38 4 0.07
39 19 0.35
40 11 0.20
41 6 0.11
42 6 0.11
43 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (40 bp):
TATATATTTTTATAATGTAATTATTATTTTAATATATATA
Found at i:48510372 original size:15 final size:15
Alignment explanation
Indices: 48510349--48510379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48510339 TTTTTATGCC
48510349 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
48510364 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
48510379 A
1 A
48510380 GTAGCATTTG
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:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:48522339 original size:44 final size:41
Alignment explanation
Indices: 48522280--48523337 Score: 368
Period size: 44 Copynumber: 24.7 Consensus size: 41
48522270 GATCTCATCT
48522280 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAG-AAGCA
*
48522324 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGA-T-AAGA-AGCA
* * *
48522369 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTA-AAGCCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * *
48522412 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AAACAA
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAGAAGC-A
* * * * * * *
48522456 AGATATTATCTCTTTGAAGTTGTAG-AGAGCAGAT-CGCATCTA
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGC-A
* *
48522498 A-TCTTATATCTCTGAAGTTGCAGTGGAGCAGATTA-AAGCTGA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGC--A
* * ** *
48522540 TAAT-TCTAT-TCCCTGAAGTTGTAGTGGAGTGGATTAA-AATC-
1 -AGTCT-TATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAGAAGCA
* * * * * *
48522581 AGATCTTATCTCTCTGAATTTGCAG-AGAGCAGAT-CGCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGCA
48522622 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGA-TAAG-AAGCA
* *
48522666 AGTCTTATCCTTCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGA-T-AAGA-AGCA
* *
48522711 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTA-AAGCCGA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * * *
48522754 TAATCCTAT-TCGCTAAAGTTGCAGTGGAGCAGATTAA-AAACA
1 -AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGA-TAAGAAGCA
* * * * *
48522796 CAGATCTTATCTCTCTGAAGTTACAG-AGAGCAGAT-CGCATCTA
1 -AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGC-A
* *
48522839 A-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTA-AAGCCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * * ** *
48522881 TAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAA-AATC-
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAGAAGCA
* * * * * ***
48522923 AGATCTTATCTCTCTGAAGTTGTAG-AGAGCATATCA-CATTT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGCA
48522964 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAG-AAGCA
* *
48523008 AGTCTTATCCTCCTGAAGTTGCAGT-GAGACAGACTGAAGATGGAA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAG-CAGA-T-AAGA-AGCA
* *
48523053 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * * * *
48523096 TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AATCA
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAGAAGCA
* * * * *
48523139 CAGATCTTATTTCTCTGAAGTTGCAG-AGAGCAGAT-CGCATCTA
1 -AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGC-A
* * * *
48523182 A-TATCATCTCCCTGAAGCTGCAGTGGAGCAGATTA-AAGTCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGATAAGAAG-C-A
* * * * * *
48523224 TAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAA-AACCTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-TAAGAAGC-A
* * * * * *
48523268 AGATCTTATCTCTCTGAAGTTACAG-AGAGCAGAT-CGCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGATAAGAAGCA
48523309 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAG
48523338 TAGACCCCAG
Statistics
Matches: 779, Mismatches: 147, Indels: 179
0.70 0.13 0.16
Matches are distributed among these distances:
39 1 0.00
40 118 0.15
41 74 0.09
42 63 0.08
43 100 0.13
44 302 0.39
45 114 0.15
46 7 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGATAAGAAGCA
Found at i:48522639 original size:125 final size:127
Alignment explanation
Indices: 48522285--48522654 Score: 419
Period size: 125 Copynumber: 2.9 Consensus size: 127
48522275 CATCTAGTCT
* * *
48522285 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG-TCTTATC-CTCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAACAAGATATTATCTCT-CTGAAGTTGCAG
* * * * *
48522348 TGAGGCAGA-CTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGA
63 AGA-GCAGATC-G--CAT--CTAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGA
48522412 TAATCC
122 TAATCC
* *
48522418 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAAAGATATTATCTCTTTGAAGTTGTAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAC-AAGATATTATCTCTCTGAAGTTGCAGAG
* * *
48522483 AGCAGATCGCATCTAATCTTATAT-CTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAATTC
65 AGCAGATCGCATCTAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
* ** * * *
48522546 TAT-TCCCTGAAGTTGTAGTGGAGTGGATTAAAATC-AGATCTTATCTCTCTGAATTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAAGATATTATCTCTCTGAAGTTGCAGAGA
*
48522609 GCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA
66 GCAGATCGCATCTAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA
48522655 CTAAGTAAGC
Statistics
Matches: 208, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
125 65 0.31
126 2 0.01
127 29 0.14
128 46 0.22
130 2 0.01
131 3 0.01
132 9 0.04
133 50 0.24
134 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAAGATATTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCTAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
Found at i:48522900 original size:342 final size:343
Alignment explanation
Indices: 48522269--48523342 Score: 1774
Period size: 342 Copynumber: 3.1 Consensus size: 343
48522259 AGCAGATTGA
*
48522269 AGATCTCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
1 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
*
48522334 TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGC
66 TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
48522399 AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAAAGATATTA
131 AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTA
* * * *
48522464 TCTCTTTGAAGTTGTAGAGAGCAGATCGCATCTAATCTTATATCTCTGAAGTTGCAGTGGAGCAG
196 TCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
48522529 ATTAAAGCTGATAATTCTAT-TCCCTGAAGTTGTAGTGGAGTGGATTAAAATCAGATCTTATCTC
261 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCAGATCTTATCTC
*
48522593 TCTGAATTTGCAGAGAGC
326 TCTGAAGTTGCAGAGAGC
*
48522611 AGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
1 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
* *
48522676 TTCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGC
66 TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
48522741 AGATTAAAGCCGATAATCCTAT-TCGCTAAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTA
131 AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTA
* *
48522805 TCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAG
196 TCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
48522870 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCAGATCTTATCTC
261 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCAGATCTTATCTC
*
48522935 TCTGAAGTTGTAGAGAGC
326 TCTGAAGTTGCAGAGAGC
* * *
48522953 ATATCACATTTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
1 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
* *
48523018 TCCTGAAGTTGCAGTGAGACAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
66 TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * *
48523083 AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTA
131 AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTA
* * * *
48523148 TTTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATATCATCTCCCTGAAGCTGCAGTGGAGCAG
196 TCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * *
48523213 ATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTTAGATCTTATC
261 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAA--TCAGATCTTATC
*
48523278 TCTCTGAAGTTACAGAGAGC
324 TCTCTGAAGTTGCAGAGAGC
*
48523298 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGAC
1 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
48523343 CCCAGAAATA
Statistics
Matches: 679, Mismatches: 49, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
341 115 0.17
342 351 0.52
343 143 0.21
345 70 0.10
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (343 bp):
AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCC
TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTA
TCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCAGATCTTATCTC
TCTGAAGTTGCAGAGAGC
Found at i:48522976 original size:126 final size:127
Alignment explanation
Indices: 48522711--48522996 Score: 423
Period size: 126 Copynumber: 2.3 Consensus size: 127
48522701 GAAGATGGCA
* *
48522711 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATTCGCTAAAGTTGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATTCCCTAAAGTTGC
*
48522776 AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
66 AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCT
* *
48522838 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTAT-TCCCTAAAGTTG
* ** * ** * *
48522903 TAGTGGAGTGGATT-AAAA-TCAGATCTTATCTCTCTGAAGTTGTAGAGAGCATATCACATTT
65 CAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCT
*
48522964 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
48522997 CTAAGTAAGC
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
126 68 0.48
127 54 0.38
128 21 0.15
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (127 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATTCCCTAAAGTTGC
AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCACATCT
Found at i:48523028 original size:126 final size:128
Alignment explanation
Indices: 48522627--48522996 Score: 401
Period size: 126 Copynumber: 2.9 Consensus size: 128
48522617 CATCTAGTCT
* * * *
48522627 TATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG-TCTTATC-CTTCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAACACAGATCTTATCTC-TCTGAAGTTACA
* * * * * * *
48522689 GTGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGA
63 GAGA-GCAGA-T-CACAT--CTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATAAAAGCCGA
48522754 TAATCC
123 TAATCC
* *
48522760 TAT-TCGCTAAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAG
* *
48522824 AGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
66 AGCAGATCACATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATAAAAGCCGATAATCC
* ** * **
48522887 TATCTCCCTGAAGTTGTAGTGGAGTGGATT-AAAA-TCAGATCTTATCTCTCTGAAGTTGTAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAG
* * * *
48522950 AGCATATCACATTTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
66 AGCAGATCACATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
48522997 CTAAGTAAGC
Statistics
Matches: 207, Mismatches: 26, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
126 68 0.33
127 55 0.27
128 21 0.10
129 2 0.01
130 5 0.02
131 7 0.03
132 45 0.22
133 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAG
AGCAGATCACATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATAAAAGCCGATAATCC
Found at i:48523230 original size:128 final size:128
Alignment explanation
Indices: 48523059--48523337 Score: 450
Period size: 128 Copynumber: 2.2 Consensus size: 128
48523049 GGAAAATCTT
*
48523059 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGTAG
* * *
48523124 AGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATATC
66 AGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAATATC
* * *
48523187 ATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGTAG
** * * *
48523252 AGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTT
66 AGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAATATC
48523315 ATCTCCCTGAAGTTGCAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
48523338 TAGACCCCAG
Statistics
Matches: 138, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
128 138 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (128 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGTAG
AGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAATATC
Found at i:48523300 original size:215 final size:215
Alignment explanation
Indices: 48522838--48523301 Score: 580
Period size: 217 Copynumber: 2.2 Consensus size: 215
48522828 GATCGCATCT
* *
48522838 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTA
* * * * * * *
48522903 TAGTGGAGTGGATTAAAATCAGATCTTATCTCTCTGAAGTTGTAGAGAGCATATCACATTTAGTC
66 CAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAATA
* * * *
48522968 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
131 TCATCTCCCTGAAGCTGCAGTGGAGCAGACTAAGTAAGCAAATCCTATCCTCCTGAAGTTGCAGT
* **
48523033 GAGACAGACTGAAGATGGAA
196 GAGACAGACTGAAAACCGAA
48523053 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTA
* *
48523118 CAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAA
66 CAGTGGAGCGGATTAAAAT--CAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAA
* *
48523183 TATCATCTCCCTGAAGCTGCAGTGGAGCAGATTAAAGT-CG-ATAATCCTAT-CTCCCTGAAGTT
129 TATCATCTCCCTGAAGCTGCAGTGGAGCAGACT-AAGTAAGCA-AATCCTATCCT-CCTGAAGTT
* * **
48523245 GCAGT-AGAGCGGA-TTAAAACCTTA
191 GCAGTGAGA-CAGACTGAAAACCGAA
* * * *
48523269 GATCTTATCTCTCTGAAGTTACAG-AGAGCAGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
48523302 CGCATCTAGT
Statistics
Matches: 215, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
215 88 0.41
216 32 0.15
217 91 0.42
218 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (215 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAATA
TCATCTCCCTGAAGCTGCAGTGGAGCAGACTAAGTAAGCAAATCCTATCCTCCTGAAGTTGCAGT
GAGACAGACTGAAAACCGAA
Found at i:48525506 original size:15 final size:15
Alignment explanation
Indices: 48525483--48525513 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48525473 TTTTTATGCC
48525483 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
48525498 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
48525513 A
1 A
48525514 GTAGCATTTG
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:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:48529338 original size:23 final size:21
Alignment explanation
Indices: 48529312--48529367 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
48529302 TAAAAAATAT
48529312 ATTAACTAAAATTTTATATAAAA
1 ATTAA-TAAAATTTTA-ATAAAA
*
48529335 ATTAAATAAAATTTTAATTAAA
1 ATT-AATAAAATTTTAATAAAA
48529357 A-TAATAAAATT
1 ATTAATAAAATT
48529368 AAAGGTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 9 0.29
21 1 0.03
22 6 0.19
23 13 0.42
24 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAATAAAATTTTAATAAAA
Found at i:48532579 original size:22 final size:22
Alignment explanation
Indices: 48532538--48532580 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48532528 ACAGCAGAAC
* **
48532538 AGGTTTTTAGCGGCGGTTTTTT
1 AGGTCTTTAGCGGCACTTTTTT
48532560 AGGTCTTTAGCGGCACTTTTT
1 AGGTCTTTAGCGGCACTTTTT
48532581 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.47
Consensus pattern (22 bp):
AGGTCTTTAGCGGCACTTTTTT
Found at i:48532725 original size:42 final size:42
Alignment explanation
Indices: 48532657--48533085 Score: 584
Period size: 42 Copynumber: 10.2 Consensus size: 42
48532647 GCTAACTATT
*
48532657 GCGGCGCTTACATAAAGAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGA-AAA-AAACGCCGCTAAAGATCATGTTCTTTA
*
48532701 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTTTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
48532743 GCGGCGCTT--AAAAAAACGCCGCTAAAGATAATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
48532783 GCGGCGCTTAGAAAAAAA-GCCCCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
48532824 GCGGCGCTT-TAAAAAAACGCCCCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
48532865 GCAGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
48532907 GCGGCGCTTAGGAAAAAATGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
48532949 GCGGCGCTTAGAAAAAAACGCCGCTAAAGCTCATGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * * * *
48532991 GCGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTTCTATA
1 GCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTTCTTTA
****
48533034 GCGGCGCTTCTTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTA
1 GCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTA
48533076 GCGGCGCTTA
1 GCGGCGCTTA
48533086 TTTCACAAAC
Statistics
Matches: 348, Mismatches: 30, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
40 45 0.13
41 62 0.18
42 192 0.55
43 38 0.11
44 11 0.03
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
GCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:48532949 original size:84 final size:82
Alignment explanation
Indices: 48532669--48533085 Score: 581
Period size: 82 Copynumber: 5.0 Consensus size: 82
48532659 GGCGCTTACA
*
48532669 TAAAGAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
1 TAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
*
48532734 TGTTTTTTAGCGGCGCT
66 TGTTCTTTAGCGGCGCT
* *
48532751 TAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGAAAAAAA-GCCCCTAAAGATCA
1 TAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
48532815 TGTTCTTTAGCGGCGCTT
66 TGTTCTTTAGCGGCGC-T
* *
48532833 TAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGATCA
1 TAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
48532898 TGTTCTTTAGCGGCGCT
66 TGTTCTTTAGCGGCGCT
* *
48532915 TAGGAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGCT
1 TA--AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAT
48532980 CATGTTCTTTAGCGGCGCTT
64 CATGTTCTTTAGCGGCGC-T
* * * * ****
48533000 TGGAAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTTCTTCAAAAACGCCGCTAAA-A
1 T--AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA
48533063 GT-AGTGTTCTTTAGCGGCGCT
63 -TCA-TGTTCTTTAGCGGCGCT
48533084 TA
1 TA
48533086 TTTCACAAAC
Statistics
Matches: 303, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
81 28 0.09
82 100 0.33
83 29 0.10
84 79 0.26
85 66 0.22
87 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (82 bp):
TAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
TGTTCTTTAGCGGCGCT
Found at i:48533522 original size:12 final size:12
Alignment explanation
Indices: 48533505--48533544 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
48533495 TTTTGAACCT
*
48533505 CTGCTTCTATTG
1 CTGCTTCTATCG
*
48533517 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
48533529 CTGCTTCTCTCG
1 CTGCTTCTATCG
48533541 CTGC
1 CTGC
48533545 GACCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:48533591 original size:21 final size:20
Alignment explanation
Indices: 48533529--48533593 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 20
48533519 GCTTCTCTCG
48533529 CTGCTTCTCTCGCTGCGACCT
1 CTGCTTCTCTCGCTGCG-CCT
*
48533550 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTG-CGCCT
*
48533571 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTG-CGCCT
48533592 CT
1 CT
48533594 ACTTTAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (20 bp):
CTGCTTCTCTCGCTGCGCCT
Found at i:48539292 original size:9 final size:9
Alignment explanation
Indices: 48539257--48539398 Score: 191
Period size: 9 Copynumber: 16.0 Consensus size: 9
48539247 TTAAACAATA
48539257 ATGTAAGTT
1 ATGTAAGTT
*
48539266 A-GGAAGGTT
1 ATGTAA-GTT
48539275 ATGT-A-TT
1 ATGTAAGTT
48539282 ATGTAAGTT
1 ATGTAAGTT
48539291 ATGTAAGTT
1 ATGTAAGTT
48539300 ATGTAAGTT
1 ATGTAAGTT
48539309 ATGTAAGTT
1 ATGTAAGTT
* *
48539318 ATTTAATTT
1 ATGTAAGTT
48539327 ATGTAAGTT
1 ATGTAAGTT
*
48539336 ATGTAAGAT
1 ATGTAAGTT
*
48539345 ATGTAAGAT
1 ATGTAAGTT
48539354 ATGTAAGTT
1 ATGTAAGTT
* *
48539363 ATTTAATTT
1 ATGTAAGTT
48539372 ATGTAAGTT
1 ATGTAAGTT
48539381 ATGTAAGTT
1 ATGTAAGTT
48539390 ATGTAAGTT
1 ATGTAAGTT
48539399 TAATCTAAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.05
8 4 0.03
9 106 0.91
10 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:48539461 original size:39 final size:40
Alignment explanation
Indices: 48539375--48539478 Score: 140
Period size: 39 Copynumber: 2.5 Consensus size: 40
48539365 TTAATTTATG
48539375 TAAGTTATGTAAGTTATGTAAGTTTAATCTAAAAAAAAAATTA
1 TAAGTTATGT-A-TTATGTAAGTTTAATCT-AAAAAAAAATTA
**
48539418 TAAGTTATGTATTATGTAAGTTTATAT-T-AAAAAATTTTA
1 TAAGTTATGTATTATGTAAGTTTA-ATCTAAAAAAAAATTA
48539457 TAAGTTATGTATTATGTAAGTT
1 TAAGTTATGTATTATGTAAGTT
48539479 AAAAGTAATG
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
39 31 0.53
41 14 0.24
42 3 0.05
43 10 0.17
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.44
Consensus pattern (40 bp):
TAAGTTATGTATTATGTAAGTTTAATCTAAAAAAAAATTA
Found at i:48539484 original size:23 final size:23
Alignment explanation
Indices: 48539458--48539501 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48539448 AAAATTTTAT
*
48539458 AAGTTATGTATTATGTAAGTTAA
1 AAGTAATGTATTATGTAAGTTAA
48539481 AAGTAATGTATTATGTAAGTT
1 AAGTAATGTATTATGTAAGTT
48539502 TACATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGTAATGTATTATGTAAGTTAA
Found at i:48539501 original size:39 final size:39
Alignment explanation
Indices: 48539370--48539486 Score: 108
Period size: 39 Copynumber: 2.9 Consensus size: 39
48539360 GTTATTTAAT
* * **
48539370 TTATGTAAGTTATGTAAGTTATGTAAGTTTAATCTAAAAAAA
1 TTATATAAGTTATGT-A-TTATGTAAGTTAAAAGT-AAAAAA
** * * *
48539412 AAATTATAAGTTATGTATTATGTAAGTTTATATTAAAAAA
1 TTA-TATAAGTTATGTATTATGTAAGTTAAAAGTAAAAAA
*
48539452 TTTTATAAGTTATGTATTATGTAAGTTAAAAGTAA
1 TTATATAAGTTATGTATTATGTAAGTTAAAAGTAA
48539487 TGTATTATGT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
39 29 0.47
40 6 0.10
41 14 0.23
42 2 0.03
43 11 0.18
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.43
Consensus pattern (39 bp):
TTATATAAGTTATGTATTATGTAAGTTAAAAGTAAAAAA
Found at i:48539572 original size:63 final size:63
Alignment explanation
Indices: 48539500--48539656 Score: 296
Period size: 63 Copynumber: 2.5 Consensus size: 63
48539490 ATTATGTAAG
*
48539500 TTTACATATATGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTTAAGTAACATACTTAAAT
1 TTTACATATAAGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTTAAGTAACATACTTAAAT
48539563 TTTACATATAAGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTTAAGTAACATACTTAAAT
1 TTTACATATAAGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTTAAGTAACATACTTAAAT
*
48539626 TTTACATATAAGTAAACTTACTTAAATTTTA
1 TTTACATATAAGTAAACTTGCTTAAATTTTA
48539657 CATATAAGTA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 92 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (63 bp):
TTTACATATAAGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTTAAGTAACATACTTAAAT
Found at i:48539650 original size:27 final size:27
Alignment explanation
Indices: 48539608--48539819 Score: 141
Period size: 27 Copynumber: 7.6 Consensus size: 27
48539598 GTAATAATTT
*
48539608 TAAGT-AACATACTTAAATTTTACATA
1 TAAGTAAACTTACTTAAATTTTACATA
48539634 TAAGTAAACTTACTTAAATTTTACATA
1 TAAGTAAACTTACTTAAATTTTACATA
*
48539661 TAAGTAAACTTACTTAAATTTT--A-G
1 TAAGTAAACTTACTTAAATTTTACATA
* * * * *
48539685 TAAGTAATGTATTTAATTAACATACTTAAATT
1 TAAGTAA---ACTTACTTAA-AT-TTTACATA
* * *
48539717 TTAGATATAAGTAAACTTACTTAAATTTTACATA
1 TAAG-TA-AACT-TAC-T---TAAATTTTACATA
*
48539751 TAAGTAAACTTACTTAAATTTT--A-G
1 TAAGTAAACTTACTTAAATTTTACATA
*
48539775 TAAGTAATAACATACTTAAATTTTACATA
1 TAAGT-A-AACTTACTTAAATTTTACATA
48539804 TAAGTAAACTTACTTA
1 TAAGTAAACTTACTTA
48539820 TGTAAGTTAT
Statistics
Matches: 145, Mismatches: 20, Indels: 41
0.70 0.10 0.20
Matches are distributed among these distances:
24 12 0.08
25 3 0.02
26 20 0.14
27 67 0.46
28 4 0.03
29 7 0.05
30 1 0.01
31 5 0.03
32 7 0.05
33 5 0.03
34 9 0.06
35 2 0.01
36 3 0.02
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (27 bp):
TAAGTAAACTTACTTAAATTTTACATA
Found at i:48539659 original size:90 final size:87
Alignment explanation
Indices: 48539545--48539819 Score: 413
Period size: 90 Copynumber: 3.2 Consensus size: 87
48539535 GTAATAATTT
* *
48539545 TAAGT-AACATACTTAAATTTTACATATAAGTAAACTTGCTTAAATTTTAGTAAGTAATAATTTT
1 TAAGTAAACTTACTTAAATTTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAAT--TTTT
48539609 AAGTAACATACTTAAATTTTACATA
64 AA-TAACATACTTAAATTTTACATA
48539634 TAAGTAAACTTACTTAAATTTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTT
1 TAAGTAAACTTACTTAAATTTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAAT-T-TTT
*
48539699 AATTAACATACTTAAATTTTAGATA
64 AA-TAACATACTTAAATTTTACATA
48539724 TAAGTAAACTTACTTAAATTTTACATATAAGTAAACTTACTTAAATTTTAGTAAG-------TAA
1 TAAGTAAACTTACTTAAATTTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATTTTTAA
48539782 TAACATACTTAAATTTTACATA
66 TAACATACTTAAATTTTACATA
48539804 TAAGTAAACTTACTTA
1 TAAGTAAACTTACTTA
48539820 TGTAAGTTAT
Statistics
Matches: 178, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
80 37 0.21
81 3 0.02
89 6 0.03
90 132 0.74
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (87 bp):
TAAGTAAACTTACTTAAATTTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATTTTTAA
TAACATACTTAAATTTTACATA
Found at i:48539797 original size:26 final size:27
Alignment explanation
Indices: 48539703--48539819 Score: 150
Period size: 27 Copynumber: 4.4 Consensus size: 27
48539693 GTATTTAATT
48539703 AACATACTTAAATTTTAGATATAAGTA
1 AACATACTTAAATTTTAGATATAAGTA
* *
48539730 AACTTACTTAAATTTTACATATAAGTA
1 AACATACTTAAATTTTAGATATAAGTA
*
48539757 AACTTACTTAAATTTTAG---TAAGTAA
1 AACATACTTAAATTTTAGATATAAGT-A
*
48539782 TAACATACTTAAATTTTACATATAAGTA
1 -AACATACTTAAATTTTAGATATAAGTA
*
48539810 AACTTACTTA
1 AACATACTTA
48539820 TGTAAGTTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.06
25 1 0.01
26 16 0.20
27 51 0.65
28 1 0.01
29 5 0.06
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (27 bp):
AACATACTTAAATTTTAGATATAAGTA
Found at i:48539800 original size:53 final size:54
Alignment explanation
Indices: 48539707--48539819 Score: 178
Period size: 53 Copynumber: 2.1 Consensus size: 54
48539697 TTAATTAACA
*
48539707 TACTTAAATTTTAGATATAAGTAAACTTACTTAAATTTTACATATAAGTAAACT
1 TACTTAAATTTTAGATATAAGTAAACATACTTAAATTTTACATATAAGTAAACT
48539761 TACTTAAATTTTAG---TAAGTAATAACATACTTAAATTTTACATATAAGTAAACT
1 TACTTAAATTTTAGATATAAGT-A-AACATACTTAAATTTTACATATAAGTAAACT
48539814 TACTTA
1 TACTTA
48539820 TGTAAGTTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
51 5 0.09
52 1 0.02
53 36 0.64
54 14 0.25
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (54 bp):
TACTTAAATTTTAGATATAAGTAAACATACTTAAATTTTACATATAAGTAAACT
Found at i:48539847 original size:13 final size:13
Alignment explanation
Indices: 48539831--48539882 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
48539821 GTAAGTTATG
*
48539831 TAAGTAATGTATT
1 TAAGTAATATATT
*
48539844 TAAGTAACATATT
1 TAAGTAATATATT
* *
48539857 TGAGTAATAAATT
1 TAAGTAATATATT
48539870 TAA-TATATATATT
1 TAAGTA-ATATATT
48539883 AGTAATAAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
12 2 0.06
13 29 0.94
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:48542010 original size:19 final size:19
Alignment explanation
Indices: 48541986--48542027 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48541976 GGTCGGGTTT
*
48541986 GGGGAGCTGTTAGGGATTA
1 GGGGAGATGTTAGGGATTA
* *
48542005 GGGGAGATTTTAGGGATTT
1 GGGGAGATGTTAGGGATTA
48542024 GGGG
1 GGGG
48542028 GGAGAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.50, T:0.29
Consensus pattern (19 bp):
GGGGAGATGTTAGGGATTA
Found at i:48542607 original size:74 final size:74
Alignment explanation
Indices: 48542529--48542757 Score: 209
Period size: 74 Copynumber: 3.1 Consensus size: 74
48542519 TCAAGCTTGT
48542529 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
1 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
48542594 CAAATTTGC
66 CAAATTTGC
*** * * *** * ***
48542603 GGCGTTT-CATGTAAAGCGCCACTAA-A-TATAAGATC-AAACGATGTCGTTTC-CCCAACATTG
1 GGCGTTTCCAAACAAA-CGCCACTAATACCAT-TGA-CAAAACGACAACATTTCGATAAACA-T-
* ** *
48542663 AACT-CAAGCTTGT
61 AAATACAAATTTGC
*
48542676 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTTGATAAACATAAATA
1 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
*
48542741 CAATTTTGC
66 CAAATTTGC
48542750 GGCGTTTC
1 GGCGTTTC
48542758 ATGTAAAGCA
Statistics
Matches: 111, Mismatches: 33, Indels: 22
0.67 0.20 0.13
Matches are distributed among these distances:
72 6 0.05
73 46 0.41
74 53 0.48
75 6 0.05
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (74 bp):
GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
CAAATTTGC
Found at i:48542623 original size:147 final size:147
Alignment explanation
Indices: 48542468--48542847 Score: 697
Period size: 147 Copynumber: 2.6 Consensus size: 147
48542458 CATTTTAAGC
*
48542468 AAAGCGCCACTAAATATAAGATCAAACGATGTCATTTCCCCAACATTTAACTCAAGCTTGTGGCG
1 AAAGCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCG
48542533 TTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATACAAA
66 TTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATACAAA
48542598 TTTGCGGCGTTTCATGT
131 TTTGCGGCGTTTCATGT
*
48542615 AAAGCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTGAACTCAAGCTTGTGGCG
1 AAAGCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCG
* *
48542680 TTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTTGATAAACATAAATACAAT
66 TTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATACAAA
48542745 TTTGCGGCGTTTCATGT
131 TTTGCGGCGTTTCATGT
* * *
48542762 AAAGCACCACTAAATATAAGATCAAACAATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCA
1 AAAGCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCG
48542827 TTTCCAAACAAACGCCACTAA
66 TTTCCAAACAAACGCCACTAA
48542848 AATAAAACAT
Statistics
Matches: 225, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 225 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (147 bp):
AAAGCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCG
TTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATACAAA
TTTGCGGCGTTTCATGT
Found at i:48543622 original size:23 final size:24
Alignment explanation
Indices: 48543594--48543652 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
48543584 GTACTAAACA
48543594 TTAAACCTTAAACCC-TAAACCC-C
1 TTAAACC-TAAACCCTTAAACCCTC
*
48543617 TTAAA-CTATAGCCCTTAAACCCTC
1 TTAAACCTA-AACCCTTAAACCCTC
48543641 TTAAACCCTAAA
1 TTAAA-CCTAAA
48543653 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 2 0.07
22 5 0.17
23 12 0.41
24 6 0.21
25 1 0.03
26 3 0.10
ACGTcount: A:0.39, C:0.34, G:0.02, T:0.25
Consensus pattern (24 bp):
TTAAACCTAAACCCTTAAACCCTC
Found at i:48544098 original size:72 final size:74
Alignment explanation
Indices: 48543942--48544118 Score: 175
Period size: 73 Copynumber: 2.4 Consensus size: 74
48543932 AAATAATTAT
* * * *
48543942 TTTGCGGCGCTTATCAATAAATGCCGCTAAATCACCCAAATACTAAGTAAAACGATCGCATTGGG
1 TTTGCGGCGCTTATCAAGAAACGCCGCTAAAACACCCAAATACTAAGTAAAACGATCGCATTCGG
48544007 CTTATGTTA
66 CTTATGTTA
* * * * * * *
48544016 TTGGCAGCGCTTATCCA-AAACGCCGCTAAAAC-CCCGAATACTCAG-AGAACGAT-GTCGTTCG
1 TTTGCGGCGCTTATCAAGAAACGCCGCTAAAACACCCAAATACTAAGTAAAACGATCG-CATTCG
*
48544077 GCTTATATTTA
65 GCTTAT-GTTA
*
48544088 TTTGCGGCGCTT-TCGTAGAAACGCCGCTAAA
1 TTTGCGGCGCTTATC-AAGAAACGCCGCTAAA
48544119 GTACTGAACA
Statistics
Matches: 85, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
70 1 0.01
71 19 0.22
72 25 0.29
73 26 0.31
74 14 0.16
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (74 bp):
TTTGCGGCGCTTATCAAGAAACGCCGCTAAAACACCCAAATACTAAGTAAAACGATCGCATTCGG
CTTATGTTA
Found at i:48553138 original size:20 final size:19
Alignment explanation
Indices: 48553112--48553150 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48553102 ATTGCAAGCC
48553112 TAAAAAAATCTAAAGATGG
1 TAAAAAAATCTAAAGATGG
48553131 TAAAAAAATCTAAAGATGG
1 TAAAAAAATCTAAAGATGG
48553150 T
1 T
48553151 GACAATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.23
Consensus pattern (19 bp):
TAAAAAAATCTAAAGATGG
Found at i:48554895 original size:32 final size:32
Alignment explanation
Indices: 48554841--48554916 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
48554831 CATTATAAAT
* * *
48554841 TTATAAATTCATTACTTGAATTTAATAACTTA
1 TTATTAATTAATTAATTGAATTTAATAACTTA
* *
48554873 TTATTAATTAATTAATTTAATTTGATAACTTA
1 TTATTAATTAATTAATTGAATTTAATAACTTA
*
48554905 -TATTGATTAATT
1 TTATTAATTAATT
48554917 GAACTTGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 11 0.29
32 27 0.71
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.51
Consensus pattern (32 bp):
TTATTAATTAATTAATTGAATTTAATAACTTA
Found at i:48558279 original size:42 final size:36
Alignment explanation
Indices: 48558231--48558314 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 36
48558221 TTTTTTCATT
48558231 ATTTTTCCTTTTTCTCTCATTTTCATTTTGACCTTGATTTTG
1 ATTTTTCCTTTTTCT-TC-TTTTCATTTT----TTGATTTTG
* *
48558273 ATTTTTCTTTTTTCTTCTTTTTATTTTTTGATTTTG
1 ATTTTTCCTTTTTCTTCTTTTCATTTTTTGATTTTG
48558309 ATTTTT
1 ATTTTT
48558315 GATTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
36 15 0.38
40 9 0.22
41 2 0.05
42 14 0.35
ACGTcount: A:0.11, C:0.13, G:0.06, T:0.70
Consensus pattern (36 bp):
ATTTTTCCTTTTTCTTCTTTTCATTTTTTGATTTTG
Found at i:48558302 original size:30 final size:30
Alignment explanation
Indices: 48558268--48558331 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
48558258 TTGACCTTGA
** **
48558268 TTTTGATTTTTCTTTTTTCTTCTTTTTATT
1 TTTTGATTTTGATTTTTGATTCTTTTTATT
*
48558298 TTTTGATTTTGATTTTTGATTTTTTTTATT
1 TTTTGATTTTGATTTTTGATTCTTTTTATT
48558328 TTTT
1 TTTT
48558332 TTGGGCTCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.09, C:0.05, G:0.06, T:0.80
Consensus pattern (30 bp):
TTTTGATTTTGATTTTTGATTCTTTTTATT
Found at i:48566342 original size:24 final size:23
Alignment explanation
Indices: 48566310--48566356 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48566300 GTGCAATCTT
48566310 AGATATGATATATGCAATCTTAGA
1 AGATATGAT-TATGCAATCTTAGA
* * *
48566334 AGATGTGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
48566357 GATTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:48566922 original size:23 final size:23
Alignment explanation
Indices: 48566885--48566928 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48566875 TATATATATA
*
48566885 TATATATATAGTATACGTATGCT
1 TATATATATAGTATACATATGCT
**
48566908 TATATATATCTTATACATATG
1 TATATATATAGTATACATATG
48566929 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (23 bp):
TATATATATAGTATACATATGCT
Found at i:48571160 original size:24 final size:23
Alignment explanation
Indices: 48571060--48571164 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 23
48571050 AAATTTATTG
48571060 TATATTATTATTTTAATTTTATA
1 TATATTATTATTTTAATTTTATA
* * *
48571083 TGTATTATTTTTCTTAGCTTTTCATGCA
1 TATATTATTATT-TTA-ATTTT-AT--A
*
48571111 T-TATT-TT-TTTTAAATTTATTA
1 TATATTATTATTTTAATTTTA-TA
*
48571132 AATATTATTATTTTAATTTTCATA
1 TATATTATTATTTTAATTTT-ATA
48571156 TATATTATT
1 TATATTATT
48571165 TCATATGTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
21 1 0.02
22 5 0.08
23 16 0.25
24 25 0.39
25 7 0.11
26 4 0.06
27 4 0.06
28 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.63
Consensus pattern (23 bp):
TATATTATTATTTTAATTTTATA
Found at i:48581986 original size:12 final size:12
Alignment explanation
Indices: 48581969--48581994 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48581959 GAAAATAGAC
48581969 TTTTAGCGGCAT
1 TTTTAGCGGCAT
48581981 TTTTAGCGGCAT
1 TTTTAGCGGCAT
48581993 TT
1 TT
48581995 AGACCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:48582302 original size:114 final size:114
Alignment explanation
Indices: 48582101--48582592 Score: 553
Period size: 113 Copynumber: 4.3 Consensus size: 114
48582091 CAAAAGATCA
* * * * * *
48582101 GCATTAGCAGTGTTTATG-AGAGAAACGCCGCAATAGTTCAAGCATTAGCGGCGCTTTTCCAAAA
1 GCATTAGCGGTGCTTATGCA-A-AAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTTTCTAAAA
* *
48582165 ACGCCG-TAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCCTAGTG
64 ACGCCGCAAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTAGTG
* * * *
48582215 GCATTAGTGGTGCTTATGCAAAAACACCGTTATAGGTCGAGCATTAGCGGCGCTTTTCTAAAAAT
1 GCATTAGCGGTGCTTATGCAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTTTCTAAAAAC
* *
48582280 GCCGCAAAAAATGTTAATCAAAATGCATTGTTCTATCTTGAGCTTAGTG
66 GCCGCAAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTAGTG
* * * * * * *
48582329 GAATTAGCGACT-TTTATGC-AAAATGCCGCTATAGGTCAAGAATTAGCGGCGGTTTTCTAAAAA
1 GCATTAGCG-GTGCTTATGCAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTTTCTAAAAA
* * * * *
48582392 TGCCGCAAAAAATGTTAATCAAAGCACATTGTTCTATCTTGAGCTTAATG
65 CGCCGCAAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTAGTG
* * *
48582442 GCATTAGCGGTGGTGCTTATGCAAAAACGCCACTATAGATCGAG-ATTTAGCGGCGCTTTTATAA
1 GCATTAGC---GGTGCTTATGCAAAAACGCCGCTATAGGTCGAGCA-TTAGCGGCGCTTTTCTAA
** * *
48582506 AAACATCGCAAAAAATGTTGATCAAAACGCACCGTTCTATCTTGAGCTTAGTG
62 AAACGCCGCAAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTAGTG
* * * *
48582559 GTATTAGCGGCGCTTATGCAAAAGCGCTGCTATA
1 GCATTAGCGGTGCTTATGCAAAAACGCCGCTATA
48582593 TATATGTCGA
Statistics
Matches: 318, Mismatches: 51, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
113 132 0.42
114 91 0.29
115 3 0.01
116 8 0.03
117 84 0.26
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (114 bp):
GCATTAGCGGTGCTTATGCAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTTTCTAAAAAC
GCCGCAAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTAGTG
Found at i:48582578 original size:230 final size:226
Alignment explanation
Indices: 48582127--48582581 Score: 606
Period size: 230 Copynumber: 2.0 Consensus size: 226
48582117 TGAGAGAAAC
* * * *
48582127 GCCGCAATAGTTCAAGCATTAGCGGCGCTTTTCCAAAAACGCCGTAAAAATGTTAATCAAAACGC
1 GCCGCAATAGGTCAAGAATTAGCGGCGCTTTTCCAAAAACGCCGAAAAAATGTTAATCAAAACAC
* ** *
48582192 ATCGTTCTATCTTGAGCCTAGTGGCATTAGTGGTGCTTATGCAAAAACACCGTTATAGGTCGAGC
66 ATCGTTCTATCTTGAGCCTAATGGCATTAGTGGTGCTTATGCAAAAACACCACTATAGATCGAGC
* ** * **
48582257 ATTAGCGGCGCTTTTCTAAAAATGCCGCAAAAAATGTTAATCAAAATGCATTGTTCTATCTTGAG
131 ATTAGCGGCGCTTTTATAAAAACACCGCAAAAAATGTTAATCAAAACGCACCGTTCTATCTTGAG
**
48582322 CTTAGTGGAATTAGCGACTTTTATGCAAAAT
196 CTTAGTGGAATTAGCGACGCTTATGCAAAAT
* * * * *
48582353 GCCGCTATAGGTCAAGAATTAGCGGCGGTTTTCTAAAAATGCCGCAAAAAATGTTAATCAAAGCA
1 GCCGCAATAGGTCAAGAATTAGCGGCGCTTTTCCAAAAACGCCG-AAAAAATGTTAATCAAAACA
* * *
48582418 CATTGTTCTATCTTGAGCTTAATGGCATTAGCGGTGGTGCTTATGCAAAAACGCCACTATAGATC
65 CATCGTTCTATCTTGAGCCTAATGGCATTA---GTGGTGCTTATGCAAAAACACCACTATAGATC
* *
48582483 GAG-ATTTAGCGGCGCTTTTATAAAAACATCGCAAAAAATGTTGATCAAAACGCACCGTTCTATC
127 GAGCA-TTAGCGGCGCTTTTATAAAAACACCGCAAAAAATGTTAATCAAAACGCACCGTTCTATC
* *
48582547 TTGAGCTTAGTGGTATTAGCGGCGCTTATGCAAAA
191 TTGAGCTTAGTGGAATTAGCGACGCTTATGCAAAA
48582582 GCGCTGCTAT
Statistics
Matches: 196, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
226 38 0.19
227 44 0.22
229 1 0.01
230 113 0.58
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (226 bp):
GCCGCAATAGGTCAAGAATTAGCGGCGCTTTTCCAAAAACGCCGAAAAAATGTTAATCAAAACAC
ATCGTTCTATCTTGAGCCTAATGGCATTAGTGGTGCTTATGCAAAAACACCACTATAGATCGAGC
ATTAGCGGCGCTTTTATAAAAACACCGCAAAAAATGTTAATCAAAACGCACCGTTCTATCTTGAG
CTTAGTGGAATTAGCGACGCTTATGCAAAAT
Found at i:48583026 original size:14 final size:14
Alignment explanation
Indices: 48582991--48583076 Score: 68
Period size: 14 Copynumber: 6.1 Consensus size: 14
48582981 TTCCCAAAGA
*
48582991 TATGGTTTA-GGAT
1 TATGGTTTAGGGTT
*
48583004 TATGATTTAGGGTT
1 TATGGTTTAGGGTT
*
48583018 TATGGTTTAGAGTT
1 TATGGTTTAGGGTT
*
48583032 TAGGGTTT-GGGTTT
1 TATGGTTTAGGG-TT
** * *
48583046 TATAATTTAAGATT
1 TATGGTTTAGGGTT
48583060 TATGGTTTAAGGGTT
1 TATGGTTT-AGGGTT
48583075 TA
1 TA
48583077 GAGAATATTG
Statistics
Matches: 54, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
13 10 0.19
14 37 0.69
15 7 0.13
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TATGGTTTAGGGTT
Found at i:48583043 original size:27 final size:27
Alignment explanation
Indices: 48582991--48583045 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
48582981 TTCCCAAAGA
*
48582991 TATGGTTTAGGATTATGATTTAGGGTT
1 TATGGTTTAGGATTAGGATTTAGGGTT
* *
48583018 TATGGTTTAGAGTTTAGGGTTT-GGGTT
1 TATGGTTTAG-GATTAGGATTTAGGGTT
48583045 T
1 T
48583046 TATAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (27 bp):
TATGGTTTAGGATTAGGATTTAGGGTT
Found at i:48583054 original size:21 final size:21
Alignment explanation
Indices: 48582994--48583068 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
48582984 CCAAAGATAT
* *
48582994 GGTTTA-GGATTATGATTTAG
1 GGTTTAGGGTTTATAATTTAG
* * *
48583014 GGTTTATGGTTTAGAGTTTAG
1 GGTTTAGGGTTTATAATTTAG
*
48583035 GGTTT-GGGTTTTATAATTTAA
1 GGTTTAGGG-TTTATAATTTAG
* *
48583056 GATTTATGGTTTA
1 GGTTTAGGGTTTA
48583069 AGGGTTTAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
20 8 0.19
21 32 0.76
22 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (21 bp):
GGTTTAGGGTTTATAATTTAG
Found at i:48583252 original size:15 final size:15
Alignment explanation
Indices: 48583232--48583261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48583222 GATTATTTAG
*
48583232 AATATAAATCTAAAT
1 AATATAAATATAAAT
48583247 AATATAAATATAAAT
1 AATATAAATATAAAT
48583262 TATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:48583514 original size:21 final size:20
Alignment explanation
Indices: 48583474--48583511 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
48583464 AATATATTGA
48583474 TGTATTTATTTTTTAAAATG
1 TGTATTTATTTTTTAAAATG
48583494 TGTATTTATTTTTTAAAA
1 TGTATTTATTTTTTAAAA
48583512 ATGCATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TGTATTTATTTTTTAAAATG
Found at i:48584189 original size:17 final size:19
Alignment explanation
Indices: 48584168--48584212 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
48584158 AAATTTTCCC
* *
48584168 CATTTCCCCCAATTCC-AA
1 CATTTCCCCAAATCCCTAA
48584186 -ATTTCCCCAAATCCCTAA
1 CATTTCCCCAAATCCCTAA
48584204 CATTTCCCC
1 CATTTCCCC
48584213 TAACCCTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 13 0.57
18 2 0.09
19 8 0.35
ACGTcount: A:0.27, C:0.44, G:0.00, T:0.29
Consensus pattern (19 bp):
CATTTCCCCAAATCCCTAA
Found at i:48585482 original size:27 final size:26
Alignment explanation
Indices: 48585452--48585503 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
48585442 ATTTGAGCTT
*
48585452 GTTA-ATTTGCAATAATTTGTATTTAAA
1 GTTATATTTGAAAT-ATTT-TATTTAAA
*
48585479 GTTATATTTTAAATATTTTATTTAA
1 GTTATATTTGAAATATTTTATTTAA
48585504 TTTTAATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (26 bp):
GTTATATTTGAAATATTTTATTTAAA
Found at i:48585602 original size:9 final size:9
Alignment explanation
Indices: 48585584--48585663 Score: 79
Period size: 9 Copynumber: 8.6 Consensus size: 9
48585574 GTTCAAATTT
48585584 CATAACTTA
1 CATAACTTA
*
48585593 CATAAATTA
1 CATAACTTA
48585602 CATAACTTA
1 CATAACTTA
*
48585611 CATAATTTAAA
1 CATAACTT--A
* * *
48585622 GATCAAATTT
1 CAT-AACTTA
48585632 CATAACTTA
1 CATAACTTA
*
48585641 CATAATTTA
1 CATAACTTA
48585650 CATAACTTA
1 CATAACTTA
48585659 CATAA
1 CATAA
48585664 TTTAGAGATC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
9 48 0.84
10 2 0.04
11 3 0.05
12 4 0.07
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:48585618 original size:48 final size:48
Alignment explanation
Indices: 48585561--48585686 Score: 225
Period size: 48 Copynumber: 2.6 Consensus size: 48
48585551 TCAAATTTAC
*
48585561 TACATAATTTAAAGTTCAAATTTCATAACTTACATAAATTACATAACT
1 TACATAATTTAAAGATCAAATTTCATAACTTACATAAATTACATAACT
*
48585609 TACATAATTTAAAGATCAAATTTCATAACTTACATAATTTACATAACT
1 TACATAATTTAAAGATCAAATTTCATAACTTACATAAATTACATAACT
*
48585657 TACATAATTTAGAGATCAAATTTCATAACT
1 TACATAATTTAAAGATCAAATTTCATAACT
48585687 ATTTATGAAC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.37
Consensus pattern (48 bp):
TACATAATTTAAAGATCAAATTTCATAACTTACATAAATTACATAACT
Found at i:48585664 original size:18 final size:18
Alignment explanation
Indices: 48585579--48585667 Score: 104
Period size: 18 Copynumber: 5.3 Consensus size: 18
48585569 TTAAAGTTCA
48585579 AATTT-CATAACTTACAT
1 AATTTACATAACTTACAT
*
48585596 AAATTACATAACTTACAT
1 AATTTACATAACTTACAT
48585614 AATTTA-A-AGA--T-CA-
1 AATTTACATA-ACTTACAT
48585627 AATTT-CATAACTTACAT
1 AATTTACATAACTTACAT
48585644 AATTTACATAACTTACAT
1 AATTTACATAACTTACAT
48585662 AATTTA
1 AATTTA
48585668 GAGATCAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
13 7 0.11
14 3 0.05
15 2 0.03
16 3 0.05
17 11 0.18
18 35 0.57
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (18 bp):
AATTTACATAACTTACAT
Found at i:48585719 original size:17 final size:19
Alignment explanation
Indices: 48585697--48585736 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48585687 ATTTATGAAC
48585697 GAAGATA-TTACG-ATTAT
1 GAAGATATTTACGAATTAT
*
48585714 GAAGATATTTATGAATTAT
1 GAAGATATTTACGAATTAT
48585733 GAAG
1 GAAG
48585737 TAGTAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (19 bp):
GAAGATATTTACGAATTAT
Found at i:48587036 original size:13 final size:14
Alignment explanation
Indices: 48587020--48587048 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48587010 TTGTAAATAT
48587020 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
48587033 TTATAATGGTTTAA
1 TTATAATGGTTTAA
48587047 TT
1 TT
48587049 CTTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:48587810 original size:43 final size:43
Alignment explanation
Indices: 48587763--48587995 Score: 116
Period size: 43 Copynumber: 5.4 Consensus size: 43
48587753 GGCGTTTGTA
*
48587763 AAAAAAAGCGCCGCTAAAGACCACGAACTATAGCGGCATTTTC
1 AAAAAAAGCGCCGCTAAAGACCAAGAACTATAGCGGCATTTTC
* * * * **
48587806 AAAAAATGCGTCGC-AAAGTGCCATG-ACTTATAGCGGCGCTTT-
1 AAAAAAAGCGCCGCTAAAG-ACCAAGAAC-TATAGCGGCATTTTC
* * * ** * * *
48587848 ATAAAAAAGTGCTGCTAAAGATCTTGAATTTTCGCGGCATTTTC
1 A-AAAAAAGCGCCGCTAAAGACCAAGAACTATAGCGGCATTTTC
* * * ** *
48587892 TACAAAAGCGCCGCTAAAG-GCAATTACTTATAGCGGCGTTTT-
1 AAAAAAAGCGCCGCTAAAGACCAAGAAC-TATAGCGGCATTTTC
** * * * *
48587934 ATAAATTAGCGCAGCTAAAGGCCAAGACCTTTAGCGGCATTTTC
1 A-AAAAAAGCGCCGCTAAAGACCAAGAACTATAGCGGCATTTTC
* * *
48587978 TATAAAAGCGCCACTAAA
1 AAAAAAAGCGCCGCTAAA
48587996 AGTCATGATC
Statistics
Matches: 132, Mismatches: 48, Indels: 20
0.66 0.24 0.10
Matches are distributed among these distances:
42 9 0.07
43 114 0.86
44 9 0.07
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAAAAGCGCCGCTAAAGACCAAGAACTATAGCGGCATTTTC
Found at i:48587865 original size:86 final size:86
Alignment explanation
Indices: 48587764--48587995 Score: 243
Period size: 86 Copynumber: 2.7 Consensus size: 86
48587754 GCGTTTGTAA
* * * *
48587764 AAAAAAGCGCCGCTAAAGACCACGAACTATAGCGGCATTTTC-AAAAAATGCGTCGC-AAAGTGC
1 AAAAAAGCGCAGCTAAAGACCAAGAACTTTAGCGGCATTTTCTAAAAAA-GCGCCGCTAAAG-GC
*
48587827 CATGACTTATAGCGGCGCTTTAT
64 AATGACTTATAGCGGCGCTTTAT
* * * ** * * *
48587850 AAAAAAGTGCTGCTAAAGATCTTGAATTTTCGCGGCATTTTCTACAAAAGCGCCGCTAAAGGCAA
1 AAAAAAGCGCAGCTAAAGACCAAGAACTTTAGCGGCATTTTCTAAAAAAGCGCCGCTAAAGGCAA
* *
48587915 TTACTTATAGCGGCGTTTTAT
66 TGACTTATAGCGGCGCTTTAT
** * * * *
48587936 AAATTAGCGCAGCTAAAGGCCAAGACCTTTAGCGGCATTTTCTATAAAAGCGCCACTAAA
1 AAAAAAGCGCAGCTAAAGACCAAGAACTTTAGCGGCATTTTCTAAAAAAGCGCCGCTAAA
48587996 AGTCATGATC
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
86 109 0.92
87 9 0.08
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (86 bp):
AAAAAAGCGCAGCTAAAGACCAAGAACTTTAGCGGCATTTTCTAAAAAAGCGCCGCTAAAGGCAA
TGACTTATAGCGGCGCTTTAT
Found at i:48588542 original size:32 final size:32
Alignment explanation
Indices: 48588494--48588559 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
48588484 AATAAAATAT
*
48588494 TTAAAATATATATTTTTA-TAATTAAATTTAAA
1 TTAAAAAATATATTTTTATTAATTAAA-TTAAA
* *
48588526 TTAAAAAATATTTTTTTATTATTTAAATTAAA
1 TTAAAAAATATATTTTTATTAATTAAATTAAA
48588558 TT
1 TT
48588560 TGAATCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTAAAAAATATATTTTTATTAATTAAATTAAA
Found at i:48590247 original size:28 final size:28
Alignment explanation
Indices: 48590170--48590251 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
48590160 CATGGGATTC
* * *
48590170 ATTTGCTCACACAAGTTGTAATATTCAA
1 ATTTGCTCACACAAGCTGTGATATTTAA
* * * *
48590198 ATTTTCTCTCA-GAGCTGTGATATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTAA
48590225 ATTTGCTCACACAAGCTGTGATATTTA
1 ATTTGCTCACACAAGCTGTGATATTTA
48590252 GGCCACTCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 20 0.48
28 22 0.52
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTGTGATATTTAA
Found at i:48591465 original size:6 final size:6
Alignment explanation
Indices: 48591454--48591479 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48591444 TTATTTTCAT
48591454 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
48591480 ATAATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:48614642 original size:12 final size:12
Alignment explanation
Indices: 48614625--48614651 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48614615 TTCATGCACT
48614625 TTGTAACACCCA
1 TTGTAACACCCA
48614637 TTGTAACACCCA
1 TTGTAACACCCA
48614649 TTG
1 TTG
48614652 CTCGATCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (12 bp):
TTGTAACACCCA
Found at i:48625947 original size:28 final size:28
Alignment explanation
Indices: 48625867--48625949 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 28
48625857 CATGGGATTG
* * * *
48625867 ATTTGCTCACACAAGTTTTAATATTCAA
1 ATTTGCTCACACAAGCTATGATATTTAA
* * * *
48625895 ATTTTCTCACACGAGCTATGGTATTTGA
1 ATTTGCTCACACAAGCTATGATATTTAA
*
48625923 ATTTGCTCACACAAGCTGTGATATTTA
1 ATTTGCTCACACAAGCTATGATATTTA
48625950 GGCTGCTCAC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTATGATATTTAA
Found at i:48627772 original size:4 final size:4
Alignment explanation
Indices: 48627763--48627797 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
48627753 CTAACATTTT
48627763 CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
48627798 TTCATTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:48629154 original size:19 final size:18
Alignment explanation
Indices: 48629132--48629167 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
48629122 TAATAAATTA
48629132 TTTAATATTTAAATTTTAT
1 TTTAATA-TTAAATTTTAT
48629151 TTTAATATTAAATTTTA
1 TTTAATATTAAATTTTA
48629168 AAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATATTAAATTTTAT
Found at i:48630791 original size:31 final size:30
Alignment explanation
Indices: 48630746--48630808 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
48630736 AATAAAATAT
*
48630746 TTAAAATATATTTTTA-TAATTAAATTTAAA
1 TTAAAAAATATTTTTATTAATTAAA-TTAAA
*
48630776 TTAAAAAATACTTTTTATTATTTAAATTAAA
1 TTAAAAAATA-TTTTTATTAATTAAATTAAA
48630807 TT
1 TT
48630809 TGAATTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.31
31 13 0.45
32 7 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
TTAAAAAATATTTTTATTAATTAAATTAAA
Found at i:48643202 original size:15 final size:16
Alignment explanation
Indices: 48643172--48643204 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48643162 TTTACCCATA
48643172 ATAATATTAAAAAATT
1 ATAATATTAAAAAATT
*
48643188 ATAATATT-GAAAATT
1 ATAATATTAAAAAATT
48643203 AT
1 AT
48643205 TACATTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAATATTAAAAAATT
Found at i:48645771 original size:14 final size:14
Alignment explanation
Indices: 48645742--48645787 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
48645732 ATATTAATTT
*
48645742 TATATAGGTAACACA
1 TATATA-GTAAAACA
48645757 TATATAGTAAAACA
1 TATATAGTAAAACA
48645771 TA-ATAGTAATAACA
1 TATATAGTAA-AACA
48645785 TAT
1 TAT
48645788 GTATACTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.25
14 15 0.54
15 6 0.21
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (14 bp):
TATATAGTAAAACA
Found at i:48650755 original size:23 final size:22
Alignment explanation
Indices: 48650712--48650769 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
48650702 AAAGGGTATC
* *
48650712 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
48650733 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
48650756 TGCATATCATATCT
1 TACAAATCATATCT
48650770 AAGATTCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:48657450 original size:15 final size:15
Alignment explanation
Indices: 48657430--48657459 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48657420 TAATTACCCA
48657430 CGCTTCATAATTCAG
1 CGCTTCATAATTCAG
48657445 CGCTTCATAATTCAG
1 CGCTTCATAATTCAG
48657460 TCATTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (15 bp):
CGCTTCATAATTCAG
Found at i:48657781 original size:21 final size:21
Alignment explanation
Indices: 48657751--48657790 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48657741 TTAATATCAA
48657751 TATTAATATAAAATTTGAATT
1 TATTAATATAAAATTTGAATT
* * *
48657772 TATTATTATATATTTTGAA
1 TATTAATATAAAATTTGAA
48657791 AATATTTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATTAATATAAAATTTGAATT
Found at i:48657796 original size:21 final size:21
Alignment explanation
Indices: 48657749--48657796 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
48657739 ATTTAATATC
48657749 AATATTAATATAAAATTTGAA
1 AATATTAATATAAAATTTGAA
** * * *
48657770 TTTATTATTATATATTTTGAA
1 AATATTAATATAAAATTTGAA
48657791 AATATT
1 AATATT
48657797 TATGTTTTTT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AATATTAATATAAAATTTGAA
Found at i:48680617 original size:17 final size:18
Alignment explanation
Indices: 48680597--48680630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48680587 GGATTGTGTT
*
48680597 AATA-GAAATTTAAAAAA
1 AATACGAAAATTAAAAAA
48680614 AATACGAAAATTAAAAA
1 AATACGAAAATTAAAAA
48680631 TGATGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (18 bp):
AATACGAAAATTAAAAAA
Found at i:48683745 original size:23 final size:23
Alignment explanation
Indices: 48683655--48683750 Score: 70
Period size: 23 Copynumber: 4.0 Consensus size: 23
48683645 CGAAGAAGTG
48683655 ATCATAATTATAATAATTACATAA
1 ATCATAATTATAATAATTA-ATAA
* * * * *
48683679 TTACA-ATTTATATACTAATAAACAT
1 AT-CATAATTATA-A-TAATTAATAA
* *
48683704 ATAATATTTA-AATAAATTAATAA
1 ATCATAATTATAAT-AATTAATAA
48683727 ATCATAATTATAATAATTAATAA
1 ATCATAATTATAATAATTAATAA
48683750 A
1 A
48683751 AAATAATTGC
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
22 1 0.02
23 25 0.46
24 12 0.22
25 11 0.20
26 5 0.09
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
ATCATAATTATAATAATTAATAA
Found at i:48687844 original size:3 final size:3
Alignment explanation
Indices: 48687836--48687870 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
48687826 AAATTAGTTA
48687836 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48687871 AAAGGATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48693859 original size:17 final size:17
Alignment explanation
Indices: 48693837--48693875 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
48693827 GCAACTTTTT
48693837 TTTTTGCGCTTTTTTGC
1 TTTTTGCGCTTTTTTGC
** *
48693854 TTTTTGCTTTTTTTTTC
1 TTTTTGCGCTTTTTTGC
48693871 TTTTT
1 TTTTT
48693876 TTTTGCGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (17 bp):
TTTTTGCGCTTTTTTGC
Found at i:48693920 original size:22 final size:21
Alignment explanation
Indices: 48693854--48693922 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
48693844 GCTTTTTTGC
*
48693854 TTTTTGC-TTTTTTTTTCTTTT
1 TTTTTGCGCTTTTTTTT-TTTT
* ***
48693875 TTTTTGCGCTTTTTACTCACTT
1 TTTTTGCGCTTTTT-TTTTTTT
*
48693897 TTTTTGCGCTTTTTTTGTTTT
1 TTTTTGCGCTTTTTTTTTTTT
48693918 TTTTT
1 TTTTT
48693923 AAAGAATAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 15 0.41
22 21 0.57
23 1 0.03
ACGTcount: A:0.03, C:0.13, G:0.09, T:0.75
Consensus pattern (21 bp):
TTTTTGCGCTTTTTTTTTTTT
Found at i:48694962 original size:17 final size:18
Alignment explanation
Indices: 48694928--48694968 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
48694918 TTATCGAGCA
48694928 AAAAGAAAAGCAAAAAGAG
1 AAAA-AAAAGCAAAAAGAG
*
48694947 AAAAAAAAG-AAGAAGAG
1 AAAAAAAAGCAAAAAGAG
48694964 AAAAA
1 AAAAA
48694969 CCTCCATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 5 0.24
19 4 0.19
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGCAAAAAGAG
Found at i:48695594 original size:27 final size:27
Alignment explanation
Indices: 48695529--48695594 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
48695519 TCCTCTTTTC
*
48695529 CTTTATCGTTCTTCTTCTTCCCTATTGT
1 CTTTATCCTTC-TCTTCTTCCCTATTGT
* **
48695557 -TTTCTTTTTCTCTTCTTCCCTTATT-T
1 CTTTATCCTTCTCTTCTTCCC-TATTGT
48695583 CTTTATCCTTCT
1 CTTTATCCTTCT
48695595 TGCTTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.06, C:0.29, G:0.03, T:0.62
Consensus pattern (27 bp):
CTTTATCCTTCTCTTCTTCCCTATTGT
Found at i:48700007 original size:19 final size:19
Alignment explanation
Indices: 48699985--48700021 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48699975 AGGGAGTTGT
*
48699985 TTTTCACTTGATTTAAAAG
1 TTTTCAATTGATTTAAAAG
48700004 TTTTCAATTGATTTAAAA
1 TTTTCAATTGATTTAAAA
48700022 CTGTTCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTTCAATTGATTTAAAAG
Found at i:48703413 original size:20 final size:21
Alignment explanation
Indices: 48703380--48703419 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48703370 GGGGGAAAGT
48703380 GGGAAGAAGT-AAAAGTTTGA
1 GGGAAGAAGTAAAAAGTTTGA
48703400 GGGAA-AAGTAAAAAAGTTTG
1 GGGAAGAAGT-AAAAAGTTTG
48703420 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (21 bp):
GGGAAGAAGTAAAAAGTTTGA
Found at i:48707406 original size:4 final size:4
Alignment explanation
Indices: 48707399--48707426 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
48707389 TACATACATA
48707399 CATG CATG CATG CATG CATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG
48707427 ATTATTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (4 bp):
CATG
Found at i:48708350 original size:10 final size:11
Alignment explanation
Indices: 48708319--48708394 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 11
48708309 CGTGAATTAC
*
48708319 AAAATATTTAT
1 AAAATATATAT
48708330 AAAATATATAT
1 AAAATATATAT
*
48708341 AAAAATATATTTT
1 -AAAATATA-TAT
* *
48708354 AAAATATAAAGG
1 AAAATATATA-T
*
48708366 ATAAATAAATAT
1 A-AAATATATAT
*
48708378 ATATATATATAT
1 A-AAATATATAT
48708390 AAAAT
1 AAAAT
48708395 GTGTACATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
11 13 0.26
12 28 0.56
13 9 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAATATATAT
Found at i:48708808 original size:3 final size:3
Alignment explanation
Indices: 48708800--48708908 Score: 100
Period size: 3 Copynumber: 36.3 Consensus size: 3
48708790 AAGCTATTAT
*
48708800 ATA ATA ATA ATA ATA AT- ATA ATA AGTA ATA ATG AT- ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA
* * * *
48708845 ATA ATA ATA ATA ATA ATA ATA ATA AAA GATG ATA AT- ATA TTA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
48708890 ATA ATGA AGA A-A ATA ATA A
1 ATA AT-A ATA ATA ATA ATA A
48708909 AAAAGCTAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
2 8 0.09
3 72 0.82
4 8 0.09
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:48708863 original size:48 final size:49
Alignment explanation
Indices: 48708800--48708908 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 49
48708790 AAGCTATTAT
48708800 ATAATAATAATAATAAT-ATAATAAG-TAATAATGATA-TAAATAATAAT-A
1 ATAATAATAATAATAATAATAA-AAGATAATAAT-ATATTAAA-AATAATGA
*
48708848 ATAATAATAATAATAATAATAAAAGATGATAATATATTAAAAATAATGA
1 ATAATAATAATAATAATAATAAAAGATAATAATATATTAAAAATAATGA
*
48708897 AGAA-AATAATAA
1 ATAATAATAATAA
48708909 AAAAGCTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
48 37 0.67
49 18 0.33
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (49 bp):
ATAATAATAATAATAATAATAAAAGATAATAATATATTAAAAATAATGA
Found at i:48708893 original size:39 final size:40
Alignment explanation
Indices: 48708798--48708910 Score: 126
Period size: 39 Copynumber: 2.8 Consensus size: 40
48708788 ATAAGCTATT
48708798 ATATAATAATAATAATAAT-ATAATAAGTAATAATGATATAA
1 ATATAATAATAATAATAATAATAATAA-TAA-AATGATATAA
48708839 ATAATAATAATAATAATAATAATAATAATAAAA-GATGAT-A
1 AT-ATAATAATAATAATAATAATAATAATAAAATGAT-ATAA
* * *
48708879 ATATATTAAAAATAATGAAGAA-AATAATAAAA
1 ATATAATAATAATAAT-AATAATAATAATAAAA
48708911 AAGCTAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
39 22 0.34
40 10 0.15
41 6 0.09
42 20 0.31
43 7 0.11
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (40 bp):
ATATAATAATAATAATAATAATAATAATAAAATGATATAA
Found at i:48711093 original size:375 final size:375
Alignment explanation
Indices: 48710399--48711134 Score: 1246
Period size: 375 Copynumber: 2.0 Consensus size: 375
48710389 TTCGTCATTA
48710399 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
48710464 CCACTGCATCGTTTGGGGTGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCT
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCT
*
48710529 TTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACT
131 TTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACT
*
48710594 GCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCTTTAAT
196 GCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAAT
* *
48710659 CTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGC-AT
261 CTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTAGCTTCAATCTATTCCACTGCAAT
* *** * *
48710723 CGCTTGGGCCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATT
326 -GCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATT
48710774 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
48710839 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCT
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCT
48710904 TTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACT
131 TTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACT
48710969 GCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAAT
196 GCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAAT
* ** ** *
48711034 CTTTTTAATTGCAATGTCAGG-GAAGTAAGA-TC-CGCTGTTGTAGCTTCAATCTGTTCCACTGC
261 CTTTTTAACTGCAATGTC-GGAGAAACAAGATTCAC-CAATT-TAGCTTCAATCTATTCCACTGC
48711096 AATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
323 AATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
48711135 TTCTTATTTG
Statistics
Matches: 339, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
373 1 0.00
374 5 0.01
375 329 0.97
376 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (375 bp):
TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCT
TTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACT
GCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAAT
CTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTAGCTTCAATCTATTCCACTGCAAT
GCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATT
Found at i:48711110 original size:50 final size:50
Alignment explanation
Indices: 48711043--48711184 Score: 209
Period size: 50 Copynumber: 2.8 Consensus size: 50
48711033 TCTTTTTAAT
48711043 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCA-C
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCT-CATC
* * *
48711093 TGCAATG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTATT
1 TGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTCATC
48711143 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATC
48711185 AAGATTCACC
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
49 3 0.04
50 80 0.95
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTCATC
Found at i:48711129 original size:125 final size:125
Alignment explanation
Indices: 48710399--48711051 Score: 1243
Period size: 125 Copynumber: 5.2 Consensus size: 125
48710389 TTCGTCATTA
48710399 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
48710464 CCACTGCATCGTTTGGGGTGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
48710524 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
48710589 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
48710649 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
* *
48710714 CCACTGCATCGCTTGGGCCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATT
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
48710774 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
48710839 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
*
48710899 TGGCTTTAATCTTTTTAACTGCAATGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
1 TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
*
48710964 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATG
66 CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
*
48711024 TGGCTTTAATCTTTTTAATTGCAATGTC
1 TGGCTTTAATCTTTTTAACTGCAATGTC
48711052 AGGGAAGTAA
Statistics
Matches: 519, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 519 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (125 bp):
TGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATT
CCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATG
Found at i:48711208 original size:300 final size:300
Alignment explanation
Indices: 48710858--48711447 Score: 1108
Period size: 300 Copynumber: 2.0 Consensus size: 300
48710848 CGCTTGGGGC
* * *
48710858 GTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATGTGGCTTTAATCTTTTTAACTGCAA
1 GTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATGTGGCTTTAATCATTTTAACTGCAA
48710923 TGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAG
66 TGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAG
*
48710988 ATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGCAATGTCA
131 ATTCACTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGCAATGTCA
*
48711053 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAGATCCG
196 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCG
*
48711118 CTGTTGTAGCTTCAATCTTCTTATTTGCAATGTCAGGGAA
261 CTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAA
*
48711158 GTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATTTGGCTTTAATCATTTTAACTGCAA
1 GTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATGTGGCTTTAATCATTTTAACTGCAA
*
48711223 TGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAG
66 TGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAG
48711288 ATTCACTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGCAATGTCA
131 ATTCACTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGCAATGTCA
48711353 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCG
196 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCG
48711418 CTGTTGTAGCTTCAATCTTCTTAATTGCAA
261 CTGTTGTAGCTTCAATCTTCTTAATTGCAA
48711448 ACTATGGTTT
Statistics
Matches: 282, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
300 282 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (300 bp):
GTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATGTGGCTTTAATCATTTTAACTGCAA
TGTCAGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAG
ATTCACTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGCAATGTCA
GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCG
CTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAA
Found at i:48711289 original size:175 final size:175
Alignment explanation
Indices: 48710983--48711309 Score: 410
Period size: 175 Copynumber: 1.9 Consensus size: 175
48710973 CGCTTGGGGC
* * * *
48710983 GTAAGATTCGCTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGCAA
1 GTAAGATCCGCTGTTGTAGCTTCAATCAAGACTCACCGATGTGGCTTTAATCATTTTAACTGCAA
** ** *
48711048 TGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAG
66 TGTCAGGGAAACAAGATCCGCAATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGAAAGTAAG
*
48711113 ATCCGCTGTTGTAGCTTCAATCTTCTTATTTGCAATGTCAGGGAA
131 ATCCACTGTTGTAGCTTCAATCTTCTTATTTGCAATGTCAGGGAA
* *
48711158 GTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATTTGGCTTTAATCATTTTAACTGCAA
1 GTAAGATCCGCTGTTGTAGCTTCAATCAAGACTCACCGATGTGGCTTTAATCATTTTAACTGCAA
* * * ***
48711223 TGTC-GGAGAAACAAGATTCAC-CAATT-TGGCTTTAATCTATTCCACTGC-ATCGCTTGGGGCG
66 TGTCAGG-GAAACAAGA-TC-CGCAATTGTAGCTTCAATCTATTCCACTGCAAT-GCTAGGAAAG
* *
48711284 TAAGATTCACTGTTGTAGCTTTAATC
127 TAAGATCCACTGTTGTAGCTTCAATC
48711310 AAGACTCACC
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
174 4 0.03
175 118 0.92
176 5 0.04
177 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (175 bp):
GTAAGATCCGCTGTTGTAGCTTCAATCAAGACTCACCGATGTGGCTTTAATCATTTTAACTGCAA
TGTCAGGGAAACAAGATCCGCAATTGTAGCTTCAATCTATTCCACTGCAATGCTAGGAAAGTAAG
ATCCACTGTTGTAGCTTCAATCTTCTTATTTGCAATGTCAGGGAA
Found at i:48711385 original size:125 final size:125
Alignment explanation
Indices: 48711156--48711434 Score: 339
Period size: 125 Copynumber: 2.2 Consensus size: 125
48711146 AATGTCAGGG
* *
48711156 AAGTAAGATCCGCTGTTGTAGCTTCAATCAAGATTCACCGATTTGGCTTTAATCATTTTAACTGC
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCAAGACTCACCGATGTGGCTTTAATCATTTTAACTGC
* * * * *
48711221 AATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTATTCCACTGCATCGCTTGGG
66 AATGTCGGAGAAACAAGATTCACCAATTTAGCTTCAATCTATTCCACTGCAACGCTAGGA
** * * * * *
48711281 GCGTAAGATTCACTGTTGTAGCTTTAATCAAGACTCACCGATGTGGCTTTAATCTTTTTAATTGC
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCAAGACTCACCGATGTGGCTTTAATCATTTTAACTGC
** ** *
48711346 AATGTCAGG-GAAGTAAGA-TC-CGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGA
66 AATGTC-GGAGAAACAAGATTCAC-CAATT-TAGCTTCAATCTATTCCACTGCAACGCTAGGA
48711406 AAGTAAGATCCGCTGTTGTAGCTTCAATC
1 AAGTAAGATCCGCTGTTGTAGCTTCAATC
48711435 TTCTTAATTG
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
123 1 0.01
124 5 0.04
125 119 0.94
126 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (125 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCAAGACTCACCGATGTGGCTTTAATCATTTTAACTGC
AATGTCGGAGAAACAAGATTCACCAATTTAGCTTCAATCTATTCCACTGCAACGCTAGGA
Found at i:48711447 original size:50 final size:49
Alignment explanation
Indices: 48711326--48711447 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 49
48711316 CACCGATGTG
* * *
48711326 GCTTTAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
1 GCTTCAATC-TTTTAATTGCAACGTCAGGAAAGTAAGATCCGCTGTTGTA
** *
48711376 GCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCT-TTTAATTGCAACGTC-AGGAAAGTAAGATCCGCTGTTGTA
48711426 GCTTCAATCTTCTTAATTGCAA
1 GCTTCAATCTT-TTAATTGCAA
48711448 ACTATGGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
49 3 0.05
50 57 0.95
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (49 bp):
GCTTCAATCTTTTAATTGCAACGTCAGGAAAGTAAGATCCGCTGTTGTA
Found at i:48713668 original size:24 final size:25
Alignment explanation
Indices: 48713641--48713704 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
48713631 TGATTGATTG
48713641 ATTTTTTTTATTTTGGTTTTTTT-T
1 ATTTTTTTTATTTTGGTTTTTTTGT
* *
48713665 ATTTTTATTATTTTTGTTTTTTTGT
1 ATTTTTTTTATTTTGGTTTTTTTGT
*
48713690 CTTGTTTTTT-TTTTG
1 ATT-TTTTTTATTTTG
48713705 AGTCTGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 21 0.64
25 7 0.21
26 5 0.15
ACGTcount: A:0.08, C:0.02, G:0.09, T:0.81
Consensus pattern (25 bp):
ATTTTTTTTATTTTGGTTTTTTTGT
Found at i:48714298 original size:273 final size:273
Alignment explanation
Indices: 48713811--48714329 Score: 876
Period size: 273 Copynumber: 1.9 Consensus size: 273
48713801 CTTGCATGTG
* *
48713811 AAAAACCTTCTTTGGTACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAGAA
1 AAAAACCTTCTTTGATACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAAAA
*
48713876 CTTTGGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACT
66 CTTTAGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACT
* * *
48713941 TCAAATGGGAAAAGCTATGCTGACTCAACGAGAGAGGCATTGCCCCAGCAAAGAATTGTATTGTT
131 TCAAATGGGAAAAGCTATGCTGACTCAACGAGAGAGACATTGCCCCAGCAAAGAATTGCATCGTT
* *
48714006 CGCACTGTAAATTTCTGACATCGTGCTGTTGTGCAGATTTTATTATAAGAATCGAGGCATACCCT
196 CGCACTGCAAATTTCTGACATCGTGCTGTTGTACAGATTTTATTATAAGAATCGAGGCATACCCT
48714071 GGTATGATCATGC
261 GGTATGATCATGC
* * * *
48714084 AAAAACCTTCTTTGATACCATATTTCTTTCATAGAGCCCTTTTGGGATGCAACTATGACAGAAAA
1 AAAAACCTTCTTTGATACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAAAA
* * *
48714149 CTTTAGATCTTCCTCTTTAATCAGTATAAAATCCAGCAACATCTTGAAGGGATGGAAACTTGACT
66 CTTTAGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACT
* *
48714214 TCAAATGGGCAAAGCTATGCTGACTCAACGAGAGAGACATTGCCCCGGCAAAGAATTGCATCGTT
131 TCAAATGGGAAAAGCTATGCTGACTCAACGAGAGAGACATTGCCCCAGCAAAGAATTGCATCGTT
*
48714279 CGCACTGCGAATTTCTGACATCGTGCTGTTGTACAGATTTTATTATAAGAA
196 CGCACTGCAAATTTCTGACATCGTGCTGTTGTACAGATTTTATTATAAGAA
48714330 GACATCTTTG
Statistics
Matches: 228, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
273 228 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (273 bp):
AAAAACCTTCTTTGATACCAGATTTCTTTCATAAAGCCCTTTTGGGACGCAACTACGACAGAAAA
CTTTAGATCTTCCTCTTTAATCAGGATAAAATCCAACAACATCTTGAAGGGATGGAAACTCGACT
TCAAATGGGAAAAGCTATGCTGACTCAACGAGAGAGACATTGCCCCAGCAAAGAATTGCATCGTT
CGCACTGCAAATTTCTGACATCGTGCTGTTGTACAGATTTTATTATAAGAATCGAGGCATACCCT
GGTATGATCATGC
Found at i:48716024 original size:19 final size:20
Alignment explanation
Indices: 48715995--48716043 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
48715985 CACTTCATGA
* *
48715995 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGTATG
*
48716014 CAATGTAATGCAAATGTATG
1 AAATGTAATGCAAATGTATG
48716034 AAATG-AATGC
1 AAATGTAATGC
48716044 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (20 bp):
AAATGTAATGCAAATGTATG
Found at i:48717592 original size:108 final size:108
Alignment explanation
Indices: 48717428--48717723 Score: 466
Period size: 108 Copynumber: 2.7 Consensus size: 108
48717418 AATTTGAATA
* *
48717428 AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCAAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
48717493 TTACTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
66 TTAATTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
* *
48717536 AACGAGGAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
48717601 TTATTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
66 TTAATTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
* * *
48717644 AACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAATAT
1 AACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAACGCAAAATAT
*
48717709 TGCCTCAATTTGAAA
62 TGCCTTAATTTGAAA
48717724 TATTTTCCTT
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
108 109 0.63
110 24 0.14
111 11 0.06
112 28 0.16
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTAATTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCG
Found at i:48718055 original size:10 final size:11
Alignment explanation
Indices: 48718024--48718099 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 11
48718014 CGTGAATTAC
*
48718024 AAAATATTTAT
1 AAAATATATAT
48718035 AAAATATATAT
1 AAAATATATAT
*
48718046 AAAAATATATTTT
1 -AAAATATA-TAT
* *
48718059 AAAATATAAAGG
1 AAAATATATA-T
*
48718071 ATAAATAAATAT
1 A-AAATATATAT
*
48718083 ATATATATATAT
1 A-AAATATATAT
48718095 AAAAT
1 AAAAT
48718100 GTGTACATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
11 13 0.26
12 28 0.56
13 9 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAATATATAT
Found at i:48718515 original size:3 final size:3
Alignment explanation
Indices: 48718507--48718612 Score: 94
Period size: 3 Copynumber: 35.3 Consensus size: 3
48718497 AAGCTATTAT
*
48718507 ATA ATA ATA ATA AT- ATA ATA AGTA ATA ATG AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A ATA ATA ATA
* * * *
48718552 ATA ATA ATA ATA ATA ATA ATA AAA GATG ATA AT- ATA TTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
*
48718597 ATGA AGA A-A ATA ATA A
1 AT-A ATA ATA ATA ATA A
48718613 AAAAGCTAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
2 8 0.09
3 69 0.81
4 8 0.09
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:48718597 original size:39 final size:39
Alignment explanation
Indices: 48718504--48718614 Score: 113
Period size: 39 Copynumber: 2.8 Consensus size: 39
48718494 TATAAGCTAT
48718504 TATATAATAATAATAAT-ATAATAAGTAATAATGATATAAA
1 TATATAATAATAATAATAATAATAA-TAA-AATGATATAAA
48718544 TAATAATAATAATAATAATAATAATAATAAAA-GATGAT-AA
1 T-AT-ATAATAATAATAATAATAATAATAAAATGAT-ATAAA
* *
48718584 TATATTAAAAATAATGAAGAA-AATAATAAAA
1 TATA-TAATAATAAT-AATAATAATAATAAAA
48718615 AAGCTAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
38 1 0.02
39 21 0.33
40 11 0.17
41 6 0.10
42 17 0.27
43 7 0.11
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (39 bp):
TATATAATAATAATAATAATAATAATAAAATGATATAAA
Found at i:48720205 original size:49 final size:49
Alignment explanation
Indices: 48720025--48720210 Score: 180
Period size: 49 Copynumber: 3.8 Consensus size: 49
48720015 ATATAGTGAT
* * * * * *
48720025 TGAAAACCATCATTGTAGGGCCATCTAGGATTGTAGATTAT-ATAAACAA
1 TGAAAACCATCATTGTTGGGCCATCCAAGATGGTAGAATATCA-AAACAG
* * *
48720074 T-AAACATCATCATTGTTGGGCCATTCAGGATGGTAGAATATCAAAACAG
1 TGAAA-ACCATCATTGTTGGGCCATCCAAGATGGTAGAATATCAAAACAG
* ** * * *
48720123 TGAAAGCCATTGTTCTCGGGCCATCCGAA-ATGGTAGAATATCAAAATAG
1 TGAAAACCATCATTGTTGGGCCATCC-AAGATGGTAGAATATCAAAACAG
*
48720172 TGAAAACCATCATTGTTGGGCAATCCAAGATGGTAGAAT
1 TGAAAACCATCATTGTTGGGCCATCCAAGATGGTAGAAT
48720211 TTGTAAATTG
Statistics
Matches: 110, Mismatches: 22, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
48 5 0.05
49 100 0.91
50 5 0.05
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (49 bp):
TGAAAACCATCATTGTTGGGCCATCCAAGATGGTAGAATATCAAAACAG
Found at i:48730049 original size:28 final size:28
Alignment explanation
Indices: 48730015--48730071 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
48730005 GAAAACCATT
48730015 GATCTCTCCAACAATAGCCTATCAGGTA
1 GATCTCTCCAACAATAGCCTATCAGGTA
48730043 GATCTCTCCAACAATAGCCTATCAGGTA
1 GATCTCTCCAACAATAGCCTATCAGGTA
48730071 G
1 G
48730072 TTTGCCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (28 bp):
GATCTCTCCAACAATAGCCTATCAGGTA
Found at i:48731635 original size:10 final size:10
Alignment explanation
Indices: 48731620--48731690 Score: 58
Period size: 10 Copynumber: 7.3 Consensus size: 10
48731610 AATAAATAAT
48731620 AAAATTATTA
1 AAAATTATTA
*
48731630 AAAATTGTTA
1 AAAATTATTA
* *
48731640 GAAATTTTTA
1 AAAATTATTA
* *
48731650 AATATT-GTA
1 AAAATTATTA
48731659 AAAATTA-TA
1 AAAATTATTA
48731668 AAAATTTATTA
1 AAAA-TTATTA
*
48731679 GAAATTA-TA
1 AAAATTATTA
48731688 AAA
1 AAA
48731691 GACGATAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 17 0.35
10 27 0.55
11 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:48738850 original size:25 final size:25
Alignment explanation
Indices: 48738821--48738874 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
48738811 AATGCCAAAA
48738821 GTAAAAAT-GAAAAGACAAAGCCAAT
1 GTAAAAATAG-AAAGACAAAGCCAAT
48738846 GTAAAAATAGAAAGACAAAGCCAAT
1 GTAAAAATAGAAAGACAAAGCCAAT
48738871 GTAA
1 GTAA
48738875 CCCTTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.59, C:0.11, G:0.17, T:0.13
Consensus pattern (25 bp):
GTAAAAATAGAAAGACAAAGCCAAT
Found at i:48740476 original size:22 final size:22
Alignment explanation
Indices: 48740424--48740478 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48740414 AAAATTGGTT
* *
48740424 ATATATATATGTTTTTCATATA
1 ATATATATATGTTTTTCAAAAA
*
48740446 TTATAATATATG-TTTTCAAAAAA
1 ATAT-ATATATGTTTTTC-AAAAA
48740469 ATATATATAT
1 ATATATATAT
48740479 AAACTACAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATATATATGTTTTTCAAAAA
Found at i:48755172 original size:18 final size:17
Alignment explanation
Indices: 48755132--48755175 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
48755122 TTAAAATTTT
* *
48755132 GTTTATAATTTTTTTAT
1 GTTTTTAATTTTTTTAA
48755149 GATTTTTAATATTTTTTAA
1 G-TTTTTAAT-TTTTTTAA
48755168 GTTTTTAA
1 GTTTTTAA
48755176 AAGGGATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 14 0.61
19 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (17 bp):
GTTTTTAATTTTTTTAA
Found at i:48761356 original size:22 final size:23
Alignment explanation
Indices: 48761331--48761376 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
48761321 CTTTCCTTTC
48761331 CTATTTTATAAAAT-AATTTAAA
1 CTATTTTATAAAATAAATTTAAA
48761353 CTATTTTATAAAATAGAATTTAAA
1 CTATTTTATAAAATA-AATTTAAA
48761377 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.64
24 8 0.36
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
CTATTTTATAAAATAAATTTAAA
Found at i:48770187 original size:13 final size:13
Alignment explanation
Indices: 48770169--48770193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48770159 AGAGCTGTAA
48770169 AGTGCATTTATCT
1 AGTGCATTTATCT
48770182 AGTGCATTTATC
1 AGTGCATTTATC
48770194 CAGGTTACTC
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
AGTGCATTTATCT
Found at i:48772631 original size:22 final size:24
Alignment explanation
Indices: 48772606--48772659 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
48772596 TTTGTTTCTT
*
48772606 TTTTTTTTCTTCTTTGC-A-TTGG
1 TTTTTTTTCTTCTTTGCAATTTGA
* *
48772628 TTTTTTTTTTTTTTTGCAATTTGA
1 TTTTTTTTCTTCTTTGCAATTTGA
48772652 TTTTTTTT
1 TTTTTTTT
48772660 AAAAGTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 15 0.56
23 1 0.04
24 11 0.41
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.76
Consensus pattern (24 bp):
TTTTTTTTCTTCTTTGCAATTTGA
Found at i:48772636 original size:24 final size:23
Alignment explanation
Indices: 48772604--48772659 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
48772594 TCTTTGTTTC
48772604 TTTTTTTTTTCTTCTTTGC-ATTGG
1 TTTTTTTTTT-TT-TTTGCAATTGG
*
48772628 TTTTTTTTTTTTTTTGCAATTTG
1 TTTTTTTTTTTTTTTGCAATTGG
*
48772651 ATTTTTTTT
1 TTTTTTTTT
48772660 AAAAGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.17
23 14 0.48
24 10 0.34
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTGCAATTGG
Found at i:48773188 original size:29 final size:27
Alignment explanation
Indices: 48773135--48773197 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
48773125 ACTTAAGATA
*
48773135 ATTAAAAAAATAAAAATCATAAAAATT
1 ATTAAAAAAATAAAAATAATAAAAATT
48773162 ATTAGAAAAATATAGAAAATAAT-AAAATT
1 ATTA-AAAAA-ATA-AAAATAATAAAAATT
48773191 A-TAAAAA
1 ATTAAAAA
48773198 TATATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 10 0.31
30 7 0.22
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (27 bp):
ATTAAAAAAATAAAAATAATAAAAATT
Found at i:48773349 original size:18 final size:18
Alignment explanation
Indices: 48773315--48773384 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
48773305 TCTTATGAAT
*
48773315 ATTTA-AAAAATGTTTAAA
1 ATTTATAAAAAT-ATTAAA
48773333 ATTTATAAAAATATT-AA
1 ATTTATAAAAATATTAAA
*
48773350 ATATATAGAAAATATTAAA
1 ATTTATA-AAAATATTAAA
48773369 ATTATTATAAAAATAT
1 A-T-TTATAAAAATAT
48773385 AGAAAACTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.18
18 15 0.34
19 9 0.20
20 8 0.18
21 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
ATTTATAAAAATATTAAA
Found at i:48773411 original size:11 final size:11
Alignment explanation
Indices: 48773395--48773419 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48773385 AGAAAACTGC
48773395 AATAATTTATA
1 AATAATTTATA
48773406 AATAATTTATA
1 AATAATTTATA
48773417 AAT
1 AAT
48773420 CATATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATTTATA
Found at i:48773572 original size:20 final size:19
Alignment explanation
Indices: 48773546--48773602 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
48773536 AAAAATATAT
48773546 TATATAAATTATAAAAAAG
1 TATATAAATTATAAAAAAG
* * *
48773565 TATAATAAATGACTCAAAAAT
1 TAT-ATAAATTA-TAAAAAAG
*
48773586 TATATACATTATAAAAA
1 TATATAAATTATAAAAA
48773603 TTACAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 8 0.27
20 13 0.43
21 9 0.30
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (19 bp):
TATATAAATTATAAAAAAG
Found at i:48773628 original size:16 final size:19
Alignment explanation
Indices: 48773595--48773635 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
48773585 TTATATACAT
48773595 TATAAAAATTACAAAAATA
1 TATAAAAATTACAAAAATA
48773614 T-TAAAAA-TA-AAAAATA
1 TATAAAAATTACAAAAATA
48773630 TATAAA
1 TATAAA
48773636 TTATGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.38
17 6 0.29
18 6 0.29
19 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TATAAAAATTACAAAAATA
Found at i:48774044 original size:11 final size:10
Alignment explanation
Indices: 48773992--48774044 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
48773982 TTTATTTTGA
48773992 TTTATAAT-T
1 TTTATAATAT
* *
48774001 TTTATACTTT
1 TTTATAATAT
48774011 TTTATAATAT
1 TTTATAATAT
*
48774021 TTTGTAA-AT
1 TTTATAATAT
48774030 TTTATTAATAT
1 TTTA-TAATAT
48774041 TTTA
1 TTTA
48774045 ATATTCTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 12 0.33
10 18 0.50
11 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:48778702 original size:44 final size:44
Alignment explanation
Indices: 48778644--48778987 Score: 240
Period size: 44 Copynumber: 7.8 Consensus size: 44
48778634 TGTAACCTCG
* * * *
48778644 GGGAGCTAAAATCTGCCATCTTCGATCTACTCCACTAATGCCTA
1 GGGAGATAAGATCTGCAATCTTCAATCTACTCCACTAATGCCTA
* * ** *
48778688 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGCAATCTTCAATCTACTCCACTAATGCCTA
* *** * *
48778732 GGGAGAT-AGAAT-TACTGGCTTCAATGTACTCCACT-GTAGCCTCA
1 GGGAGATAAG-ATCTGCAATCTTCAATCTACTCCACTAAT-GCCT-A
* * * *
48778776 GGGAGGTAAAATCTG-ACATCTTCGATCTATTCCACTAATGCCTA
1 GGGAGATAAGATCTGCA-ATCTTCAATCTACTCCACTAATGCCTA
* * ** *
48778820 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GGGAGATAAGATCTGCAATCTTCAATCTACTCCACTAATGCCTA
*
48778864 GGGAGAT-AGAATTACTG--A-CTTCAATGTACTCCACTGTAA--CCTCA
1 GGGAGATAAG-A-T-CTGCAATCTTCAATCTACTCCAC--TAATGCCT-A
* * * * *
48778908 GGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTA
1 GGGAGATAAGATCTGCAATCTTCAATCTACTCCACTAATGCCTA
* *
48778952 GGGAGATAAGATCTGGAATCTTCAATCTATTCCACT
1 GGGAGATAAGATCTGCAATCTTCAATCTACTCCACT
48778988 GCCAACCAGG
Statistics
Matches: 229, Mismatches: 51, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
42 4 0.02
43 43 0.19
44 138 0.60
45 40 0.17
46 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
GGGAGATAAGATCTGCAATCTTCAATCTACTCCACTAATGCCTA
Found at i:48778760 original size:132 final size:132
Alignment explanation
Indices: 48778607--48779009 Score: 698
Period size: 132 Copynumber: 3.1 Consensus size: 132
48778597 CAGAGAAGTA
* * *
48778607 AGAATTACTGGCTTCAATGTACTCTACTGTAACCTCGGGGAGCTAAAATCTGCCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
48778672 ACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
66 ACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
48778737 AT
131 AT
* *
48778739 AGAATTACTGGCTTCAATGTACTCCACTGTAGCCTCAGGGAGGTAAAATCTGACATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
*
48778804 ATTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
66 ACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
48778869 AT
131 AT
*
48778871 AGAATTACTGACTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
1 AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
* * ***
48778936 GCTCCACTAATGCCTAGGGAGATAAGATCTGGAATCTTCAATCTATTCCACTGCCAACCAGGGAG
66 ACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
48779001 AT
131 AT
48779003 AGAATTA
1 AGAATTA
48779010 GTATCTTCGA
Statistics
Matches: 256, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 256 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
ACTCCACTAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAG
AT
Found at i:48778998 original size:88 final size:87
Alignment explanation
Indices: 48778618--48779003 Score: 304
Period size: 88 Copynumber: 4.4 Consensus size: 87
48778608 GAATTACTGG
* * * * * *
48778618 CTTCAATGTACTCTACTGTAACCTCGGGGAGCTAAAATCTGCCATCTTCGATCTACTCCACTAAT
1 CTTCAATCTATTCCACTGTAACC-CAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAAT
48778683 GCCTAGGGAGATAAGATCTGTAAT
65 GCCTAGGGAGATAAGATCTG-AAT
* * * *** * *
48778707 CTTCAATCTATTCCACTGCT-GCCCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GT
1 CTTCAATCTATTCCACTG-TAACCCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAAT
* *
48778769 AGCCTCAGGGAGGTAAAATCTGACAT
65 -GCCT-AGGGAGATAAGATCTGA-AT
* * * ** * **
48778795 CTTCGATCTATTCCAC--TAATGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
1 CTTCAATCTATTCCACTGTAA--CCCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAA
*
48778858 TGCCCAGGGAGAT-AGAATTACTG-A-
64 TGCCTAGGGAGATAAG-A-T-CTGAAT
* * * * *
48778882 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAAT
1 CTTCAATCTATTCCACTGTAACC-CAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAAT
48778947 GCCTAGGGAGATAAGATCTGGAAT
65 GCCTAGGGAGATAAGATCT-GAAT
*
48778971 CTTCAATCTATTCCACTGCCAA-CCAGGGAGATA
1 CTTCAATCTATTCCACTG-TAACCCAGGGAGATA
48779004 GAATTAGTAT
Statistics
Matches: 227, Mismatches: 50, Indels: 41
0.71 0.16 0.13
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 40 0.18
88 117 0.52
89 59 0.26
90 7 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
CTTCAATCTATTCCACTGTAACCCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTAATG
CCTAGGGAGATAAGATCTGAAT
Done.