Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009603.1 Hibiscus syriacus cultivar Beakdansim tig00116983_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1462390
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:362726 original size:15 final size:16
Alignment explanation
Indices: 362665--362726 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 16
362655 GTTTATCTGA
362665 ACCTAAAATC-TAAAT
1 ACCTAAAATCTTAAAT
* * *
362680 TCCTATTAACCTTAAA-
1 ACCTA-AAATCTTAAAT
*
362696 ACCTAAAATCAT-AAT
1 ACCTAAAATCTTAAAT
362711 ACCT-AAATCTTAAAT
1 ACCTAAAATCTTAAAT
362726 A
1 A
362727 AAAATACATA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
14 8 0.23
15 16 0.46
16 7 0.20
17 4 0.11
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (16 bp):
ACCTAAAATCTTAAAT
Found at i:363696 original size:18 final size:18
Alignment explanation
Indices: 363675--363712 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
363665 TGAACTGGTT
*
363675 AACTTGTTAAAACTTGTC
1 AACTTCTTAAAACTTGTC
*
363693 AACTTCTTGAAACTTGTC
1 AACTTCTTAAAACTTGTC
363711 AA
1 AA
363713 TAACCTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (18 bp):
AACTTCTTAAAACTTGTC
Found at i:363874 original size:37 final size:37
Alignment explanation
Indices: 363793--363918 Score: 146
Period size: 37 Copynumber: 3.4 Consensus size: 37
363783 AATGTATTCC
* * *
363793 AATCGAATATAAATTCGT-AATAATATATTCATATTA
1 AATCAAATATAAATTCATAAATAATATATTCATATTT
* * **
363829 AATTAAATATAAATTCATAAATAACATATTTGTATTT
1 AATCAAATATAAATTCATAAATAATATATTCATATTT
* *
363866 AATCAAATATAAATTTATAAATAATATATTCCTATTT
1 AATCAAATATAAATTCATAAATAATATATTCATATTT
*
363903 CAATCAAACATAAATT
1 -AATCAAATATAAATT
363919 TGTAATAACG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
36 15 0.20
37 46 0.61
38 14 0.19
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (37 bp):
AATCAAATATAAATTCATAAATAATATATTCATATTT
Found at i:366349 original size:15 final size:15
Alignment explanation
Indices: 366329--366365 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
366319 AGGTTATTCA
366329 ATATATAATTTAT-AC
1 ATATATAATTT-TGAC
366344 ATATATAATTTTGAC
1 ATATATAATTTTGAC
366359 ATATATA
1 ATATATA
366366 GTTAGTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (15 bp):
ATATATAATTTTGAC
Found at i:377697 original size:8 final size:8
Alignment explanation
Indices: 377684--377711 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
377674 AGATTCTCTC
377684 ATATGTAT
1 ATATGTAT
377692 ATATGTAT
1 ATATGTAT
377700 ATATGTAT
1 ATATGTAT
377708 ATAT
1 ATAT
377712 ATCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:382312 original size:55 final size:55
Alignment explanation
Indices: 382168--382839 Score: 920
Period size: 55 Copynumber: 12.2 Consensus size: 55
382158 AACAATTATC
* * * * **
382168 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGAACAGGCACGATCATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* *
382223 GAAGAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACAATTGTC
1 GAAG-ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* *
382279 GAAGATTGTTCGAGTCTTATACTCTCTGGAGAAATAGAGAGCAGACACAATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* * * *
382334 GAAGATTGTTTGAGTCTTATACTCTCTAAAGAAATAGGGAGCAGACACAATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* * *
382389 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGATATGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* * ** *
382444 GAAGATTGTTCGAGTCTTATACTCTTTGGAGAAATAGAGAGTGGACACAATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* * * * *
382499 GAATATTGGTT-GAGTCTTTTACTCTCTAAAGAAATAGGGAGCAAACACGATTGTT
1 GAAGATT-GTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* *
382554 GAAGAGTGTTCGAGTCTTATACTCTCTGAAGAAATA-AGGGGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGA-GAGCAGACACGATTGTT
* * *
382609 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
* *
382664 GAAGAGTGTTCGAGTCTTATACTCTCTGAAGAAATA-AGGGGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGA-GAGCAGACACGATTGTT
* *
382719 GAAGAGTGTTCGAGTCTTATACTCTCTGAAGAAATA-AGGGGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGA-GAGCAGACACGATTGTT
* *
382774 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
*
382829 GATGATTGTTC
1 GAAGATTGTTC
382840 AAGTTCTAAA
Statistics
Matches: 551, Mismatches: 59, Indels: 14
0.88 0.09 0.02
Matches are distributed among these distances:
54 3 0.01
55 498 0.90
56 50 0.09
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGAGAGCAGACACGATTGTT
Found at i:383953 original size:19 final size:19
Alignment explanation
Indices: 383929--383965 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
383919 AATCATCAAC
383929 AAAAAAGAACAAAAACAAT
1 AAAAAAGAACAAAAACAAT
*
383948 AAAAAAGAATAAAAACAA
1 AAAAAAGAACAAAAACAA
383966 AAAGGGAAAA
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:0.81, C:0.08, G:0.05, T:0.05
Consensus pattern (19 bp):
AAAAAAGAACAAAAACAAT
Found at i:386078 original size:37 final size:38
Alignment explanation
Indices: 386037--386210 Score: 192
Period size: 37 Copynumber: 4.7 Consensus size: 38
386027 AATTCAATCG
386037 AATATAAATTCAT-AATAATATATTCATATTTTAATTA
1 AATATAAATTCATAAATAATATATTCATATTTTAATTA
* ** *
386074 AATATAAATTCATAAATAAAATATTTTTA-TTTAATAA
1 AATATAAATTCATAAATAATATATTCATATTTTAATTA
* * * * * * *
386111 AACATAAATTTATAAATAATACATTCTTATTTCAGTTG
1 AATATAAATTCATAAATAATATATTCATATTTTAATTA
* *
386149 AATATAAATTCAT-AATAATATATTCACATTTTAATTG
1 AATATAAATTCATAAATAATATATTCATATTTTAATTA
* *
386186 AATATAAATCCTTAAATAATATATT
1 AATATAAATTCATAAATAATATATT
386211 GTTATCCTAT
Statistics
Matches: 112, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
37 74 0.66
38 38 0.34
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (38 bp):
AATATAAATTCATAAATAATATATTCATATTTTAATTA
Found at i:386193 original size:75 final size:74
Alignment explanation
Indices: 386036--386194 Score: 176
Period size: 75 Copynumber: 2.1 Consensus size: 74
386026 TAATTCAATC
* * **
386036 GAATATAAATTCATAATAATATATTCATATTTTAATTAAATATAAATTCATAAATAAAATATTTT
1 GAATATAAATTCATAATAATACATTCATATTTCAATTAAATATAAATTCATAAATAAAATATTCA
*
386101 TATTTAATA
66 CATTTAATA
* * * * * * *
386110 AAACATAAATTTATAAATAATACATTCTTATTTCAGTTGAATATAAATTCAT-AATAATATATTC
1 GAATATAAATTCAT-AATAATACATTCATATTTCAATTAAATATAAATTCATAAATAAAATATTC
*
386174 ACATTTTAATT
65 ACA-TTTAATA
386185 GAATATAAAT
1 GAATATAAAT
386195 CCTTAAATAA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
74 22 0.32
75 46 0.68
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (74 bp):
GAATATAAATTCATAATAATACATTCATATTTCAATTAAATATAAATTCATAAATAAAATATTCA
CATTTAATA
Found at i:386202 original size:75 final size:74
Alignment explanation
Indices: 386036--386215 Score: 175
Period size: 75 Copynumber: 2.4 Consensus size: 74
386026 TAATTCAATC
* * * *
386036 GAATATAAAT-TCATAATAATATATTCATATTTTAATTAAATATAAATTCATAAATAAAATATTT
1 GAATATAAATCTTA-AATAATATATTCTTATTTCAATTAAATATAAATTCATAAATAAAATATTC
**
386100 TTATTTAATA
65 ACATTTAATA
* * * * * * *
386110 AAACATAAATTTATAAATAATACATTCTTATTTCAGTTGAATATAAATTCAT-AATAATATATTC
1 GAATATAAATCT-TAAATAATATATTCTTATTTCAATTAAATATAAATTCATAAATAAAATATTC
*
386174 ACATTTTAATT
65 ACA-TTTAATA
*
386185 GAATATAAATCCTTAAATAATATATTGTTAT
1 GAATATAAAT-CTTAAATAATATATTCTTAT
386216 CCTATTAATA
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
74 19 0.23
75 63 0.75
76 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (74 bp):
GAATATAAATCTTAAATAATATATTCTTATTTCAATTAAATATAAATTCATAAATAAAATATTCA
CATTTAATA
Found at i:386964 original size:153 final size:153
Alignment explanation
Indices: 386686--386976 Score: 465
Period size: 153 Copynumber: 1.9 Consensus size: 153
386676 CTAACTTTGG
** * *
386686 TTAAAGGTAATGAATTTATGTTCTTTATGATTCATGTGATTATAATTGATAAAAAGTTGTGATTT
1 TTAAAGGTAATGAAACTATGTTCTTTATGATTCATGTGATTATAATCGATAAAAAGTTGTAATTT
* * *
386751 GCATATCATTTATTAGTTAAACAAGGAAGTAAAGGGATATGTGACCTCAAACACACTACAATACT
66 GCATATCATTTATAAGTTAAACAAGGAAGTAAAGGGATATGAGACCTCAAACACACTACAAGACT
386816 TTGAAAAATGTGATTATAATTGA
131 TTGAAAAATGTGATTATAATTGA
*
386839 TTAAAGGTAATGAAACTATGTTCTTTATGATTCATGTGATTATAATCGATTAAAAGTTGTAATTT
1 TTAAAGGTAATGAAACTATGTTCTTTATGATTCATGTGATTATAATCGATAAAAAGTTGTAATTT
* * * **
386904 GCATATCCTTTATAAGTTAAACAAGGAAGTAATGGGTTATGAGACCTCAAACATGCTACAAGACT
66 GCATATCATTTATAAGTTAAACAAGGAAGTAAAGGGATATGAGACCTCAAACACACTACAAGACT
386969 TTGAAAAA
131 TTGAAAAA
386977 AAATGAGAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (153 bp):
TTAAAGGTAATGAAACTATGTTCTTTATGATTCATGTGATTATAATCGATAAAAAGTTGTAATTT
GCATATCATTTATAAGTTAAACAAGGAAGTAAAGGGATATGAGACCTCAAACACACTACAAGACT
TTGAAAAATGTGATTATAATTGA
Found at i:393950 original size:15 final size:15
Alignment explanation
Indices: 393910--393947 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
393900 ATTTTTTGTT
393910 CTTTAATTT-AATGC
1 CTTTAATTTCAATGC
393924 CTTTACATTTCAAT-C
1 CTTTA-ATTTCAATGC
393939 CTTTAATTT
1 CTTTAATTT
393948 TCAGCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
16 3 0.14
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (15 bp):
CTTTAATTTCAATGC
Found at i:394534 original size:2 final size:2
Alignment explanation
Indices: 394529--394567 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
394519 TTGAAAAAAG
394529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
394568 ATGGAAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:397548 original size:20 final size:19
Alignment explanation
Indices: 397519--397592 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
397509 TGTTGGAGCC
397519 AAAGTATCGAAACTTTAAGG
1 AAAGTATCGAAACTTT-AGG
* *
397539 AAAGTTTCGAAACCTT-GAG
1 AAAGTATCGAAACTTTAG-G
* * *
397558 ATAGTTTCGAAACTCTT-GA
1 AAAGTATCGAAACT-TTAGG
397577 AAAGTATCGAAACTTT
1 AAAGTATCGAAACTTT
397593 TTGGGAAACT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.07
19 25 0.56
20 17 0.38
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
AAAGTATCGAAACTTTAGG
Found at i:397565 original size:19 final size:19
Alignment explanation
Indices: 397539--397590 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
397529 AACTTTAAGG
397539 AAAGTTTCGAAAC-CTTGA
1 AAAGTTTCGAAACTCTTGA
*
397557 GATAGTTTCGAAACTCTTGA
1 -AAAGTTTCGAAACTCTTGA
*
397577 AAAGTATCGAAACT
1 AAAGTTTCGAAACT
397591 TTTTGGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.83
20 5 0.17
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (19 bp):
AAAGTTTCGAAACTCTTGA
Found at i:399457 original size:21 final size:20
Alignment explanation
Indices: 399429--399467 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
399419 CATTATAGGA
*
399429 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
399449 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
399468 GACCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:407866 original size:3 final size:3
Alignment explanation
Indices: 407860--407935 Score: 102
Period size: 3 Copynumber: 24.7 Consensus size: 3
407850 TTCATTTGAA
407860 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TATT TAT TATT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT
407906 TAT TAT TATT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
407936 CTAAATAATT
Statistics
Matches: 67, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
2 3 0.04
3 54 0.81
4 10 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:407904 original size:29 final size:30
Alignment explanation
Indices: 407860--407935 Score: 115
Period size: 29 Copynumber: 2.6 Consensus size: 30
407850 TTCATTTGAA
407860 TATTATTTA-TATTTTATTATTATTA-TTAT
1 TATTATTTATTA-TTTATTATTATTATTTAT
407889 TATTATTTATTATTTATTATTATTATTTAT
1 TATTATTTATTATTTATTATTATTATTTAT
407919 TATTA-TTATTA-TTATTA
1 TATTATTTATTATTTATTA
407936 CTAAATAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
28 6 0.13
29 28 0.62
30 11 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (30 bp):
TATTATTTATTATTTATTATTATTATTTAT
Found at i:418276 original size:8 final size:9
Alignment explanation
Indices: 418249--418279 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
418239 AAATGGTAAT
418249 CATTCTTTA
1 CATTCTTTA
418258 CATTCTTTA
1 CATTCTTTA
418267 CATT-TTTA
1 CATTCTTTA
418275 CATTC
1 CATTC
418280 ATTAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (9 bp):
CATTCTTTA
Found at i:418276 original size:17 final size:17
Alignment explanation
Indices: 418249--418288 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
418239 AAATGGTAAT
*
418249 CATTCTTTACATTCTTTA
1 CATT-TTTACATTCATTA
418267 CATTTTTACATTCATTA
1 CATTTTTACATTCATTA
418284 -ATTTT
1 CATTTT
418289 CATTTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.57
Consensus pattern (17 bp):
CATTTTTACATTCATTA
Found at i:421802 original size:5 final size:5
Alignment explanation
Indices: 421789--421874 Score: 74
Period size: 5 Copynumber: 17.2 Consensus size: 5
421779 ATTATGCTTA
*
421789 AAAAG AAAAT AAAAG AAAA- AAAAG --AAG AAAAG AAAAG AAAAG AAAA-
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
*
421835 AATGAAG AAAA- AAGAAG AAAAG AAAAAAG AAAAT AAAAG A
1 AA--AAG AAAAG AA-AAG AAAAG --AAAAG AAAAG AAAAG A
421875 TGTTGAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
3 3 0.04
4 8 0.12
5 45 0.67
6 4 0.06
7 7 0.10
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:421841 original size:26 final size:26
Alignment explanation
Indices: 421789--421862 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 26
421779 ATTATGCTTA
*
421789 AAAAGAAAATAAAAGAAAAAAAAGAAG
1 AAAAGAAAAGAAAAG-AAAAAAAGAAG
*
421816 AAAAGAAAAGAAAAGAAAAAATGAAG
1 AAAAGAAAAGAAAAGAAAAAAAGAAG
421842 AAAA-AAGAAGAAAAGAAAAAA
1 AAAAGAA-AAGAAAAGAAAAAA
421863 GAAAATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 2 0.05
26 28 0.64
27 14 0.32
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (26 bp):
AAAAGAAAAGAAAAGAAAAAAAGAAG
Found at i:421843 original size:38 final size:39
Alignment explanation
Indices: 421789--421888 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 39
421779 ATTATGCTTA
421789 AAAAGAAAATAA--AAGAAAAAAAAGAAGAAAAG-AAAAG
1 AAAAGAAAA-AATGAAGAAAAAAAAGAAGAAAAGAAAAAG
421826 AAAAGAAAAAATGAAG--AAAAAAGAAGAAAAGAAAAAAG
1 AAAAGAAAAAATGAAGAAAAAAAAGAAGAAAAG-AAAAAG
* * **
421864 AAAATAAAAGATGTTGAAAAAAAAG
1 AAAAGAAAAAATGAAGAAAAAAAAG
421889 GAGGGTCAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
36 17 0.32
37 9 0.17
38 20 0.38
40 7 0.13
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (39 bp):
AAAAGAAAAAATGAAGAAAAAAAAGAAGAAAAGAAAAAG
Found at i:421872 original size:26 final size:26
Alignment explanation
Indices: 421788--421874 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
421778 TATTATGCTT
*
421788 AAAAAGAAAATAAAAGAAAAAA-AAGA
1 AAAAAGAAAAGAAAAGAAAAAAGAA-A
421814 AGAAAAGAAAAGAAAAGAAAAAATGAAGA
1 A-AAAAGAAAAGAAAAGAAAAAA-GAA-A
421843 AAAAAG--AAGAAAAGAAAAAAGAAA
1 AAAAAGAAAAGAAAAGAAAAAAGAAA
421867 ATAAAAGA
1 A-AAAAGA
421875 TGTTGAAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
24 2 0.04
25 8 0.15
26 15 0.27
27 20 0.36
28 5 0.09
29 5 0.09
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (26 bp):
AAAAAGAAAAGAAAAGAAAAAAGAAA
Found at i:422259 original size:18 final size:18
Alignment explanation
Indices: 422236--422274 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
422226 GTTTATTTTT
422236 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
422254 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
422272 TTT
1 TTT
422275 AATATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:423701 original size:123 final size:123
Alignment explanation
Indices: 423545--424332 Score: 1271
Period size: 123 Copynumber: 6.4 Consensus size: 123
423535 CATTCGATGA
* *
423545 ATCAACTTTTCCAAAG-AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* *
423609 ATGAGAAGATCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGT
66 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
* * *
423667 ATCAACTTTTCTAGAGAAAGTTCATAATGAGAAGAAATTATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
423732 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
66 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
423790 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* *
423855 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGACCAGC
66 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
*
423913 ATCAACTTTTCCAGAG-AAGTTCATAATGAGAAGAACTTATCAGAAGAGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
* * *
423977 ATGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGATCATC
66 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
* ** *
424035 ATCAACTTTTCCAGAG-AAGTTAATAATGAGAAGAACTTATCAAAAGGGGAAGAAGAAGTTCATA
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
*
424099 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGC
66 ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
* *
424157 ATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
* * * *
424222 GATGAGAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGACCAGC
65 AATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
** * *
424281 ATCAACATTTT-CAGA-AGTGTTCATAATGAGAAGAACTAATCTGAAGAAGAAG
1 ATCAAC-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAG
424333 GAGCAAAACT
Statistics
Matches: 625, Mismatches: 37, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
122 252 0.40
123 287 0.46
124 82 0.13
125 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (123 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGC
Found at i:423953 original size:368 final size:368
Alignment explanation
Indices: 423545--424327 Score: 1313
Period size: 368 Copynumber: 2.1 Consensus size: 368
423535 CATTCGATGA
*
423545 ATCAACTTTTCCAAAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAA
* *
423610 TGAGAAGATCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGT-ATCAACT
66 TGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGATCA-TCATCAACT
* * **
423674 TTTCTAGAGAAAGTTCATAATGAGAAGAAATTATCTGAAGAGGAAGAAAAAGTTCATAATGAGAA
130 TTTCCAGAG-AAGTTAATAATGAGAAGAAATTATCAAAAGAGGAAGAAAAAGTTCATAATGAGAA
*
423739 GAGCTTGTTCAACCTTTTGTATGACTCTATCGCAGAAGGAGATAGATCAGCATCAACTTTTCCAG
194 GAGCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAG
* *
423804 AGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTT
259 AGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTT
* *
423868 GTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGACCAGC
324 GTTCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGACCAGC
* *
423913 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCAGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAA
423978 TGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGATCATCATCAACTT
66 TGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGATCATCATCAACTT
* * *
424043 TTCCAGAGAAGTTAATAATGAGAAGAACTTATCAAAAGGGGAAGAAGAAGTTCATAATGAGAAGA
131 TTCCAGAGAAGTTAATAATGAGAAGAAATTATCAAAAGAGGAAGAAAAAGTTCATAATGAGAAGA
424108 GCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAG
196 GCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAG
*
424173 AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATGATGAGAAGAGCTTGT
261 AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
*
424238 TCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGACCAGC
326 TCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGACCAGC
* *
424281 ATCAACATTTT-CAGA-AGTGTTCATAATGAGAAGAACTAATCTGAAGA
1 ATCAAC-TTTTCCAGAGA-AGTTCATAATGAGAAGAACTTATCTGAAGA
424328 AGAAGGAGCA
Statistics
Matches: 389, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
367 146 0.38
368 239 0.61
369 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (368 bp):
ATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGTATGACTCTATCGCAGAAAGAGATAGATCATCATCAACTT
TTCCAGAGAAGTTAATAATGAGAAGAAATTATCAAAAGAGGAAGAAAAAGTTCATAATGAGAAGA
GCTTGTTCAACCTTTTGTATGACTCTATCACAGAAGGAGATAGATCAGCATCAACTTTTCCAGAG
AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
TCAACCTTTTGCATGACTCTATCACAGAAAGAGATAGACCAGC
Found at i:423993 original size:20 final size:20
Alignment explanation
Indices: 423931--423994 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
423921 TTCCAGAGAA
423931 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
423951 -ATCAGAA-GAGGAAGAAGAA
1 GTTCATAATGA-GAAGAACTT
423970 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
423990 GTTCA
1 GTTCA
423995 ACCTTTTGTA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:424579 original size:3 final size:3
Alignment explanation
Indices: 424573--424657 Score: 109
Period size: 3 Copynumber: 27.7 Consensus size: 3
424563 TTCATTTGAA
* *
424573 TAT TATT TAT AAT TTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
424620 TAT TAA TAT TAT TA- TAT TAT TATT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA
424658 CTAAATAATT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 2 0.03
3 62 0.86
4 8 0.11
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:426027 original size:17 final size:18
Alignment explanation
Indices: 425991--426040 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
425981 AATATATGTA
425991 TATAGTAAATAATATTTTT
1 TATA-TAAATAATATTTTT
*
426010 TATATAAATTAT-TTTTT
1 TATATAAATAATATTTTT
426027 TATA-AAATATATAT
1 TATATAAATA-ATAT
426041 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 8 0.30
19 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATAAATAATATTTTT
Found at i:426030 original size:15 final size:16
Alignment explanation
Indices: 426003--426032 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
425993 TAGTAAATAA
426003 TATTTTTTATATAAAT
1 TATTTTTTATATAAAT
426019 TATTTTTT-TATAAA
1 TATTTTTTATATAAA
426033 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTTATATAAAT
Found at i:429866 original size:37 final size:37
Alignment explanation
Indices: 429823--429992 Score: 121
Period size: 37 Copynumber: 4.8 Consensus size: 37
429813 AAATGTCGTC
429823 TCACTTGAGACATTTTTTTCTTAAAACAAATTTTGTT
1 TCACTTGAGACATTTTTTTCTTAAAACAAATTTTGTT
* ** *
429860 TCACTTGAGACATTTTCCTTCGGAACACAAA-----TT
1 TCACTTGAGACATTTT-TTTCTTAAAACAAATTTTGTT
* *
429893 TCA----A-A-GTTGTTTTTCTTAAAAACAAATTTTGTC
1 TCACTTGAGACATT-TTTTTCTT-AAAACAAATTTTGTT
* *
429926 TCACTTGCA-ACATTTTTCTCTTAAAACAAATTTCGTT
1 TCACTTG-AGACATTTTTTTCTTAAAACAAATTTTGTT
* * *
429963 TCACTTAAGACATTTTTCTCTCAAAACAAA
1 TCACTTGAGACATTTTTTTCTTAAAACAAA
429993 CATCGTCTCG
Statistics
Matches: 102, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
27 5 0.05
28 10 0.10
29 1 0.01
33 9 0.09
36 1 0.01
37 55 0.54
38 19 0.19
39 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (37 bp):
TCACTTGAGACATTTTTTTCTTAAAACAAATTTTGTT
Found at i:430011 original size:37 final size:37
Alignment explanation
Indices: 429935--430013 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
429925 CTCACTTGCA
* ** *
429935 ACATTTTTCTCTTAAAACAAATTTCGTTTCACTTAAG
1 ACATTTTTCTCTCAAAACAAACATCGTCTCACTTAAG
* *
429972 ACATTTTTCTCTCAAAACAAACATCGTCTCGCTTGAG
1 ACATTTTTCTCTCAAAACAAACATCGTCTCACTTAAG
430009 ACATT
1 ACATT
430014 CTCCCAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (37 bp):
ACATTTTTCTCTCAAAACAAACATCGTCTCACTTAAG
Found at i:430096 original size:36 final size:35
Alignment explanation
Indices: 430056--430138 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
430046 TGATCTCACA
*
430056 TGAGATAGTTTTCCAAAGAACAAATTTTGTCTCCCT
1 TGAGACAGTTTTCCAAA-AACAAATTTTGTCTCCCT
* ***
430092 TGAGACAGATTCTCTTTAAACAAATTTTGTCTCCCT
1 TGAGACAG-TTTTCCAAAAACAAATTTTGTCTCCCT
*
430128 TGTGACAGTTT
1 TGAGACAGTTT
430139 CCCTTAAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 2 0.05
36 32 0.82
37 5 0.13
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (35 bp):
TGAGACAGTTTTCCAAAAACAAATTTTGTCTCCCT
Found at i:430149 original size:36 final size:36
Alignment explanation
Indices: 430074--430149 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
430064 TTTTCCAAAG
* *
430074 AACAAATTTTGTCTCCCTTGAGACAGATTCTCTTTA
1 AACAAATTTTGTCTCCCTTGAGACAGATTCCCTTAA
* *
430110 AACAAATTTTGTCTCCCTTGTGACAGTTTCCCTTAA
1 AACAAATTTTGTCTCCCTTGAGACAGATTCCCTTAA
430146 AACA
1 AACA
430150 GACTTTATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (36 bp):
AACAAATTTTGTCTCCCTTGAGACAGATTCCCTTAA
Found at i:430295 original size:76 final size:76
Alignment explanation
Indices: 430141--430326 Score: 225
Period size: 76 Copynumber: 2.4 Consensus size: 76
430131 GACAGTTTCC
* * * * *
430141 CTTAAAACAGACTTTATCTCGCTTTAGACA-TTTTTTCACACAACAAGACATTTCTTTTCACTAC
1 CTTAAAACAAACTTTATCTCGCTTGAGACAGTTTTTACACAAAACAAGACATTTCATTTCACTAC
*
430205 AGATTGTTTTT
66 AAATTGTTTTT
* *
430216 CTTAAAACAAACTTTGTCTCGCTTGAGACAGTTTTTACTCAAAACAAGA-ATATTCATTTCACT-
1 CTTAAAACAAACTTTATCTCGCTTGAGACAGTTTTTACACAAAACAAGACAT-TTCATTTCACTA
430279 CAAAATTGTTTTT
65 C-AAATTGTTTTT
* * *
430292 CTTAAAACCAAAATTTATCTCACTTGAGATAGTTT
1 CTTAAAA-CAAACTTTATCTCGCTTGAGACAGTTT
430327 CCCTCGAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
75 30 0.32
76 42 0.44
77 23 0.24
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (76 bp):
CTTAAAACAAACTTTATCTCGCTTGAGACAGTTTTTACACAAAACAAGACATTTCATTTCACTAC
AAATTGTTTTT
Found at i:430510 original size:51 final size:52
Alignment explanation
Indices: 430396--430586 Score: 219
Period size: 52 Copynumber: 3.7 Consensus size: 52
430386 GAAGATTTTT
* *
430396 AGAAACTAAGCCTGATTTTCAGGGGTTTCTCT-ATGTTTTCAAATGAACTTGAA
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCT-TAATGTTTTCAAATGAA-TTTAA
430449 AGAAGA-TAAGCCTAATTTT-AGGGGTTTCTTAATGTTTT-AAATGAATTTCAA
1 AGAA-ACTAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGAATTT-AA
* * * * * **
430500 AGAAATTAAGCCTAATTTTTAGGGATTTCTTAATATTTTCAAATGAGTTTTT
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGAATTTAA
**
430552 AGAAACTAAGCCTGGTTTTCAGGGGTTTCTTAATG
1 AGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATG
430587 AGGATTTTCA
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
50 3 0.03
51 27 0.23
52 63 0.53
53 25 0.21
54 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (52 bp):
AGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGTTTTCAAATGAATTTAA
Found at i:431771 original size:139 final size:139
Alignment explanation
Indices: 431369--432012 Score: 979
Period size: 140 Copynumber: 4.6 Consensus size: 139
431359 AAGTTGAACC
* *
431369 GATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * * *
431434 TAATAAGAAGAACTTGTTCAACATTCGCTCGATTCATTGCATATGGAGTTGAATCAGCAACACCT
66 TAATGAGAAGAACTTGTTCAACATTCACTAGATTCATCGCATATGGAGTTGAATCAGCAACACCT
*
431499 CACTCAAGG
131 CACTCGAGG
* **
431508 GATCAACATTTCCAGTGGAGAGTTCATAATTAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTC
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAGAAGTTC
* * *
431573 ATAATGAGAATAACTTGTTCAA-ACTT-AGCTAGATTCATCGCATATGAAGTTGAATCAGCAGCA
65 ATAATGAGAAGAACTTGTTCAACA-TTCA-CTAGATTCATCGCATATGGAGTTGAATCAGCAACA
*
431636 CCTCACTCGATG
128 CCTCACTCGAGG
* * * *
431648 GATCAACATTTCAAATGGATAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTTA
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* *
431713 TAATGAGAAGAACTTTTTCAACATTCACTCGATTCATCGCATATGGAGTTGAATCAGCAACACCT
66 TAATGAGAAGAACTTGTTCAACATTCACTAGATTCATCGCATATGGAGTTGAATCAGCAACACCT
431778 CACTCGAGG
131 CACTCGAGG
* **
431787 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAAGGGAGAAGAAGTTC
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAGAAGTTC
* * *
431852 ATAATGAGAAGAACTTGTTCAACCTTAACTAGATTCATCACATATGGAGTTGAATCAGCAACACC
65 ATAATGAGAAGAACTTGTTCAACATTCACTAGATTCATCGCATATGGAGTTGAATCAGCAACACC
431917 TCACTCGAGG
130 TCACTCGAGG
* *
431927 GATCAATATTTCCAGTGGAGAGTTCATAATG-GAAGAACTCATCCGATGAGGGAGAAAAAGTTCA
1 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
431991 TAATGAGAAGAACTTGTTCAAC
66 TAATGAGAAGAACTTGTTCAAC
432013 CCTAGCTTGT
Statistics
Matches: 455, Mismatches: 44, Indels: 13
0.89 0.09 0.03
Matches are distributed among these distances:
138 37 0.08
139 181 0.40
140 237 0.52
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (139 bp):
GATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACATTCACTAGATTCATCGCATATGGAGTTGAATCAGCAACACCT
CACTCGAGG
Found at i:431869 original size:279 final size:279
Alignment explanation
Indices: 431369--432012 Score: 1101
Period size: 279 Copynumber: 2.3 Consensus size: 279
431359 AAGTTGAACC
431369 GATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
1 GATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * *
431434 TAATAAGAAGAACTTGTTCAACATTCGCTCGATTCATTGCATATGGAGTTGAATCAGCAACACCT
66 TAATGAGAAGAACTTGTTCAACATTCACTCGATTCATCGCATATGGAGTTGAATCAGCAACACCT
* *
431499 CACTCAAGGGATCAACATTTCCAGTGGAGAGTTCATAATTAGAAGAACTCATCCGACAAAGGGAG
131 CACTCAAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAAGGGAG
* * *
431564 AAGAAGTTCATAATGAGAATAACTTGTTCAAACTTAGCTAGATTCATCGCATATGAAGTTGAATC
196 AAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTAACTAGATTCATCACATATGAAGTTGAATC
* *
431629 AGCAGCACCTCACTCGATG
261 AGCAACACCTCACTCGAGG
* *
431648 GATCAACATTTCAAATGGATAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTTA
1 GATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
*
431713 TAATGAGAAGAACTTTTTCAACATTCACTCGATTCATCGCATATGGAGTTGAATCAGCAACACCT
66 TAATGAGAAGAACTTGTTCAACATTCACTCGATTCATCGCATATGGAGTTGAATCAGCAACACCT
*
431778 CACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAAGGGAG
131 CACTCAAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAAGGGAG
* *
431843 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAACTAGATTCATCACATATGGAGTTGAATC
196 AAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTAACTAGATTCATCACATATGAAGTTGAATC
431908 AGCAACACCTCACTCGAGG
261 AGCAACACCTCACTCGAGG
* * * *
431927 GATCAATATTTCCAGTGGAGAGTTCATAATG-GAAGAACTCATCCGATGAGGGAGAAAAAGTTCA
1 GATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
431991 TAATGAGAAGAACTTGTTCAAC
66 TAATGAGAAGAACTTGTTCAAC
432013 CCTAGCTTGT
Statistics
Matches: 342, Mismatches: 23, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
278 52 0.15
279 290 0.85
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (279 bp):
GATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACATTCACTCGATTCATCGCATATGGAGTTGAATCAGCAACACCT
CACTCAAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACAAAGGGAG
AAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTAACTAGATTCATCACATATGAAGTTGAATC
AGCAACACCTCACTCGAGG
Found at i:433600 original size:25 final size:25
Alignment explanation
Indices: 433572--433625 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
433562 ATGTTTTATG
433572 TATTACATATTTATTTTACGTAAAT
1 TATTACATATTTATTTTACGTAAAT
** *
433597 TATTATGTATTTATTTTACGTACAT
1 TATTACATATTTATTTTACGTAAAT
433622 TATT
1 TATT
433626 TTATTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TATTACATATTTATTTTACGTAAAT
Found at i:436702 original size:17 final size:18
Alignment explanation
Indices: 436680--436713 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
436670 TAAACAAATA
*
436680 TTATTTTAT-AATAATTT
1 TTATTTAATAAATAATTT
436697 TTATTTAATAAATAATT
1 TTATTTAATAAATAATT
436714 AAATATTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTTAATAAATAATTT
Found at i:437386 original size:16 final size:18
Alignment explanation
Indices: 437352--437386 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
437342 TTAGTTAATC
437352 TATTTTGTTTAATCAATA
1 TATTTTGTTTAATCAATA
437370 TATTTTG-TTAA-CAATA
1 TATTTTGTTTAATCAATA
437386 T
1 T
437387 TTGAAGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (18 bp):
TATTTTGTTTAATCAATA
Found at i:438401 original size:24 final size:24
Alignment explanation
Indices: 438369--438414 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
438359 CCATAAAGAT
*
438369 CATGTCACAAGAGCAGAGAAAACG
1 CATGTCACAAAAGCAGAGAAAACG
438393 CATGTCACAAAAGCAGAGAAAA
1 CATGTCACAAAAGCAGAGAAAA
438415 TCGTGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.22, T:0.09
Consensus pattern (24 bp):
CATGTCACAAAAGCAGAGAAAACG
Found at i:438895 original size:2 final size:2
Alignment explanation
Indices: 438888--438967 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
438878 AATACATTAT
438888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
438930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
438968 ATAAATCATC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:440596 original size:7 final size:7
Alignment explanation
Indices: 440579--440616 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
440569 AAGAAGAACA
440579 TTTCTTTT
1 TTTC-TTT
440587 TTTCTTT
1 TTTCTTT
440594 TTTC-TT
1 TTTCTTT
440600 TTTC-TT
1 TTTCTTT
440606 TTTCTTT
1 TTTCTTT
440613 TTTC
1 TTTC
440617 CTTCATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.41
7 13 0.45
8 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTCTTT
Found at i:440601 original size:6 final size:6
Alignment explanation
Indices: 440585--440614 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
440575 AACATTTCTT
440585 TTTTTC TTTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTT
440615 TCCTTCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:440998 original size:2 final size:2
Alignment explanation
Indices: 440991--441029 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
440981 CATAAAATGA
440991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
441030 CACAAAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:446518 original size:14 final size:14
Alignment explanation
Indices: 446480--446520 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
446470 ATTTATATTT
*
446480 TTAAAATTACATTA
1 TTAAAAATACATTA
446494 -TAAAAA-A-ATTA
1 TTAAAAATACATTA
446505 TTAAAAATACATTA
1 TTAAAAATACATTA
446519 TT
1 TT
446521 GATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 4 0.17
12 7 0.30
13 6 0.26
14 6 0.26
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:446677 original size:7 final size:7
Alignment explanation
Indices: 446657--446757 Score: 55
Period size: 7 Copynumber: 14.7 Consensus size: 7
446647 ATTAGATTAC
446657 ACCCTAA
1 ACCCTAA
446664 A-CCTAA
1 ACCCTAA
446670 ACCCTAA
1 ACCCTAA
*
446677 ACTCTAA
1 ACCCTAA
* *
446684 TCTCTAA
1 ACCCTAA
* **
446691 TCTTTAA
1 ACCCTAA
* *
446698 TCTCTAA
1 ACCCTAA
446705 A-CCTAA
1 ACCCTAA
*
446711 ACCCCAA
1 ACCCTAA
*
446718 A-CCTCA
1 ACCCTAA
446724 ACCCATAA
1 ACCC-TAA
*
446732 ACACTAA
1 ACCCTAA
**
446739 GTCCTAA
1 ACCCTAA
446746 ACCCTAA
1 ACCCTAA
446753 ACCCT
1 ACCCT
446758 TAATATAATT
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
6 15 0.20
7 54 0.73
8 5 0.07
ACGTcount: A:0.40, C:0.37, G:0.01, T:0.23
Consensus pattern (7 bp):
ACCCTAA
Found at i:446847 original size:7 final size:7
Alignment explanation
Indices: 446832--446915 Score: 53
Period size: 7 Copynumber: 12.1 Consensus size: 7
446822 GATTATACCT
446832 TAAA-CC
1 TAAACCC
*
446838 TAAACAC
1 TAAACCC
*
446845 TAAACTC
1 TAAACCC
* **
446852 TAATCTT
1 TAAACCC
446859 TAAACCC
1 TAAACCC
446866 TAAACCC
1 TAAACCC
*
446873 TAAACCA
1 TAAACCC
* *
446880 TAATCAC
1 TAAACCC
*
446887 TAAGCCC
1 TAAACCC
** *
446894 TAAGTCT
1 TAAACCC
446901 TAAACCC
1 TAAACCC
446908 TAAACCC
1 TAAACCC
446915 T
1 T
446916 TAATCTAATT
Statistics
Matches: 59, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
6 4 0.07
7 55 0.93
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:446894 original size:28 final size:28
Alignment explanation
Indices: 446832--446896 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
446822 GATTATACCT
**
446832 TAAA-CCTAAACACTAAACTCTAATCTT
1 TAAACCCTAAACACTAAACTCTAATCAC
*
446859 TAAACCCTAAACCCTAAAC-CATAATCAC
1 TAAACCCTAAACACTAAACTC-TAATCAC
*
446887 TAAGCCCTAA
1 TAAACCCTAA
446897 GTCTTAAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.23
Consensus pattern (28 bp):
TAAACCCTAAACACTAAACTCTAATCAC
Found at i:446910 original size:21 final size:21
Alignment explanation
Indices: 446832--446915 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
446822 GATTATACCT
* *
446832 TAAACC-TAAACACTAAACTC
1 TAAACCTTAAACCCTAAACCC
* *
446852 TAATCTTTAAACCCTAAACCC
1 TAAACCTTAAACCCTAAACCC
* * * *
446873 TAAACCATAATCACTAAGCCC
1 TAAACCTTAAACCCTAAACCC
**
446894 TAAGTCTTAAACCCTAAACCC
1 TAAACCTTAAACCCTAAACCC
446915 T
1 T
446916 TAATCTAATT
Statistics
Matches: 47, Mismatches: 16, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
20 4 0.09
21 43 0.91
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACCC
Found at i:447008 original size:14 final size:14
Alignment explanation
Indices: 446989--447076 Score: 56
Period size: 14 Copynumber: 6.4 Consensus size: 14
446979 AGATTATACC
446989 CTAAACCTTAAACT
1 CTAAACCTTAAACT
* *
447003 CTAAACTTTAAATT
1 CTAAACCTTAAACT
* **
447017 ATAAACCCCAAACT
1 CTAAACCTTAAACT
*
447031 -TAAACCCTAAAC-
1 CTAAACCTTAAACT
* *
447043 CCAAACCATAAA-T
1 CTAAACCTTAAACT
* *
447056 CATAATCCTTAAACC
1 C-TAAACCTTAAACT
447071 CTAAAC
1 CTAAAC
447077 ATTTAATCTG
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
13 21 0.38
14 33 0.60
15 1 0.02
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAACCTTAAACT
Found at i:447036 original size:158 final size:158
Alignment explanation
Indices: 446735--447029 Score: 439
Period size: 158 Copynumber: 1.9 Consensus size: 158
446725 CCCATAAACA
* ** *
446735 CTAAGTCCTAAACCCTAAACCCTTAATATAATTATATGATAAAGTTTTAAAAGTAAAATAAAAGC
1 CTAAGTCCTAAACCCTAAACCCTTAATATAATTATATAATAAAGTACTAAAAGAAAAATAAAAGC
* * *
446800 TCATTTAATTAAGCACATGTTAGATTATACCTTAAACCTAAACACTAAACTCTAATCTTTAAACC
66 TCATTTAATTAAGCACATGTAAGATTATACCCTAAACCTAAACACTAAACTCTAATCTATAAACC
*
446865 CTAAACCCTAAACCATAATCACTAAGCC
131 CCAAACCCTAAACCATAATCACTAAGCC
* * **
446893 CTAAGTCTTAAACCCTAAACCCTTAATCTAATTATATAATAGGGTACTAAAAGAAAAATAAAAGC
1 CTAAGTCCTAAACCCTAAACCCTTAATATAATTATATAATAAAGTACTAAAAGAAAAATAAAAGC
* *
446958 TCATTTAATTAAGCACATGTAAGATTATACCCTAAACCTTAAACTCTAAACTTTAAAT-TATAAA
66 TCATTTAATTAAGCACATGTAAGATTATACCCTAAACC-TAAACACTAAACTCT-AATCTATAAA
447022 CCCCAAAC
129 CCCCAAAC
447030 TTAAACCCTA
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
158 93 0.77
159 25 0.21
160 3 0.02
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (158 bp):
CTAAGTCCTAAACCCTAAACCCTTAATATAATTATATAATAAAGTACTAAAAGAAAAATAAAAGC
TCATTTAATTAAGCACATGTAAGATTATACCCTAAACCTAAACACTAAACTCTAATCTATAAACC
CCAAACCCTAAACCATAATCACTAAGCC
Found at i:449111 original size:30 final size:30
Alignment explanation
Indices: 449075--449158 Score: 87
Period size: 33 Copynumber: 2.7 Consensus size: 30
449065 AGCTAACTGG
449075 TTGACATGTTGCAATCTTTTGTAAGTAAAC
1 TTGACATGTTGCAATCTTTTGTAAGTAAAC
* *
449105 TTGACATGTTGCTGCCATCTTTTGTAAGTAAGC
1 TTGACATG-T--TGCAATCTTTTGTAAGTAAAC
* * *
449138 TTAACAGGTTGAAATCATTTT
1 TTGACATGTTGCAATC-TTTT
449159 TTTGTATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
30 13 0.30
31 5 0.11
32 1 0.02
33 25 0.57
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (30 bp):
TTGACATGTTGCAATCTTTTGTAAGTAAAC
Found at i:449277 original size:37 final size:36
Alignment explanation
Indices: 449226--449298 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
449216 GAAAATAGTG
*
449226 TCATCTTGTATAAATTTGGATATGTTGTCATATTTT
1 TCATCTTGTATAAATTTAGATATGTTGTCATATTTT
* * *
449262 TCATCTTTTTATAAATTTAGATGTGTTGTCATGTTTT
1 TCATC-TTGTATAAATTTAGATATGTTGTCATATTTT
449299 GTAAACTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.55
Consensus pattern (36 bp):
TCATCTTGTATAAATTTAGATATGTTGTCATATTTT
Found at i:449529 original size:17 final size:17
Alignment explanation
Indices: 449507--449539 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
449497 CGAGTTTGAG
*
449507 TTCGAGCTTGAATCGAA
1 TTCGAGCTTAAATCGAA
449524 TTCGAGCTTAAATCGA
1 TTCGAGCTTAAATCGA
449540 GCTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (17 bp):
TTCGAGCTTAAATCGAA
Found at i:449553 original size:23 final size:24
Alignment explanation
Indices: 449522--449566 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
449512 GCTTGAATCG
449522 AATTCGAGCTTAAATCGAGCTCAA
1 AATTCGAGCTTAAATCGAGCTCAA
*
449546 AATT-GAGCTTCAATCGAGCTC
1 AATTCGAGCTTAAATCGAGCTC
449567 GAGTCTCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (24 bp):
AATTCGAGCTTAAATCGAGCTCAA
Found at i:449676 original size:31 final size:31
Alignment explanation
Indices: 449616--449676 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
449606 GTTCGAGCCT
* *
449616 TTTCGAGTTCGAGTCGAGTTTCAATATTTTC
1 TTTCGAGTTCGAGTCGAGCTTCAAAATTTTC
*
449647 TTTCGAGTTCGAGTCGAGCTTGAAAATTTT
1 TTTCGAGTTCGAGTCGAGCTTCAAAATTTT
449677 AGGCTCCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGCTTCAAAATTTTC
Found at i:453308 original size:55 final size:55
Alignment explanation
Indices: 453109--453817 Score: 850
Period size: 55 Copynumber: 13.1 Consensus size: 55
453099 TACCAAGTAT
* * *
453109 GCACTAAGTGTGC-ATTCCATGGAATTCATCATGAGTTGATGCATAACCGTACAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
453163 ACACTAAGTGTGC-ATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACA-
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * *
453216 --A--AAGTGTGC-ATTTCACGGAATTCATCATGGGTTGATGAATAACCATATAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
** * *
453266 GCACTATTTGTGCAAATCCACAGAATTCATCATGAGTAGATGAATAACCGTACAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * ** *
453321 GCACTAAGTGTGTAAATTCAATGAATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
453376 GCACTAAGTGTGC-ATTTCACGGAATTCATCATGGGTTGATGAATAACCGTACAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
453430 GCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACGG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
453485 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTAATGAATAACCGTACAT
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * *
453540 GCACTAAGTGTAC-ATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACGG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* ** *
453594 GCACTAAGTGTGCAAATCCACGGAATTTATCATGAGTTGATGAATAACAATACAT
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * *
453649 GCACTAAGTGTAC-ATTTCACAGAATTCATCATGAGTTGATGGATAACCGTACAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * *
453703 GCACTAAGTGTGC-ATTTCACGGAATTCATCATGGGTTGATGAATAATCGTACAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * * *
453757 GAACTATGTGTGCAAATCCACGGAATTCATCCTAACTTGATGAACT-ACCGTATAG
1 GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTACAG
453812 GCACTA
1 GCACTA
453818 CGTATGCATC
Statistics
Matches: 563, Mismatches: 82, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
49 45 0.08
51 1 0.00
52 1 0.00
54 243 0.43
55 272 0.48
56 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (55 bp):
GCACTAAGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
Found at i:453418 original size:164 final size:164
Alignment explanation
Indices: 453109--453817 Score: 972
Period size: 164 Copynumber: 4.4 Consensus size: 164
453099 TACCAAGTAT
* * * * *
453109 GCACTAAGTGTGC-ATTCCATGGAATTCATCATGAGTTGATGCATAACCGTACAGACACTAAGTG
1 GCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
* * *
453173 TG-CATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACA---A--AAGTGTGCATTTCAC
66 TGTAAATTCAAGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCAC
* *
453232 GGAATTCATCATGGGTTGATGAATAACCATATAG
131 GGAATTCATCATGGGTTGATGAATAACCGTACAG
* * *
453266 GCACTATTTGTGCAAATCCACAGAATTCATCATGAGTAGATGAATAACCGTACAGGCACTAAGTG
1 GCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
*
453331 TGTAAATTCAATGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCAC
66 TGTAAATTCAAGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCAC
453396 GGAATTCATCATGGGTTGATGAATAACCGTACAG
131 GGAATTCATCATGGGTTGATGAATAACCGTACAG
* *
453430 GCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACGGGCACTAAGTG
1 GCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
* * * * *
453495 TGCAAATCCACGGAATTCATCATGAGTTAATGAATAACCGTACATGCACTAAGTGTACATTTCAC
66 TGTAAATTCAAGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCAC
* * *
453560 AGAATTCATCATGAGTTGATGAATAACCGTACGG
131 GGAATTCATCATGGGTTGATGAATAACCGTACAG
* * ** *
453594 GCACTAAGTGTGCAAATCCACGGAATTTATCATGAGTTGATGAATAACAATACATGCACTAA--G
1 GCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
* * *
453657 TGTACATTTCACA-GAATTCATCATGAGTTGATGGATAACCGTACAGGCACTAAGTGTGCATTTC
66 TGTA-AATTCA-AGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTC
*
453721 ACGGAATTCATCATGGGTTGATGAATAATCGTACAG
129 ACGGAATTCATCATGGGTTGATGAATAACCGTACAG
* * * * *
453757 GAACTATGTGTGCAAATCCACGGAATTCATCCTAACTTGATGAACT-ACCGTATAGGCACTA
1 GCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTACAGGCACTA
453818 CGTATGCATC
Statistics
Matches: 485, Mismatches: 57, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
157 11 0.02
158 47 0.10
159 37 0.08
162 5 0.01
163 132 0.27
164 253 0.52
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (164 bp):
GCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
TGTAAATTCAAGGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCAC
GGAATTCATCATGGGTTGATGAATAACCGTACAG
Found at i:453826 original size:109 final size:108
Alignment explanation
Indices: 453109--453826 Score: 863
Period size: 109 Copynumber: 6.6 Consensus size: 108
453099 TACCAAGTAT
* * * *
453109 GCACTAAGTGTGCATTCCATGGAATTCATCATGAGTTGATGCATAACCGTACAGACACTAAGTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGT
*
453174 GCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACA-
66 GCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * **
453216 --A--AAGTGTGCATTTCACGGAATTCATCATGGGTTGATGAATAACCATATAGGCACTATTTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGT
* * *
453277 GCAAATCCACAGAATTCATCATGAGTAGATGAATAACCGTACAG
66 GC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * ** *
453321 GCACTAAGTGTGTAAATTCAATGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTG
1 GCACTAAGTGTG-CATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
* *
453386 TGCATTTCACGGAATTCATCATGGGTTGATGAATAACCGTACAG
65 TGCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * *
453430 GCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACGGGCACTAAGTG
1 GCACTAAGTGTGC-ATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTG
* * *
453495 TGCAAATCCACGGAATTCATCATGAGTTAATGAATAACCGTACAT
65 TGC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
453540 GCACTAAGTGTACATTTCACAGAATTCATCATGAGTTGATGAATAACCGTACGGGCACTAAGTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGT
* * ** *
453605 GCAAATCCACGGAATTTATCATGAGTTGATGAATAACAATACAT
66 GC-ATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
453649 GCACTAAGTGTACATTTCACAGAATTCATCATGAGTTGATGGATAACCGTACAGGCACTAAGTGT
1 GCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGT
* * *
453714 GCATTTCACGGAATTCATCATGGGTTGATGAATAATCGTACAG
66 GCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * * * * * *
453757 GAACTATGTGTGCAAATCCACGGAATTCATCCTAACTTGATGAACT-ACCGTATAGGCACTACGT
1 GCACTAAGTGTGC-ATTTCACGGAATTCATCATGAGTTGATGAA-TAACCGTACAGGCACTAAGT
*
453821 ATGCAT
64 GTGCAT
453827 CTTAATAAAT
Statistics
Matches: 527, Mismatches: 73, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
103 53 0.10
104 36 0.07
105 1 0.00
107 1 0.00
108 43 0.08
109 300 0.57
110 93 0.18
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (108 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGTGT
GCATTCCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
Found at i:454063 original size:81 final size:81
Alignment explanation
Indices: 453964--454213 Score: 367
Period size: 81 Copynumber: 3.1 Consensus size: 81
453954 TAGTCCAAAA
*
453964 TAAAAGAATAATGGCCTAACTGTGCAATTGGAAAAAATGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAACG
454029 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* *
454045 TAAAAGAATAATGGCCTAACTGTGCAATT-GACAGAAAGGTGGCAATTATGCCAGTTAGATGAAC
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGA-AGAAATGTGTCAATTATGCCAGTTAGATGAAC
* **
454109 GATTAAAGATAGTTGAG
65 GGTTAAAGACCGTTGAG
* ** * * *
454126 TAAAATAATAATGGTTTAACTATGCAATTGGCAGAAATGTGTCAATTATCCCAGTTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
454191 GTTAAAGACCGCTGAG
66 GTTAAAGACCGTTGAG
454207 TAAAAGA
1 TAAAAGA
454214 TGAAAAGTCA
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.01
81 145 0.98
82 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (81 bp):
TAAAAGAATAATGGCCTAACTGTGCAATTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAACG
GTTAAAGACCGTTGAG
Found at i:454969 original size:27 final size:27
Alignment explanation
Indices: 454931--454984 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
454921 GACTCTCATC
454931 AGTAACGGTAGGACAATCATGTTTATT
1 AGTAACGGTAGGACAATCATGTTTATT
454958 AGTAACGGTAGGACAATCATGTTTATT
1 AGTAACGGTAGGACAATCATGTTTATT
454985 TTTAAGCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (27 bp):
AGTAACGGTAGGACAATCATGTTTATT
Found at i:459101 original size:109 final size:110
Alignment explanation
Indices: 458876--459485 Score: 695
Period size: 109 Copynumber: 5.6 Consensus size: 110
458866 ATTACCAAAT
* *
458876 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAG-T--TGAATAACCGTACAGGCACTAAG
1 AGGCACTAAGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
** * *
458937 TGT-TCATTTCACAGAATTCATCATGAGTTGATGAATAACCGAAC
66 TGTGAAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * ** * *
458981 ATGCACTAAGTGTGC-ATTTCATGGAATTCATCATGGGTTGATGAATAACCGTACAGGCACTATG
1 AGGCACTAAGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
* * * **
459045 TGTGAAAATCCACGGAATTCATCATGAGTTGATAAATAATTGTAC
66 TGTGAAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
459090 AGGCACTAAGTGTGCAAATCCAC-GAAATTCATCGTGAGTTGATGAATAACCGTACATGCACGAA
1 AGGCACTAAGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAACCGTACAGGCACTAA
* * * *
459154 GTGT-ATATTTCACAGAATTTATCAT-AGGTTGATGAATAACCATAC
65 GTGTGAAATTTCACGGAATTCATCATGA-GTTGATGAATAACCGTAC
* * * *
459199 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCATACATGTACTAAG
1 AGGCACTAAGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
* *
459264 TGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
66 TGTGAAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * * *
459309 AGACGCTAAGTGTGC-ATTTCACAGAATTTATCATGAGTTGATGAATAACCGTATATGCACTAAG
1 AGGCACTAAGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
* * *
459373 TGTG-CATTTCACGGAATTCATCATGGGTTGATGAATAACCGTGC
66 TGTGAAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
459417 ATGCACTATGTGTGCAAATCCACAGAATTCATCCTGAGTTGATGAACTAA-CGTATAGGCACTAC
1 AGGCACTAAGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCGTACAGGCACTAA
459481 GTGTG
65 GTGTG
459486 CATCTGAATA
Statistics
Matches: 426, Mismatches: 67, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
105 33 0.08
106 1 0.00
108 72 0.17
109 228 0.54
110 91 0.21
111 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (110 bp):
AGGCACTAAGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
TGTGAAATTTCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:459149 original size:164 final size:163
Alignment explanation
Indices: 458876--459488 Score: 763
Period size: 164 Copynumber: 3.8 Consensus size: 163
458866 ATTACCAAAT
* *
458876 AGGCACTAAGTGTGCATTCCACGGAATTCATCATGAG-T--TGAATAACCGTACAGGCACTAAGT
1 AGGCACTAAGTGTGAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGT
* * * *
458938 GTTC-ATTTCACAGAATTCATCATGAGTTGATGAATAACCGAACATGCACTAAGTGTGCATTTCA
66 GTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCA
** *
459002 TGGAATTCATCATGGGTTGATGAATAACCGTAC
131 CAGAATTTATCATGGGTTGATGAATAACCGTAC
* * **
459035 AGGCACTATGTGTGAAAATCCACGGAATTCATCATGAGTTGATAAATAATTGTACAGGCACTAAG
1 AGGCACTAAGTGTG-AAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
* * **
459100 TGTGCAAATCCAC-GAAATTCATCGTGAGTTGATGAATAACCGTACATGCACGAAGTGTATATTT
65 TGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTT
* *
459164 CACAGAATTTATCATAGGTTGATGAATAACCATAC
129 CACAGAATTTATCATGGGTTGATGAATAACCGTAC
* * * * *
459199 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCATACATGTACTAAG
1 AGGCACTAAGTGTG-AAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAG
* * *
459264 TGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACA-GACGCTAAGTGTGCATTT
65 TGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATG-CACTAAGTGTGCATTT
* *
459328 CACAGAATTTATCATGAGTTGATGAATAACCGTAT
129 CACAGAATTTATCATGGGTTGATGAATAACCGTAC
* * * * * * * *
459363 ATGCACTAAGTGTGCATTTCACGGAATTCATCATGGGTTGATGAATAACCGTGCATGCACTATGT
1 AGGCACTAAGTGTGAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGT
* * * *
459428 GTGCAAATCCACAGAATTCATCCTGAGTTGATGAACTAA-CGTATAGGCACTACGTGTGCAT
66 GTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCGTACATGCACTAAGTGTGCAT
459489 CTGAATAAAT
Statistics
Matches: 390, Mismatches: 54, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
159 13 0.03
160 21 0.05
161 1 0.00
163 117 0.30
164 237 0.61
165 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (163 bp):
AGGCACTAAGTGTGAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTACAGGCACTAAGT
GTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCATTTCA
CAGAATTTATCATGGGTTGATGAATAACCGTAC
Found at i:459486 original size:55 final size:55
Alignment explanation
Indices: 458876--459487 Score: 674
Period size: 55 Copynumber: 11.3 Consensus size: 55
458866 ATTACCAAAT
*
458876 AGGCACTAAGTGTGC-ATTCCACGGAATTCATCATGAG-T--TGAATAACCGTAC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * *
458927 AGGCACTAAGTGTTC-ATTTCACAGAATTCATCATGAGTTGATGAATAACCGAAC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * ** *
458981 ATGCACTAAGTGTGC-ATTTCATGGAATTCATCATGGGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * * **
459035 AGGCACTATGTGTGAAAATCCACGGAATTCATCATGAGTTGATAAATAATTGTAC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* *
459090 AGGCACTAAGTGTGCAAATCCAC-GAAATTCATCGTGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCAATTCCACAG-AATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
459145 ATGCACGAAGTGT--ATATTTCACAGAATTTATCAT-AGGTTGATGAATAACCATAC
1 AGGCACTAAGTGTGCA-ATTCCACAGAATTCATCATGA-GTTGATGAATAACCGTAC
* * *
459199 AGGCACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCATAC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
459254 ATGTACTAAGTGTGAAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
459309 AGACGCTAAGTGTGC-ATTTCACAGAATTTATCATGAGTTGATGAATAACCGTAT
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
459363 ATGCACTAAGTGTGC-ATTTCACGGAATTCATCATGGGTTGATGAATAACCGTGC
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
* * * * *
459417 ATGCACTATGTGTGCAAATCCACAGAATTCATCCTGAGTTGATGAACTAA-CGTAT
1 AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAA-TAACCGTAC
*
459472 AGGCACTACGTGTGCA
1 AGGCACTAAGTGTGCA
459488 TCTGAATAAA
Statistics
Matches: 475, Mismatches: 73, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
51 34 0.07
52 1 0.00
53 2 0.00
54 207 0.44
55 226 0.48
56 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (55 bp):
AGGCACTAAGTGTGCAATTCCACAGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:459725 original size:81 final size:81
Alignment explanation
Indices: 459626--459875 Score: 401
Period size: 81 Copynumber: 3.1 Consensus size: 81
459616 TATTCCAAAA
*
459626 TAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
* *
459691 GTTAAAGATCGTTCAG
66 GTTAAAGACCGTTGAG
* * *
459707 TAAAAGAATAATGGCCTAACTGTGCAATTGACATAAATGTGTCAATTATGTCAATTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
*
459772 ATTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
* * * *
459788 TAAAAGAATATTGGCCTAAATGTGCAATTGACAGAAAGGTGTCAATTATGCAAGTTAGATGAACG
1 TAAAAGAATAATGGCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
459853 GTTAAAGACCGTTGAG
66 GTTAAAGACCGTTGAG
459869 TAAAAGA
1 TAAAAGA
459876 TAAAAAGCCA
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 154 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (81 bp):
TAAAAGAATAATGGCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACG
GTTAAAGACCGTTGAG
Found at i:460052 original size:2 final size:2
Alignment explanation
Indices: 460045--460158 Score: 194
Period size: 2 Copynumber: 57.5 Consensus size: 2
460035 AGAAGGGGTG
460045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
460087 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
460129 AT AT AT -T AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
460159 ATGTACAATA
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
1 1 0.01
2 104 0.99
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:463916 original size:6 final size:6
Alignment explanation
Indices: 463907--463932 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
463897 GAAGTCTTGG
463907 AAGGGA AAGGGA AAGGGA AAGGGA AA
1 AAGGGA AAGGGA AAGGGA AAGGGA AA
463933 ATTTCTAGTC
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:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:465874 original size:19 final size:19
Alignment explanation
Indices: 465850--465898 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
465840 GTCTGCAATA
465850 GATTTGAATAATTTGATTC
1 GATTTGAATAATTTGATTC
465869 GATTTGAATAATTTGATTC
1 GATTTGAATAATTTGATTC
* *
465888 GCTTTGTATAA
1 GATTTGAATAA
465899 CTTGCCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (19 bp):
GATTTGAATAATTTGATTC
Found at i:491646 original size:20 final size:20
Alignment explanation
Indices: 491621--491660 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
491611 AATTCAACGC
491621 CGATCAACA-ATCAACGACGA
1 CGATCAA-AGATCAACGACGA
*
491641 CGATCAAAGGTCAACGACGA
1 CGATCAAAGATCAACGACGA
491661 TAGTCAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.42, C:0.28, G:0.20, T:0.10
Consensus pattern (20 bp):
CGATCAAAGATCAACGACGA
Found at i:491752 original size:25 final size:25
Alignment explanation
Indices: 491714--491779 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
491704 GGTTCAATCA
491714 GTTCGG-TTGGGTCAGTATGATTCG
1 GTTCGGCTTGGGTCAGTATGATTCG
*
491738 GTTCGGCTTGGGTCAGTCTGATTCG
1 GTTCGGCTTGGGTCAGTATGATTCG
*
491763 GTTCGACTTGGGTCAGT
1 GTTCGGCTTGGGTCAGT
491780 TTGACTGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.11, C:0.17, G:0.36, T:0.36
Consensus pattern (25 bp):
GTTCGGCTTGGGTCAGTATGATTCG
Found at i:494063 original size:16 final size:17
Alignment explanation
Indices: 494036--494071 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
494026 GATATGATAA
494036 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
494053 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
494069 AAA
1 AAA
494072 ATAACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:508513 original size:43 final size:43
Alignment explanation
Indices: 508463--508750 Score: 257
Period size: 43 Copynumber: 6.7 Consensus size: 43
508453 AATAGGCCAT
508463 GATCTATAGCGGCGTTTTTGGA-ACAAACGCTGCAAAAGGTCGA
1 GATCTATAGCGGCGTTTTTGGATACAAACGCTGCAAAAGGTC-A
* * * * **
508506 TATCTATAGTGGCGTTTTTGGA-ACAAACGCCGTAAAAATTCA
1 GATCTATAGCGGCGTTTTTGGATACAAACGCTGCAAAAGGTCA
*
508548 GATCTATAGCGGCGTTTTTGGATACAAACG-TCACAAAAGGTCA
1 GATCTATAGCGGCGTTTTTGGATACAAACGCT-GCAAAAGGTCA
* * *
508591 GATCTATAGCGGTGTTTTTGTA-ATAAACGC--CACAAAGGATCA
1 GATCTATAGCGGCGTTTTTGGATACAAACGCTGCA-AAAGG-TCA
** * * * *
508633 GATCTATAGCAACATTTTTTTGATACAAATGCCGCAAAAGGTCA
1 GATCTATAGCGGC-GTTTTTGGATACAAACGCTGCAAAAGGTCA
* * * * * *
508677 TATCTATAACGGCATTTTTTGATACAAACG-TCGTAAAGGGTCA
1 GATCTATAGCGGCGTTTTTGGATACAAACGCT-GCAAAAGGTCA
* *
508720 GATCTACAACGGCGTTTTTGGATACAAACGC
1 GATCTATAGCGGCGTTTTTGGATACAAACGC
508751 CGCTAATTAC
Statistics
Matches: 197, Mismatches: 37, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.01
41 5 0.03
42 40 0.20
43 125 0.63
44 18 0.09
45 5 0.03
46 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
GATCTATAGCGGCGTTTTTGGATACAAACGCTGCAAAAGGTCA
Found at i:508608 original size:85 final size:83
Alignment explanation
Indices: 508463--508750 Score: 299
Period size: 86 Copynumber: 3.4 Consensus size: 83
508453 AATAGGCCAT
*
508463 GATCTATAGCGGCGTTTTTGGA-ACAAACGCTGCAAAAGGTCGATATCTATAGTGGCGTTTTTGG
1 GATCTATAGCGGCGTTTTTGGATACAAACGC-GCAAAAGGTC-ATATCTATAGCGGCGTTTTTGG
*
508527 AACAAACGCCGTAAAAATTCA
64 AACAAACGCCGTAAAGA-TCA
* * * *
508548 GATCTATAGCGGCGTTTTTGGATACAAACGTCACAAAAGGTCAGATCTATAGCGGTGTTTTTGTA
1 GATCTATAGCGGCGTTTTTGGATACAAACG-CGCAAAAGGTCATATCTATAGCGGCGTTTTTGGA
* **
508613 ATAAACGCCACAAAGGATCA
65 ACAAACGCCGTAAA-GATCA
** * * * * * *
508633 GATCTATAGCAACATTTTTTTGATACAAATGCCGCAAAAGGTCATATCTATAACGGCATTTTTTG
1 GATCTATAGCGGC-GTTTTTGGATACAAACG-CGCAAAAGGTCATATCTATAGCGGCGTTTTTGG
* *
508698 ATACAAACGTCGTAAAGGGTCA
64 A-ACAAACGCCGTAAA-GATCA
* *
508720 GATCTACAACGGCGTTTTTGGATACAAACGC
1 GATCTATAGCGGCGTTTTTGGATACAAACGC
508751 CGCTAATTAC
Statistics
Matches: 164, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
85 67 0.41
86 72 0.44
87 25 0.15
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (83 bp):
GATCTATAGCGGCGTTTTTGGATACAAACGCGCAAAAGGTCATATCTATAGCGGCGTTTTTGGAA
CAAACGCCGTAAAGATCA
Found at i:511608 original size:83 final size:80
Alignment explanation
Indices: 511497--511776 Score: 258
Period size: 83 Copynumber: 3.4 Consensus size: 80
511487 CTGTTGCGGC
* * * * * * *
511497 GTTTGTATAAAAACACCGCTAAAATACTACTATTTTGCGGCATTTGTTGAAAAAATGCCACTATA
1 GTTTTTATAAAAACGCC-ATAAAGTACTACT-TTTTGCGGCGTTTGTTGAAGAAACGCCACTATA
*
511562 GATGAACCCTATTACGGC
64 GATGAA-CCTATTACGGT
* * * * *
511580 ATTTTTATACAAACGCCATTAAAGTACTACTTTTTCACGGCGTTTGCTG-AGAAACGCCACTATG
1 GTTTTTATAAAAACGCCA-TAAAGTACTACTTTTT-GCGGCGTTTGTTGAAGAAACGCCACTATA
*
511644 GATGAACCTATTGCGGT
64 GATGAACCTATTACGGT
* **
511661 GTTTGTATAAAAACGTCGC-TAAAGTACTACTTTGTTGCAACGTTTGTTGAAGAAACGCCACTAT
1 GTTTTTATAAAAACG-C-CATAAAGTACTACTTT-TTGCGGCGTTTGTTGAAGAAACGCCACTAT
* * *
511725 AGATTATGCCAATTACGGT
63 AGATGA-ACCTATTACGGT
* *
511744 GTTTTTATATAAAGGCCGATAAAGTACTACTTT
1 GTTTTTATAAAAACGCC-ATAAAGTACTACTTT
511777 GTCGTAGCAT
Statistics
Matches: 159, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
81 45 0.28
82 44 0.28
83 70 0.44
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (80 bp):
GTTTTTATAAAAACGCCATAAAGTACTACTTTTTGCGGCGTTTGTTGAAGAAACGCCACTATAGA
TGAACCTATTACGGT
Found at i:512351 original size:26 final size:23
Alignment explanation
Indices: 512290--512352 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
512280 TTAAAATGTA
* *
512290 TAATAAAATAAATAATTATAATT
1 TAATAAAATAAAAAATAATAATT
*
512313 TAA-AAAAGAAAAAAATAATAAATAT
1 TAATAAAA-TAAAAAATAAT-AAT-T
512338 TAATAAATATAAAAA
1 TAATAAA-ATAAAAA
512353 GGAGATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 3 0.10
25 4 0.13
26 8 0.26
27 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
TAATAAAATAAAAAATAATAATT
Found at i:515198 original size:11 final size:11
Alignment explanation
Indices: 515172--515202 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
515162 AAAGTTCGCT
515172 GAAAATAAAAC
1 GAAAATAAAAC
515183 G-AAATAAAAC
1 GAAAATAAAAC
515193 GAAAATAAAA
1 GAAAATAAAA
515203 ACAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (11 bp):
GAAAATAAAAC
Found at i:518305 original size:40 final size:40
Alignment explanation
Indices: 518248--518489 Score: 326
Period size: 40 Copynumber: 6.0 Consensus size: 40
518238 TGCAGGATTA
*
518248 TAATACACTTC-AGTGTATATGGTGGTCACGACCTTATGTG
1 TAATACACTTCGA-TGTATATGGTGGGCACGACCTTATGTG
* *
518288 TAATACACTTTGATGTATACGGTGGGCACGACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
* **
518328 TAATACACTTCGGTGTATACAGTGGGCACGACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
* * * *
518368 TAATACACTTCGGTGTATATAGTGGGAACGACCTTATGTT
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
* *
518408 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
* *
518448 TAATATACTTC-AGTGTATATGGTGGGCACGACCTTATATG
1 TAATACACTTCGA-TGTATATGGTGGGCACGACCTTATGTG
518488 TA
1 TA
518490 GCACTACGGT
Statistics
Matches: 183, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 182 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGATGTATATGGTGGGCACGACCTTATGTG
Found at i:518688 original size:47 final size:45
Alignment explanation
Indices: 518594--518719 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
518584 GTAACCATGC
** *
518594 AAATAAGCTTATAAGCTTATGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
518638 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
*
518685 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
518720 AGATTTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.30
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:525249 original size:3 final size:3
Alignment explanation
Indices: 525236--525316 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
525226 GTAATATTTA
* * *
525236 AAT AAT AAAT AAT ATT ACT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
525282 AAT AAT AAT -AT AAT AAT AAT AAT TTT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
525317 TTAAAATGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.93
4 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:525570 original size:76 final size:76
Alignment explanation
Indices: 525471--526450 Score: 1617
Period size: 76 Copynumber: 13.0 Consensus size: 76
525461 GGTCTTATGA
* * *
525471 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCATTG
1 ATGACCC-GAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
*
525535 AAGGACTTACAG
65 AAGGGCTTACAG
* * * *
525547 ATGACCCGAAGGTTTTGAAAACATTAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
525612 AGGGCTTACAG
66 AGGGCTTACAG
* * *
525623 ATGACCAGAAGGCTTTGAAAACATCAAAAAGCTCCCGACGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
525688 AGGGCTTACAG
66 AGGGCTTACAG
*
525699 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
525764 AGGGCTTACAG
66 AGGGCTTACAG
*
525775 ATGACCCGAAGGCTTTGAAAATATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
525840 AGGGCTTACAG
66 AGGGCTTACAG
*
525851 ATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
525915 AGGGCTTACAG
66 AGGGCTTACAG
*
525926 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
525991 AGGGCTTACAG
66 AGGGCTTACAG
*
526002 ATGACCCGAAGGCTTTGAAAATATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
526067 AGGGCTTACAG
66 AGGGCTTACAG
*
526078 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
526143 AGGGCTTACAG
66 AGGGCTTACAG
*
526154 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
526219 AGGGCTTACAG
66 AGGGCTTACAG
*
526230 ATGACCCGAAGGCTTTGAAAATATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
526295 AGGACTTACAG
66 AGGGCTTACAG
* * *
526306 AT-----G-TGG----G-AAATATCAAAAAGCTCCTGAAGGTTTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGG-CTTTTTGGAAACATCATGCACTG
526360 AAGGGCTTACAG
65 AAGGGCTTACAG
**
526372 ATGACCCGAAGGCTTTGAAAACCTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
526437 AGGACTTACAG
66 AGGGCTTACAG
526448 ATG
1 ATG
526451 TGAGAAATAG
Statistics
Matches: 850, Mismatches: 40, Indels: 28
0.93 0.04 0.03
Matches are distributed among these distances:
65 21 0.02
66 36 0.04
70 2 0.00
71 2 0.00
72 2 0.00
75 74 0.09
76 693 0.82
77 20 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.23
Consensus pattern (76 bp):
ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGGCTTACAG
Found at i:526360 original size:66 final size:65
Alignment explanation
Indices: 526248--526459 Score: 246
Period size: 66 Copynumber: 3.1 Consensus size: 65
526238 AAGGCTTTGA
*
526248 AAATATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
1 AAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
* * *
526313 AAATATCAAAAAGCTCCTGAAGGTTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACC
1 AAATATCAAAAAGCTCCCGAAGG-CTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT----
*
526378 CGAAGGCTTTG
61 -G-TGG----G
526389 AAA-ACCTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTG
1 AAATA--TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTG
*
526453 AG
64 GG
526455 AAATA
1 AAATA
526460 GTTTACTAAG
Statistics
Matches: 123, Mismatches: 10, Indels: 26
0.77 0.06 0.16
Matches are distributed among these distances:
65 21 0.17
66 39 0.32
67 1 0.01
70 1 0.01
71 2 0.02
72 2 0.02
75 1 0.01
76 39 0.32
77 17 0.14
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (65 bp):
AAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
Found at i:526427 original size:142 final size:141
Alignment explanation
Indices: 526172--526459 Score: 522
Period size: 142 Copynumber: 2.0 Consensus size: 141
526162 AAGGCTTTGA
526172 AAATATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCC
1 AAATATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCC
* *
526237 GAAGGCTTTGAAAATATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
66 GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
*
526302 ACAGATGTGGG
131 ACAGATGTGAG
*
526313 AAATATCAAAAAGCTCCTGAAGGTTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACC
1 AAATATCAAAAAGCTCCTGAAGG-CTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACC
*
526378 CGAAGGCTTTGAAAACCTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
65 CGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACT
526443 TACAGATGTGAG
130 TACAGATGTGAG
526455 AAATA
1 AAATA
526460 GTTTACTAAG
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
141 23 0.16
142 118 0.84
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (141 bp):
AAATATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCC
GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
ACAGATGTGAG
Found at i:529966 original size:92 final size:92
Alignment explanation
Indices: 529763--530092 Score: 556
Period size: 92 Copynumber: 3.6 Consensus size: 92
529753 TGATTTTAGA
* * *
529763 GTTCATACCAAATCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-GT
1 GTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
* *
529827 CTTCCAAATTCAATGATTGGTTCTGTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
*
529854 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
529919 CTTCCAAATTCAATAACTGGTTCTGTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
*
529946 GTTCATACCAAA-CTAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCC
1 GTTCATACCAAATC-AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCC
530010 TCTTCCAAATTCAATAACTGGTTCTGTG
65 TCTTCCAAATTCAATAACTGGTTCTGTG
* *
530038 GTTCATACCAAATCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGA
1 GTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
530093 TCCTCCTTAT
Statistics
Matches: 226, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
91 60 0.27
92 165 0.73
93 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (92 bp):
GTTCATACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
CTTCCAAATTCAATAACTGGTTCTGTG
Found at i:539269 original size:3 final size:3
Alignment explanation
Indices: 539256--539334 Score: 104
Period size: 3 Copynumber: 26.0 Consensus size: 3
539246 GTAATATTTA
* * *
539256 AAT AAT AAAT AAT ATT ACT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
539302 AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
539335 TTAAAATGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:539270 original size:18 final size:16
Alignment explanation
Indices: 539247--539334 Score: 81
Period size: 15 Copynumber: 5.2 Consensus size: 16
539237 TTGGGCTTTG
539247 TAATATTTAAATAATAAA
1 TAATATTT-AATAAT-AA
*
539265 TAATATTACTATTAATAA
1 TAATATT--TAATAATAA
*
539283 TAATA-ATAATAATAA
1 TAATATTTAATAATAA
*
539298 TAATA-ATAATAATAA
1 TAATATTTAATAATAA
539313 TAATAATTTTAATAATAA
1 TAAT-A-TTTAATAATAA
539331 TAAT
1 TAAT
539335 TTAAAATGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
15 27 0.44
16 1 0.02
18 27 0.44
19 5 0.08
20 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATTTAATAATAA
Found at i:544262 original size:2 final size:2
Alignment explanation
Indices: 544255--544279 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
544245 TCGATTTACA
544255 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
544280 ACAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:544467 original size:13 final size:13
Alignment explanation
Indices: 544451--544496 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
544441 CAATGAACGC
*
544451 CATAAATGCGCGT
1 CATAAATGCGTGT
*
544464 CATAAATGTGTGT
1 CATAAATGCGTGT
544477 CATAAATGCGTGT
1 CATAAATGCGTGT
544490 CATAAAT
1 CATAAAT
544497 TTATGACGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (13 bp):
CATAAATGCGTGT
Found at i:544471 original size:26 final size:26
Alignment explanation
Indices: 544442--544496 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
544432 AATGACGCTC
544442 AATGAACGCCATAAATGCGCGTCATA
1 AATGAACGCCATAAATGCGCGTCATA
*** * *
544468 AATGTGTGTCATAAATGCGTGTCATA
1 AATGAACGCCATAAATGCGCGTCATA
544494 AAT
1 AAT
544497 TTATGACGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATGAACGCCATAAATGCGCGTCATA
Found at i:545250 original size:36 final size:35
Alignment explanation
Indices: 545205--545281 Score: 136
Period size: 36 Copynumber: 2.2 Consensus size: 35
545195 TGATTTTCGG
*
545205 GATTTTGCTATTTTTGGCAAAATTCGAATAAATAC
1 GATTTTGCTATTTTTGGCAAAATTCGAATAAAGAC
545240 GATTTGTGCTATTTTTGGCAAAATTCGAATAAAGAC
1 GATTT-TGCTATTTTTGGCAAAATTCGAATAAAGAC
545276 GATTTT
1 GATTTT
545282 TTTTGCTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 6 0.15
36 34 0.85
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (35 bp):
GATTTTGCTATTTTTGGCAAAATTCGAATAAAGAC
Found at i:552642 original size:2 final size:2
Alignment explanation
Indices: 552635--552666 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
552625 TAATTAAATC
552635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
552667 TGTTTCCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:555404 original size:3 final size:3
Alignment explanation
Indices: 555396--555475 Score: 151
Period size: 3 Copynumber: 26.3 Consensus size: 3
555386 ATAGTTTGTC
555396 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA -GGA GGA GGA GGA GGA
555442 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
555476 ATAAGTGTCA
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 73 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:555691 original size:12 final size:13
Alignment explanation
Indices: 555676--555704 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
555666 CTATTATAAA
555676 ATTGATTT-ATCG
1 ATTGATTTGATCG
555688 ATTGATTTGATCG
1 ATTGATTTGATCG
555701 ATTG
1 ATTG
555705 TCAGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (13 bp):
ATTGATTTGATCG
Found at i:557903 original size:24 final size:24
Alignment explanation
Indices: 557874--557923 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
557864 TGGTGGTTGA
*
557874 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
557898 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
557922 TT
1 TT
557924 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:567555 original size:17 final size:16
Alignment explanation
Indices: 567524--567557 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
567514 CACGTGAGGA
567524 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
567540 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
567557 T
1 T
567558 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:576039 original size:35 final size:35
Alignment explanation
Indices: 575961--576040 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
575951 TTTTAAATTC
*
575961 AACAAACTTACAATAAGTATTAAATGGTAAATGAT
1 AACAAAATTACAATAAGTATTAAATGGTAAATGAT
*
575996 AACCAAATTACAATAACTGATATTAAATGG-AAAT-A-
1 AACAAAATTACAATAA--G-TATTAAATGGTAAATGAT
576031 AACAAAATTA
1 AACAAAATTA
576041 ACTAAAATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 23 0.59
36 1 0.03
37 5 0.13
38 10 0.26
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.26
Consensus pattern (35 bp):
AACAAAATTACAATAAGTATTAAATGGTAAATGAT
Found at i:577006 original size:24 final size:24
Alignment explanation
Indices: 576975--577025 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
576965 TTGCCGCGTC
*
576975 TATATGTTCTATGCAACTCGTCCA
1 TATATGTTCTATGCAACTCATCCA
576999 TATATGTTCTATGCAACTCATCCA
1 TATATGTTCTATGCAACTCATCCA
577023 TAT
1 TAT
577026 TGCGAGGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (24 bp):
TATATGTTCTATGCAACTCATCCA
Found at i:578404 original size:17 final size:18
Alignment explanation
Indices: 578363--578401 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
578353 ATTATATAAG
578363 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
578380 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
578398 TAAA
1 TAAA
578402 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:578413 original size:18 final size:18
Alignment explanation
Indices: 578372--578413 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
578362 GTAAAATATT
**
578372 AAATAAATTAAAATACTT
1 AAATAAATTAAAATACAA
578390 AAATAAATT-AAATACAA
1 AAATAAATTAAAATACAA
578407 AATATAA
1 AA-ATAA
578414 TAAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATTAAAATACAA
Found at i:578419 original size:17 final size:17
Alignment explanation
Indices: 578360--578420 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
578350 AAAATTATAT
*
578360 AAGTAAAATATTAAATA
1 AAGTAAAATACTAAATA
*
578377 AATTAAAATACTTAAATA
1 AAGTAAAATAC-TAAATA
* *
578395 AA-TTAAATACAAAATA
1 AAGTAAAATACTAAATA
578411 TAA-TAAAATA
1 -AAGTAAAATA
578421 TACCTTAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 5 0.14
17 24 0.65
18 8 0.22
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (17 bp):
AAGTAAAATACTAAATA
Found at i:578592 original size:27 final size:27
Alignment explanation
Indices: 578562--578613 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
578552 TATAGCGCGA
* *
578562 GGCAGGGGGCGCGCCTTTCTGACGCTG
1 GGCAGGGGGCGCACCATTCTGACGCTG
578589 GGCAGGGGGCGCACCATTCTGACGC
1 GGCAGGGGGCGCACCATTCTGACGC
578614 GTGGCAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.42, T:0.15
Consensus pattern (27 bp):
GGCAGGGGGCGCACCATTCTGACGCTG
Found at i:578619 original size:27 final size:27
Alignment explanation
Indices: 578557--578620 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
578547 AAACATATAG
* * *
578557 CGCGAGGCAGGGGGCGCGCCTTTCTGA
1 CGCGTGGCAGGGGGCGCACCATTCTGA
578584 CGC-TGGGCAGGGGGCGCACCATTCTGA
1 CGCGT-GGCAGGGGGCGCACCATTCTGA
578611 CGCGTGGCAG
1 CGCGTGGCAG
578621 ATACACAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.12, C:0.30, G:0.44, T:0.14
Consensus pattern (27 bp):
CGCGTGGCAGGGGGCGCACCATTCTGA
Found at i:579293 original size:33 final size:33
Alignment explanation
Indices: 579211--579298 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
579201 AACGAACACA
* * *
579211 ATAAAGGAATGTAAACTAACACAAACGAATGAAT
1 ATAAATGAACGTAAACAAACACAAAC-AATGAAT
* * *
579245 AT-AATCAAACATAAACGAACACAATA-AATGAAT
1 ATAAAT-GAACGTAAACAAACACAA-ACAATGAAT
579278 ATAAATGAACGTAAACAAACA
1 ATAAATGAACGTAAACAAACA
579299 TAGATGAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
33 23 0.53
34 19 0.44
35 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.10, T:0.17
Consensus pattern (33 bp):
ATAAATGAACGTAAACAAACACAAACAATGAAT
Found at i:579756 original size:14 final size:14
Alignment explanation
Indices: 579737--579779 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
579727 AGATTGAGCT
579737 AAACATAAATGAAC
1 AAACATAAATGAAC
*
579751 AAACATAAACGAAC
1 AAACATAAATGAAC
*
579765 AAACATAAATAAAC
1 AAACATAAATGAAC
579779 A
1 A
579780 TAAACGAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.67, C:0.16, G:0.05, T:0.12
Consensus pattern (14 bp):
AAACATAAATGAAC
Found at i:593904 original size:27 final size:28
Alignment explanation
Indices: 593874--593947 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 28
593864 TAAAATGCCC
593874 TTTTTATTTTACTATTATTATTTATTAT
1 TTTTTATTTTACTATTATTATTTATTAT
**
593902 TTTATTATTTT-CCCTT-TTATTTATTAT
1 TTT-TTATTTTACTATTATTATTTATTAT
* * *
593929 TATCTATTTTA-TTTTATTA
1 TTTTTATTTTACTATTATTA
593948 AATCTTTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
26 8 0.22
27 16 0.43
28 6 0.16
29 7 0.19
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTTTATTTTACTATTATTATTTATTAT
Found at i:593923 original size:20 final size:20
Alignment explanation
Indices: 593875--593947 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 20
593865 AAAATGCCCT
* *
593875 TTTTATTTTACTATTAT-TA
1 TTTTATTTTATTATTATCCA
* *
593894 TTTATTATTTTATTATTTTCCC
1 -TT-TTATTTTATTATTATCCA
*
593916 TTTTA-TTTATTATTATCTA
1 TTTTATTTTATTATTATCCA
593935 TTTTATTTTATTA
1 TTTTATTTTATTA
593948 AATCTTTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 16 0.37
20 12 0.28
21 15 0.35
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTATTATCCA
Found at i:599180 original size:24 final size:23
Alignment explanation
Indices: 599153--599200 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
599143 GAGGCAACCC
599153 ATTTCGTTCTAATTTT-TTTATTTT
1 ATTTCGTT-TAATTTTATTT-TTTT
*
599177 ATTTCGTTTTATTTTATTTTTTT
1 ATTTCGTTTAATTTTATTTTTTT
599200 A
1 A
599201 GAAATCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (23 bp):
ATTTCGTTTAATTTTATTTTTTT
Found at i:600932 original size:14 final size:14
Alignment explanation
Indices: 600901--600930 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
600891 TTAATTATGA
600901 TTTAGAATATTATT
1 TTTAGAATATTATT
600915 TTTA-AATATTATT
1 TTTAGAATATTATT
600928 TTT
1 TTT
600931 TAGGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTAGAATATTATT
Found at i:601682 original size:19 final size:20
Alignment explanation
Indices: 601631--601703 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 20
601621 TAAAAACCCT
* *
601631 TTTTATTTTACTACTAT-TA
1 TTTTATTTTATTATTATCTA
*
601650 TTTATTATTTTATTATTTTC-A
1 -TT-TTATTTTATTATTATCTA
601671 CTTTTA-TTTATTATTATCTA
1 -TTTTATTTTATTATTATCTA
601691 TTTTATTTTATTA
1 TTTTATTTTATTA
601704 AATATTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 16 0.36
20 13 0.30
21 15 0.34
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTTATTATTATCTA
Found at i:604588 original size:42 final size:42
Alignment explanation
Indices: 604520--604609 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
604510 GGTATCTACA
*
604520 GGTTCCGGATCCCAATTTTTAGGAACCGGTTG-AACAGGTTCT
1 GGTTCCGGATCCCAATTTTTAAGAACCGG-TGCAACAGGTTCT
* * * *
604562 GGTTTCGGTTCCCATTTTTTAAGAACCGGTGCAACCGGTTCT
1 GGTTCCGGATCCCAATTTTTAAGAACCGGTGCAACAGGTTCT
604604 GGTTCC
1 GGTTCC
604610 CAAAAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.05
42 39 0.95
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (42 bp):
GGTTCCGGATCCCAATTTTTAAGAACCGGTGCAACAGGTTCT
Found at i:612390 original size:25 final size:25
Alignment explanation
Indices: 612356--612405 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
612346 CAAGGAGTCT
*
612356 TCAAACCCCCAAAATTAAGATGACC
1 TCAAACCCCCAAAATTAAAATGACC
*
612381 TCAAAGCCCCAAAATTAAAATGACC
1 TCAAACCCCCAAAATTAAAATGACC
612406 ATAGCGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.30, G:0.08, T:0.16
Consensus pattern (25 bp):
TCAAACCCCCAAAATTAAAATGACC
Found at i:620820 original size:23 final size:23
Alignment explanation
Indices: 620780--620841 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
620770 TCTTCTCCAT
* *
620780 AATAAAACAAAGAAATGCAACAA
1 AATAAAGCAGAGAAATGCAACAA
* * *
620803 AATTAAGTAGAGAAATGCGACAA
1 AATAAAGCAGAGAAATGCAACAA
620826 AATAAAGCAGAGAAAT
1 AATAAAGCAGAGAAAT
620842 TACACTCACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.61, C:0.10, G:0.16, T:0.13
Consensus pattern (23 bp):
AATAAAGCAGAGAAATGCAACAA
Found at i:621919 original size:15 final size:15
Alignment explanation
Indices: 621899--621928 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
621889 CCCATGCATA
621899 CGAGCCATACGAGTG
1 CGAGCCATACGAGTG
*
621914 CGAGCCATGCGAGTG
1 CGAGCCATACGAGTG
621929 GCCATGCAGT
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:0.23, C:0.27, G:0.37, T:0.13
Consensus pattern (15 bp):
CGAGCCATACGAGTG
Found at i:621949 original size:53 final size:55
Alignment explanation
Indices: 621892--621998 Score: 200
Period size: 53 Copynumber: 2.0 Consensus size: 55
621882 CGAGGTCCCC
621892 ATGCATACGAGCCATACGAGTGCGAGCCATGCGA-GTGGCCATGCAGT-GAATAG
1 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
621945 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATA
1 ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATA
621999 AGAGGTCGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 34 0.65
54 13 0.25
55 5 0.10
ACGTcount: A:0.28, C:0.22, G:0.33, T:0.17
Consensus pattern (55 bp):
ATGCATACGAGCCATACGAGTGCGAGCCATGCGAGGTGGCCATGCAGTGGAATAG
Found at i:622055 original size:15 final size:15
Alignment explanation
Indices: 622035--622103 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
622025 CCCATGCATA
*
622035 CGAGCCATACGAGTG
1 CGAGCCATGCGAGTG
622050 CGAGCCATGCGAG-G
1 CGAGCCATGCGAGTG
* *
622064 TC--CCCATGC-A-TA
1 -CGAGCCATGCGAGTG
*
622076 CGAGCCATACGAGTG
1 CGAGCCATGCGAGTG
622091 CGAGCCATGCGAG
1 CGAGCCATGCGAG
622104 GTGGGCCATG
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 11 0.27
14 2 0.05
15 26 0.63
ACGTcount: A:0.25, C:0.30, G:0.32, T:0.13
Consensus pattern (15 bp):
CGAGCCATGCGAGTG
Found at i:622163 original size:29 final size:29
Alignment explanation
Indices: 622129--622238 Score: 211
Period size: 29 Copynumber: 3.8 Consensus size: 29
622119 GAATAGGGTG
622129 TAGGTCGCCATGTAGTCCCGGCGACCTTA
1 TAGGTCGCCATGTAGTCCCGGCGACCTTA
622158 TAGGTCGCCATGTAGTCCCGGCGACCTTA
1 TAGGTCGCCATGTAGTCCCGGCGACCTTA
*
622187 TAGGTCGCCATGTAGTCGCGGCGACCTTA
1 TAGGTCGCCATGTAGTCCCGGCGACCTTA
622216 TAGGTCGCCATGTAGTCCCGGCG
1 TAGGTCGCCATGTAGTCCCGGCG
622239 CCATTCCCAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGTAGTCCCGGCGACCTTA
Found at i:622307 original size:27 final size:23
Alignment explanation
Indices: 622244--622301 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
622234 CGGCGCCATT
622244 CCCATCATCCATT--CATGCAGC
1 CCCATCATCCATTCACATGCAGC
622265 CCCATCATCCATTCACATGCAGC
1 CCCATCATCCATTCACATGCAGC
622288 CCCATCATCCATTC
1 CCCATCATCCATTC
622302 CTTCACGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.37
23 22 0.63
ACGTcount: A:0.24, C:0.45, G:0.07, T:0.24
Consensus pattern (23 bp):
CCCATCATCCATTCACATGCAGC
Found at i:622439 original size:25 final size:25
Alignment explanation
Indices: 622411--622462 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
622401 TGTACAATTA
*
622411 TTGGTGAAATAATTAAGGCAGTCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
*
622436 TTGGTGAAATAATTGAGGCAGCCGG
1 TTGGTGAAATAATTAAGGCAGCCGG
622461 TT
1 TT
622463 TAAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.29
Consensus pattern (25 bp):
TTGGTGAAATAATTAAGGCAGCCGG
Done.