Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold678
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1173314
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 74412 characters in sequence are not A, C, G, or T
File 5 of 4
Found at i:884131 original size:17 final size:17
Alignment explanation
Indices: 884109--884161 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
884099 TACATCTTTC
*
884109 TGTACATACTGGTATAT
1 TGTACATACTGGTATAA
*
884126 TGTACAT-CT--T-T-C
1 TGTACATACTGGTATAA
884138 TGTACATACTGGTATAA
1 TGTACATACTGGTATAA
884155 TGTACAT
1 TGTACAT
884162 CTTACTGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 1 0.03
15 1 0.03
16 3 0.10
17 14 0.48
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (17 bp):
TGTACATACTGGTATAA
Found at i:885102 original size:30 final size:30
Alignment explanation
Indices: 885068--885386 Score: 460
Period size: 30 Copynumber: 10.5 Consensus size: 30
885058 GTATTTTACA
* *
885068 AGGTTTAGCTTCATCTGGTAATCTATTTGT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
* *
885098 AGGTTTAGCTACATCTGGTAATCTATTTAT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
* *
885128 AGGTTTAGCTACATTTTGTGATCTATTTGT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
* *
885158 AGGTTTAGCTACATTTTGTGATCTATTTGT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
* *
885188 AGTTTTAGCTACATCTAGTGATCTATTTGT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
*
885218 AGGTTTAAG-TACATCTAGTGATCTATTTGT
1 AGGTTT-AGCTACATCTGGTGATCTATTTGT
*
885248 AGGTTTAGCTACATCTAGTGATCTATTTGT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
*
885278 AGGTTTAGCTACATCTGGTGATATATATTTGT
1 AGGTTTAGCTACATCTGGTG--ATCTATTTGT
*
885310 AGGTTTAGCTACATCTGGTGATATATATTTGT
1 AGGTTTAGCTACATCTGGTG--ATCTATTTGT
885342 AGGTTTAGCTACATCTGGTGATCTATTTGT
1 AGGTTTAGCTACATCTGGTGATCTATTTGT
885372 AGGTTTAGCTACATC
1 AGGTTTAGCTACATC
885387 AGGTCCTGTG
Statistics
Matches: 272, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
29 2 0.01
30 207 0.76
31 2 0.01
32 61 0.22
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (30 bp):
AGGTTTAGCTACATCTGGTGATCTATTTGT
Found at i:886037 original size:46 final size:46
Alignment explanation
Indices: 885984--887173 Score: 1624
Period size: 46 Copynumber: 25.9 Consensus size: 46
885974 CAGGCCAAGC
* * *
885984 TAGCCAAGGTACGATCTCACTGAACAGTCTTAATATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * **
886030 TAGCCAAGGTACGATCTCACTAAATAGTCCTAGTATCTCATTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * **
886076 TAGGCAAGGTACGATCTCACTCAACAGTCCTAGTATCTCATTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886122 TAGCCAAGGTAGGATCTCACTTAACAGTCCTAGTATCTCGCTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * *
886168 TAGCCAAAGTATGATCTCACTGAACAGTCATAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* *
886214 AAGACAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * *
886260 TACCCAAGGTATGATCTCACTGAACAGTCCTAGTATTTCACACTAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * * *
886306 TAGCCTAGTTAGGATCTCACTGAACCGTCCTTGAATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886352 TAGCCAAGGTATGATCTCACTTAACAGTCCTAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886398 AAGCCAAGGTATGATCTCACTCAACAGTCCTAGTATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
*
886444 TAGCCAAGGTAGGATCTCACTTAACAGTCCTAGTATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* *
886490 TAGCCAAGGTAGGATCTCACTTAACAGTCCTAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886536 AAGCCAAGGTAGGATCTCACTCAACAGTCCTAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* *
886582 TAGCCAAGGTAGGATCTCACTGAATAGTCCTAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* *
886628 AAGCCAAGGTATGATCTCACTGAACAGTCCTAGTATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
*
886674 TAGCCAAGGTAGGATCTCACTGAATAGTCCTAGTATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886720 TAGCCAAGGTACGATCTCACTCAACAGTCCTAGTATATCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886766 TAGCCAAGGTACGATCTCACTCAACAGTCCTAATATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886812 TAGCCAAGGTAGGATCTCACTCAACAGTCCTAGTATTTCACACTAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886858 TAGCCAAGGTAGGATCTCACTGAACTGTCCTTGAATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * ** *
886904 TAGCCAATGTACGATCTCACTTTACAGTCCTAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * ** *
886950 AAGCCAAGGTACGATCTCAATGAACAGTTTTAGTATCTCACATAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
886996 TAGCCAAGGTATGATCTCACTTAACAGTCCTAGTATCTCACTCAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
887042 TAGCCAAGGTAGGATCTCACTCAACAGTCCTAGTATTTCACACTAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * *
887088 TAGCCAAGGTAGGATCTCACTGAACTGTCCTTGAATCTCACACAAA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
* * * *
887134 TAGCCAATGTACGATCTCACTGAACGGTACTAGTATCTCA
1 TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCA
887174 GAAGTTAGCC
Statistics
Matches: 1019, Mismatches: 125, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 1019 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (46 bp):
TAGCCAAGGTAGGATCTCACTGAACAGTCCTAGTATCTCACACAAA
Found at i:890017 original size:15 final size:15
Alignment explanation
Indices: 889997--890029 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
889987 ATCACATCAT
889997 CAAGTCCTGTATGTC
1 CAAGTCCTGTATGTC
890012 CAAGTCCTGTATGTC
1 CAAGTCCTGTATGTC
890027 CAA
1 CAA
890030 AATGACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (15 bp):
CAAGTCCTGTATGTC
Found at i:891259 original size:35 final size:35
Alignment explanation
Indices: 891220--891333 Score: 96
Period size: 35 Copynumber: 3.4 Consensus size: 35
891210 CACTGTAGGT
891220 GAGATATGCCTTTAAGTGAATATTACCTTGCAGGC
1 GAGATATGCCTTTAAGTGAATATTACCTTGCAGGC
* * * * *
891255 GAGATATGCCTTTGA-TTAAGGTATT-TC-T-C-TGT
1 GAGATATGCCTTTAAGTGAA--TATTACCTTGCAGGC
* *
891287 GA-ATATACCTTTAAGTGGATATTACCTTGCAGGC
1 GAGATATGCCTTTAAGTGAATATTACCTTGCAGGC
*
891321 GAGATGTGCCTTT
1 GAGATATGCCTTT
891334 GATTAAGGTA
Statistics
Matches: 57, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
30 4 0.07
31 11 0.19
32 6 0.11
33 2 0.04
34 7 0.12
35 23 0.40
36 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (35 bp):
GAGATATGCCTTTAAGTGAATATTACCTTGCAGGC
Found at i:891309 original size:66 final size:66
Alignment explanation
Indices: 891218--891356 Score: 242
Period size: 66 Copynumber: 2.1 Consensus size: 66
891208 TTCACTGTAG
*
891218 GTGAGATATGCCTTTAAGTGAATATTACCTTGCAGGCGAGATATGCCTTTGATTAAGGTATTTCT
1 GTGA-ATATACCTTTAAGTGAATATTACCTTGCAGGCGAGATATGCCTTTGATTAAGGTATTTCT
891283 CT
65 CT
* *
891285 GTGAATATACCTTTAAGTGGATATTACCTTGCAGGCGAGATGTGCCTTTGATTAAGGTATTTCTC
1 GTGAATATACCTTTAAGTGAATATTACCTTGCAGGCGAGATATGCCTTTGATTAAGGTATTTCTC
891350 T
66 T
891351 GTGAAT
1 GTGAAT
891357 GAAATATTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 65 0.94
67 4 0.06
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (66 bp):
GTGAATATACCTTTAAGTGAATATTACCTTGCAGGCGAGATATGCCTTTGATTAAGGTATTTCTC
T
Found at i:900030 original size:70 final size:69
Alignment explanation
Indices: 899917--900068 Score: 259
Period size: 70 Copynumber: 2.2 Consensus size: 69
899907 TTATAAACAA
*
899917 TGATTATGAATATCTATGACATGTTTCTGATCTGTAACTTCAATATGTATACTTAACCCTAACTC
1 TGATTATG-ATATCTATGACATGTTTCTGATCTGTAACTTCAATATGTACACTTAACCCTAACTC
*
899982 TGTTT
65 GGTTT
*
899987 TGATTATGTATATCTATGACATTTTTCTGATCTGTAACTTCAATATGTACACTTAACCCTAACTC
1 TGATTATG-ATATCTATGACATGTTTCTGATCTGTAACTTCAATATGTACACTTAACCCTAACTC
900052 GGTTT
65 GGTTT
900057 TGATTATGATAT
1 TGATTATGATAT
900069 TATAAGGGAC
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 4 0.05
70 74 0.95
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (69 bp):
TGATTATGATATCTATGACATGTTTCTGATCTGTAACTTCAATATGTACACTTAACCCTAACTCG
GTTT
Found at i:901103 original size:4 final size:4
Alignment explanation
Indices: 901096--901183 Score: 176
Period size: 4 Copynumber: 22.0 Consensus size: 4
901086 GCATGTATTC
901096 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
901144 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
901184 CATACGATTA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 84 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:901432 original size:67 final size:67
Alignment explanation
Indices: 901312--901469 Score: 226
Period size: 67 Copynumber: 2.4 Consensus size: 67
901302 TCTTCTGTAC
* * *
901312 CTGTTAGTCCATCTGTCTATCTTTAAGTCTTTGTCGATCTGTTGGCCATTTCTCTTTATACTGTC
1 CTGTCAGTCCATCTGTCTATCTTTAAGTCTTGGTCGATCTGTTGGCCAGTTCTCTTTATACTGTC
901377 GT
66 GT
* * * * *
901379 CTGTCAGTCTATCTGTCCATCTTTTAGTCTTGGTCTATCTGTTGGCCGGTTCTCTTTATACTGTC
1 CTGTCAGTCCATCTGTCTATCTTTAAGTCTTGGTCGATCTGTTGGCCAGTTCTCTTTATACTGTC
901444 GT
66 GT
* *
901446 CTGTGAGTCCGTCTGTCTATCTTT
1 CTGTCAGTCCATCTGTCTATCTTT
901470 GACTTTGTCT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 79 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.47
Consensus pattern (67 bp):
CTGTCAGTCCATCTGTCTATCTTTAAGTCTTGGTCGATCTGTTGGCCAGTTCTCTTTATACTGTC
GT
Found at i:905303 original size:12 final size:12
Alignment explanation
Indices: 905286--905327 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
905276 ATGCTGTACA
905286 AAAAAAATAAAT
1 AAAAAAATAAAT
905298 AAAAAAATAAA-
1 AAAAAAATAAAT
*
905309 AATAAAATAAAAT
1 AAAAAAAT-AAAT
905322 AAAAAA
1 AAAAAA
905328 TACTTTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 7 0.27
12 14 0.54
13 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:912373 original size:11 final size:11
Alignment explanation
Indices: 912359--912383 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
912349 ATCACAAAAT
912359 AATGATATTGC
1 AATGATATTGC
912370 AATGATATTGC
1 AATGATATTGC
912381 AAT
1 AAT
912384 TTTTTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
AATGATATTGC
Found at i:916585 original size:43 final size:43
Alignment explanation
Indices: 916524--917018 Score: 767
Period size: 43 Copynumber: 11.5 Consensus size: 43
916514 AACTTGAAGA
* *
916524 TAGATCTGATGGTTAGTTTGTTGACCATCTAGCCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
* ** *
916567 TAGATCCGATGGTTAGTTTGTTGACCA-CACAGTCTCCTTGAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATC-CAACCTCCTTAAGG
* * *
916610 TAGATGTGATGGTTTGTTTGTAGACCATCCAACCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
* *
916653 TAGATCTGATGGTTAGTTTGTTGACCATCTAGCCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
916696 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
* *
916739 TAGATCTGATGGTTAGTTTGTAGACCATCCATCCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
*
916782 TAGATCTGATGGTTAGTTTGTAGACCATCCAACCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
* * * *
916825 TAGATCTGATGGGTAGTTCGTTGACCATCCAGCCTTCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
916868 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
*
916911 TAGATCAGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
* * *
916954 TAGACCTGATGGTTAGTTTGTTGACCATCCAGCCTTCTTAAGG
1 TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
*
916997 TTGATCTGATGGTTAGTTTGTT
1 TAGATCTGATGGTTAGTTTGTT
917019 CACTACATAG
Statistics
Matches: 413, Mismatches: 37, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
42 1 0.00
43 411 1.00
44 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (43 bp):
TAGATCTGATGGTTAGTTTGTTGACCATCCAACCTCCTTAAGG
Found at i:920807 original size:2 final size:2
Alignment explanation
Indices: 920800--920851 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
920790 TTAATAAATG
920800 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
920842 TC TC TC TC TC
1 TC TC TC TC TC
920852 AGAGTGGGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:921699 original size:49 final size:49
Alignment explanation
Indices: 921643--922452 Score: 869
Period size: 49 Copynumber: 16.7 Consensus size: 49
921633 GCTGATATTC
* * *
921643 GCCCCGCTGTGGGGTTCCGATGTAGGGTTCCATTGGGGCTACCATTCCT
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* **
921692 GCCCCGCTGTTGGGTTCCGTTGTGGGGTTCC-TTGGGGCTAATATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * ** *
921740 GCCCCGCGGTGGCGTTCCGATGTGGGGTTCAATTGGGGCTAATATTCCC
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * *
921789 GCCCCGCTGTTGGGTCCCGTTGTGGGGTTCCATTGGGGCTACAATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * *
921838 GCCCCGCTGTGGGGTTCCGATGTTGGGTTCCATTGGGGCTACAATTCCA
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * *
921887 GCCCCGCTGTGGGGTTCCATTATTGGGTTCC-TTTGGGCTACCATTCCA
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * *
921935 GCCCCGCTGTAGAGTTCCGTTGTGGGGTTCCTTTGGGGCTACAATTCCA
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * * *
921984 GCCCCGCTGTGGGGTTCCGTTATTGGGTTCC-TTTGGCCTATCATTCCA
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * *
922032 GCCCAGCTGTGAGGTTCCGATGTGGGGTTCCATTGGGGCTACCATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * *
922081 GCCCCGCTTTTGGGTTCCGTTCTTGGGTTCCATGGGGGCTACCATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* ** * * *
922130 GCCCCGCTTTTAGGTTCCGTTCTTGGGTTCCATTGGGGCTACCATTCCT
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * *
922179 TCCCTGCTGTGGAGTTCCGTTGTGGGGTTCC-TCT-GGGCTACCATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCAT-TGGGGCTACCATTCCG
* * * *
922227 GCCCCGCTGTGAGGTTCCGATGTGAGGTTCCA-TGGGGCTTCCATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * * *
922275 GCCCTGTTGTTGGGTTCCGTTATTGGGTTCCATGGGGGCTACCATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * **
922324 GCCTCGCTGTGGAGTTCCGATGTGGCTTTCCATT-GGGCTACCATTCCG
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * * * * *
922372 GCCCCGCTTTGGAGTTCCGCTGTGGGGTTCCATGGGGGCTATCATTCCA
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
* * *
922421 GTCCCGCTGTGCGGTTCCGTTGTGGAGTTCCA
1 GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCA
922453 ATGTATGAGG
Statistics
Matches: 636, Mismatches: 117, Indels: 16
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.00
48 238 0.37
49 397 0.62
ACGTcount: A:0.09, C:0.28, G:0.32, T:0.31
Consensus pattern (49 bp):
GCCCCGCTGTGGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCG
Found at i:921787 original size:97 final size:96
Alignment explanation
Indices: 921617--922452 Score: 851
Period size: 97 Copynumber: 8.6 Consensus size: 96
921607 TATGCTCAGA
* * * * *
921617 TGTGGAGTTTCTTGGGGCTGATATT-C-GCCCCGCTGTGGGGTTCCGATGTAGGGTTCCATTGGG
1 TGTGGGGTTCCTTGGGGCTAACATTCCGGCCCCGCTGT-GGGTTCCGATGTGGGGTTCCATTGGG
*
921680 GCTACCATTCCTGCCCCGCTGTTGGGTTCCGT
65 GCTACCATTCCGGCCCCGCTGTTGGGTTCCGT
* * *
921712 TGTGGGGTTCCTTGGGGCTAATATTCCGGCCCCGCGGTGGCGTTCCGATGTGGGGTTCAATTGGG
1 TGTGGGGTTCCTTGGGGCTAACATTCCGGCCCCGCTGTGG-GTTCCGATGTGGGGTTCCATTGGG
** * *
921777 GCTAATATTCCCGCCCCGCTGTTGGGTCCCGT
65 GCTACCATTCCGGCCCCGCTGTTGGGTTCCGT
*
921809 TGTGGGGTTCCATTGGGGCT-ACAATTCCGGCCCCGCTGTGGGGTTCCGATGTTGGGTTCCATTG
1 TGTGGGGTTCC-TTGGGGCTAAC-ATTCCGGCCCCGCTGT-GGGTTCCGATGTGGGGTTCCATTG
* * * *
921873 GGGCTACAATTCCAGCCCCGCTGTGGGGTTCCAT
63 GGGCTACCATTCCGGCCCCGCTGTTGGGTTCCGT
* * * * * * * *
921907 TATTGGGTTCCTTTGGGCTACCATTCCAGCCCCGCTGTAGAGTTCCGTTGTGGGGTTCCTTTGGG
1 TGTGGGGTTCCTTGGGGCTAACATTCCGGCCCCGCTGT-GGGTTCCGATGTGGGGTTCCATTGGG
* * *
921972 GCTACAATTCCAGCCCCGCTGTGGGGTTCCGT
65 GCTACCATTCCGGCCCCGCTGTTGGGTTCCGT
* * * * * * *
922004 TATTGGGTTCCTTTGGCCTATCATTCCAGCCCAGCTGTGAGGTTCCGATGTGGGGTTCCATTGGG
1 TGTGGGGTTCCTTGGGGCTAACATTCCGGCCCCGCTGTG-GGTTCCGATGTGGGGTTCCATTGGG
*
922069 GCTACCATTCCGGCCCCGCTTTTGGGTTCCGT
65 GCTACCATTCCGGCCCCGCTGTTGGGTTCCGT
* * * * * * * * *
922101 TCTTGGGTTCCATGGGGGCTACCATTCCGGCCCCGCTTTTAGGTTCCGTTCTTGGGTTCCATTGG
1 TGTGGGGTTCC-TTGGGGCTAACATTCCGGCCCCGC-TGTGGGTTCCGATGTGGGGTTCCATTGG
** *
922166 GGCTACCATTCCTTCCCTGCTG-TGGAGTTCCGT
64 GGCTACCATTCCGGCCCCGCTGTTGG-GTTCCGT
* *
922199 TGTGGGGTTCCTCT-GGGCTACCATTCCGGCCCCGCTGTGAGGTTCCGATGTGAGGTTCCA-TGG
1 TGTGGGGTTCCT-TGGGGCTAACATTCCGGCCCCGCTGTG-GGTTCCGATGTGGGGTTCCATTGG
* * *
922262 GGCTTCCATTCCGGCCCTGTTGTTGGGTTCCGT
64 GGCTACCATTCCGGCCCCGCTGTTGGGTTCCGT
* * * * * **
922295 TATTGGGTTCCATGGGGGCTACCATTCCGGCCTCGCTGTGGAGTTCCGATGTGGCTTTCCATT-G
1 TGTGGGGTTCC-TTGGGGCTAACATTCCGGCCCCGCTGTGG-GTTCCGATGTGGGGTTCCATTGG
*
922359 GGCTACCATTCCGGCCCCGCT-TTGGAGTTCCGC
64 GGCTACCATTCCGGCCCCGCTGTTGG-GTTCCGT
* * * * * *
922392 TGTGGGGTTCCATGGGGGCTATCATTCCAGTCCCGCTGTGCGGTTCCGTTGTGGAGTTCCA
1 TGTGGGGTTCC-TTGGGGCTAACATTCCGGCCCCGCTGTG-GGTTCCGATGTGGGGTTCCA
922453 ATGTATGAGG
Statistics
Matches: 631, Mismatches: 90, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
95 22 0.03
96 48 0.08
97 401 0.64
98 156 0.25
99 4 0.01
ACGTcount: A:0.09, C:0.28, G:0.32, T:0.31
Consensus pattern (96 bp):
TGTGGGGTTCCTTGGGGCTAACATTCCGGCCCCGCTGTGGGTTCCGATGTGGGGTTCCATTGGGG
CTACCATTCCGGCCCCGCTGTTGGGTTCCGT
Found at i:921925 original size:146 final size:146
Alignment explanation
Indices: 921643--922452 Score: 884
Period size: 146 Copynumber: 5.6 Consensus size: 146
921633 GCTGATATTC
* * * * *
921643 GCCCCGCTGTGGGGTTCCGATGTAGGGTTCCATTGGGGCTACCATTCCTGCCCCGCTGTTGGGTT
1 GCCCCGCTGTTGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGTT
* * * *
921708 CCGTTGTGGGGTTCC-TTGGGGCTA-ATATTCCGGCCCCGCGGTGGCGTTCCGATGTGGGGTTCA
66 CCGTTGTTGGGTTCCATTGGGGCTACA-ATTCCAGCCCCGCTGTGGAGTTCCGATGTGGGGTTC-
* * ** *
921771 ATTGGGGCTAATATTCCC
129 CTTTGGGCTACCATTCCG
* *
921789 GCCCCGCTGTTGGGTCCCGTTGTGGGGTTCCATTGGGGCTACAATTCCGGCCCCGCTGTGGGGTT
1 GCCCCGCTGTTGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGTT
* * * *
921854 CCGATGTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGGGTTCC-ATTATTGGGTTCC
66 CCGTTGTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGTTCCGA-TGTGGGGTTCC
*
921918 TTTGGGCTACCATTCCA
130 TTTGGGCTACCATTCCG
* * * * *
921935 GCCCCGCTGTAGAGTTCCGTTGTGGGGTTCCTTTGGGGCTACAATTCCAGCCCCGCTGTGGGGTT
1 GCCCCGCTGTTGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGTT
* * * *
922000 CCGTTATTGGGTTCC-TTTGGCCTATC-ATTCCAGCCCAGCTGT-GAGGTTCCGATGTGGGGTTC
66 CCGTTGTTGGGTTCCATTGGGGCTA-CAATTCCAGCCCCGCTGTGGA-GTTCCGATGTGGGGTTC
*
922062 CATTGGGGCTACCATTCCG
129 C-TTTGGGCTACCATTCCG
* * * * * **
922081 GCCCCGCTTTTGGGTTCCGTTCTTGGGTTCCATGGGGGCTACCATTCCGGCCCCGCTTTTAGGTT
1 GCCCCGCTGTTGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGTT
* * ** * *
922146 CCGTTCTTGGGTTCCATTGGGGCTACCATTCCTTCCCTGCTGTGGAGTTCCGTTGTGGGGTTCCT
66 CCGTTGTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGTTCCGATGTGGGGTTCCT
*
922211 CTGGGCTACCATTCCG
131 TTGGGCTACCATTCCG
* * * * * *
922227 GCCCCGCTG-TGAGGTTCCGATGTGAGGTTCCA-TGGGGCTTCCATTCCGGCCCTGTTGTTGGGT
1 GCCCCGCTGTTG-GGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGT
* * * * * **
922290 TCCGTTATTGGGTTCCATGGGGGCTACCATTCCGGCCTCGCTGTGGAGTTCCGATGTGGCTTTCC
65 TCCGTTGTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGTTCCGATGTGGGGTTCC
*
922355 ATTGGGCTACCATTCCG
130 TTTGGGCTACCATTCCG
* * * * * *
922372 GCCCCGCT-TTGGAGTTCCGCTGTGGGGTTCCATGGGGGCTATCATTCCAGTCCCGCTGTGCGGT
1 GCCCCGCTGTTGG-GTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGT
922436 TCCGTTG-TGGAGTTCCA
65 TCCGTTGTTGG-GTTCCA
922453 ATGTATGAGG
Statistics
Matches: 560, Mismatches: 89, Indels: 30
0.82 0.13 0.04
Matches are distributed among these distances:
144 2 0.00
145 164 0.29
146 316 0.56
147 75 0.13
148 3 0.01
ACGTcount: A:0.09, C:0.28, G:0.32, T:0.31
Consensus pattern (146 bp):
GCCCCGCTGTTGGGTTCCGTTGTGGGGTTCCATTGGGGCTACCATTCCGGCCCCGCTGTGGGGTT
CCGTTGTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGTTCCGATGTGGGGTTCCT
TTGGGCTACCATTCCG
Found at i:922167 original size:292 final size:289
Alignment explanation
Indices: 921643--922439 Score: 981
Period size: 292 Copynumber: 2.7 Consensus size: 289
921633 GCTGATATTC
* * *
921643 GCCCCGCTGTGGGGTTCCGATGTAGGGTTCCATTGGGGCTACCATTCCTGCCCCGCTGTTGGGTT
1 GCCCCGCTGT-GAGTTCCGATGTGGGGTTCC-TTGGGGCTACCATTCCAGCCCCGCTGTTGGGTT
* * * * *
921708 CCGTTGTGGGGTTCCTTGGGGCTAAT-ATTCCGGCCCCGCGGTGGCGTTCCGATGTGGGGTTCAA
64 CCGTTATTGGGTTCCTTGGGGCT-ATCATTCCGG-CCCGCTGTGGAGTTCCGATGTGGGGTTCCA
** * * * * *
921772 TTGGGGCTAATATTCCCGCCCCGCTGTTGGGTCCCGTTGTGGGGTTCCATTGGGGCTACAATTCC
127 TTGGGGCTACCATTCCGGCCCCGCTTTTGGGTTCCGTTGTGGGGTTCCATGGGGGCTACCATTCC
* * *
921837 GGCCCCGCTGTGGGGTTCCGATGTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGGGT
192 GGCCCCGCTGTGAGGTTCCGATCTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGT
* *
921902 TCCATTATTGGGTTCCTTTGGGCTACCATTCCA
257 TCCATTATGGGGTTCCTCTGGGCTACCATTCCA
* * *
921935 GCCCCGCTGTAGAGTTCCGTTGTGGGGTTCCTTTGGGGCTACAATTCCAGCCCCGCTGTGGGGTT
1 GCCCCGCTGT-GAGTTCCGATGTGGGGTTCC-TTGGGGCTACCATTCCAGCCCCGCTGTTGGGTT
* * *
922000 CCGTTATTGGGTTCCTTTGGCCTATCATTCCAGCCCAGCTGT-GAGGTTCCGATGTGGGGTTCCA
64 CCGTTATTGGGTTCCTTGGGGCTATCATTCCGGCCC-GCTGTGGA-GTTCCGATGTGGGGTTCCA
* *
922064 TTGGGGCTACCATTCCGGCCCCGCTTTTGGGTTCCGTTCTTGGGTTCCATGGGGGCTACCATTCC
127 TTGGGGCTACCATTCCGGCCCCGCTTTTGGGTTCCGTTGTGGGGTTCCATGGGGGCTACCATTCC
* * * * ** *
922129 GGCCCCGCTTTTAGGTTCCGTTCTTGGGTTCCATTGGGGCTACCATTCCTTCCCTGCTGTGGAGT
192 GGCCCCGCTGTGAGGTTCCGATCTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGT
* * *
922194 TCCGTTGTGGGGTTCCTCTGGGCTACCATTCCG
257 TCCATTATGGGGTTCCTCTGGGCTACCATTCCA
* * * * * *
922227 GCCCCGCTGTGAGGTTCCGATGTGAGGTTCCATGGGGCTTCCATTCCGGCCCTGTTGTTGGGTTC
1 GCCCCGCTGTGA-GTTCCGATGTGGGGTTCCTTGGGGCTACCATTCCAGCCCCGCTGTTGGGTTC
* * **
922292 CGTTATTGGGTTCCATGGGGGCTACCATTCCGGCCTCGCTGTGGAGTTCCGATGTGGCTTTCCAT
65 CGTTATTGGGTTCC-TTGGGGCTATCATTCCGGCC-CGCTGTGGAGTTCCGATGTGGGGTTCCAT
* *
922357 T-GGGCTACCATTCCGGCCCCGC-TTTGGAGTTCCGCTGTGGGGTTCCATGGGGGCTATCATTCC
128 TGGGGCTACCATTCCGGCCCCGCTTTTGG-GTTCCGTTGTGGGGTTCCATGGGGGCTACCATTCC
* * *
922420 AGTCCCGCTGTGCGGTTCCG
192 GGCCCCGCTGTGAGGTTCCG
922440 TTGTGGAGTT
Statistics
Matches: 432, Mismatches: 65, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
290 5 0.01
291 116 0.27
292 308 0.71
293 3 0.01
ACGTcount: A:0.09, C:0.28, G:0.32, T:0.31
Consensus pattern (289 bp):
GCCCCGCTGTGAGTTCCGATGTGGGGTTCCTTGGGGCTACCATTCCAGCCCCGCTGTTGGGTTCC
GTTATTGGGTTCCTTGGGGCTATCATTCCGGCCCGCTGTGGAGTTCCGATGTGGGGTTCCATTGG
GGCTACCATTCCGGCCCCGCTTTTGGGTTCCGTTGTGGGGTTCCATGGGGGCTACCATTCCGGCC
CCGCTGTGAGGTTCCGATCTTGGGTTCCATTGGGGCTACAATTCCAGCCCCGCTGTGGAGTTCCA
TTATGGGGTTCCTCTGGGCTACCATTCCA
Found at i:926429 original size:2 final size:2
Alignment explanation
Indices: 926422--926450 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
926412 TTCATATCAC
926422 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
926451 TTTAATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:931611 original size:42 final size:42
Alignment explanation
Indices: 931546--932066 Score: 652
Period size: 42 Copynumber: 12.7 Consensus size: 42
931536 CTTGTCGTCT
*
931546 GTAATTGTACGTTAACATATATTATAAGGAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* *
931588 CTAATTGGACGTTAACATGTA-T-T-----AT---A-GTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* * * *
931619 GTAATTTTACATTAACATGCATTATAAGGAATAACATTTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* *
931661 GTAATTGTACGTTAACATGCATTATAAGAAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* * * * *
931703 GTAATCGTGCGTTAATATGTATTATAGGGAATAAC-TCGTAAA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACAT-GTATA
* * * *
931745 GCAATTGTACATCAACATGTATTATAAGGAAAAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* *
931787 GTAATTGTACATTAACATGTGTTATAAGGAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* *
931829 GTAATTGTACGTTAACATGTGTCATAAGGAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* *
931871 GTAATTGTACGTTAACATGTGTCATAAGGAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* * *
931913 GTAATTGTACATTAACATGTATTATTAGGAAAAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* *
931955 GTAATTGTACATTAACATGTGTTATAAGGAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
* * *
931997 GTAATTGTACATTAACATGTGTTATAATGAATAACATGTATA
1 GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
*
932039 GTAATTGTACGTTAACATGTTTTATAAG
1 GTAATTGTACGTTAACATGTATTATAAG
932067 AAAAAACTAC
Statistics
Matches: 419, Mismatches: 47, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
31 21 0.05
32 2 0.00
33 1 0.00
35 2 0.00
38 2 0.00
40 1 0.00
41 3 0.01
42 386 0.92
43 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (42 bp):
GTAATTGTACGTTAACATGTATTATAAGGAATAACATGTATA
Found at i:931624 original size:31 final size:31
Alignment explanation
Indices: 931583--931644 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
931573 GGAATAACAT
* *
931583 GTATACTAATTGGACGTTAACATGTATTATA
1 GTATACTAATTGGACATTAACATGCATTATA
* **
931614 GTATAGTAATTTTACATTAACATGCATTATA
1 GTATACTAATTGGACATTAACATGCATTATA
931645 AGGAATAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
GTATACTAATTGGACATTAACATGCATTATA
Found at i:931666 original size:73 final size:73
Alignment explanation
Indices: 931546--931686 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 73
931536 CTTGTCGTCT
* * *
931546 GTAATTGTACGTTAACATATATTATAAGGAATAACATGTATACTAATTGGACGTTAACATGTATT
1 GTAATTGTACATTAACATACATTATAAGGAATAACATGTATACTAATTGGACGTTAACATGCATT
931611 ATAGTATA
66 ATAGTATA
* * * * *
931619 GTAATTTTACATTAACATGCATTATAAGGAATAACATTTATAGTAATTGTACGTTAACATGCATT
1 GTAATTGTACATTAACATACATTATAAGGAATAACATGTATACTAATTGGACGTTAACATGCATT
931684 ATA
66 ATA
931687 AGAAATAACA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (73 bp):
GTAATTGTACATTAACATACATTATAAGGAATAACATGTATACTAATTGGACGTTAACATGCATT
ATAGTATA
Found at i:931865 original size:19 final size:19
Alignment explanation
Indices: 931841--931909 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
931831 AATTGTACGT
931841 TAACATGTGTCATAAGGAA
1 TAACATGTGTCATAAGGAA
* * *
931860 TAACATGTAT-AGTAATTGTACGT
1 TAACATGTGTCA-TAA--GGA--A
931883 TAACATGTGTCATAAGGAA
1 TAACATGTGTCATAAGGAA
931902 TAACATGT
1 TAACATGT
931910 ATAGTAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 1 0.03
19 20 0.53
21 4 0.11
23 12 0.32
24 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (19 bp):
TAACATGTGTCATAAGGAA
Found at i:931991 original size:19 final size:19
Alignment explanation
Indices: 931967--932035 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
931957 AATTGTACAT
931967 TAACATGTGTTATAAGGAA
1 TAACATGTGTTATAAGGAA
* *
931986 TAACATGT-ATAGTAATTGTACA
1 TAACATGTGTTA-TAA--GGA-A
*
932008 TTAACATGTGTTATAATGAA
1 -TAACATGTGTTATAAGGAA
932028 TAACATGT
1 TAACATGT
932036 ATAGTAATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 2 0.05
19 19 0.49
20 1 0.03
21 3 0.08
22 1 0.03
23 11 0.28
24 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (19 bp):
TAACATGTGTTATAAGGAA
Found at i:933931 original size:23 final size:23
Alignment explanation
Indices: 933901--933973 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
933891 ATATAAGGAA
933901 TAACATGTATAGTAATTGTACGT
1 TAACATGTATAGTAATTGTACGT
* *
933924 TAACATGTATTA-TAA--GGA--A
1 TAACATGTA-TAGTAATTGTACGT
*
933943 TAACATGTAAAGTAATTGTACGT
1 TAACATGTATAGTAATTGTACGT
*
933966 TAATATGT
1 TAACATGT
933974 GTTATAAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 1 0.03
19 12 0.32
21 4 0.11
23 19 0.50
24 2 0.05
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (23 bp):
TAACATGTATAGTAATTGTACGT
Found at i:933951 original size:42 final size:42
Alignment explanation
Indices: 933892--934061 Score: 236
Period size: 42 Copynumber: 4.1 Consensus size: 42
933882 GCTATGCAAA
933892 TATAAGGAATAACATGTATAGTAATTGTACGTTAACATGTAT
1 TATAAGGAATAACATGTATAGTAATTGTACGTTAACATGTAT
* * *
933934 TATAAGGAATAACATGTAAAGTAATTGTACGTTAATATGTGT
1 TATAAGGAATAACATGTATAGTAATTGTACGTTAACATGTAT
* * *
933976 TATAAGGAATAACGTGTATAGTAATAGTACAG-TAACTTG-AT
1 TATAAGGAATAACATGTATAGTAATTGTAC-GTTAACATGTAT
* * *
934017 TATAAGGAATAACATGTATAGTAATTGAATGTTTACATGTAT
1 TATAAGGAATAACATGTATAGTAATTGTACGTTAACATGTAT
934059 TAT
1 TAT
934062 TATGCCTTCT
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 32 0.29
42 76 0.69
43 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.36
Consensus pattern (42 bp):
TATAAGGAATAACATGTATAGTAATTGTACGTTAACATGTAT
Found at i:941391 original size:4 final size:4
Alignment explanation
Indices: 941382--941411 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
941372 ATTTCAAGTG
941382 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
941412 CAATCAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:941416 original size:4 final size:4
Alignment explanation
Indices: 941409--941442 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
941399 TAAATAAATA
941409 AATC AATC AATC AATC AATC AATC AATC AATC AA
1 AATC AATC AATC AATC AATC AATC AATC AATC AA
941443 GTAAAGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
AATC
Found at i:943974 original size:20 final size:21
Alignment explanation
Indices: 943925--943974 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
943915 TTTCAAATTA
*
943925 CCTATAGG-AATATTGATTTT
1 CCTATAGGAAAAATTGATTTT
**
943945 CCTAGGGGAAAAATT-ATTTT
1 CCTATAGGAAAAATTGATTTT
943965 CCTATAGGAA
1 CCTATAGGAA
943975 TTTATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (21 bp):
CCTATAGGAAAAATTGATTTT
Found at i:943981 original size:18 final size:18
Alignment explanation
Indices: 943925--943982 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
943915 TTTCAAATTA
943925 CCTATAGGAATATTGATTTT
1 CCTATAGGAAT-TT-ATTTT
** *
943945 CCTAGGGGAAAAATTATTTT
1 CCTATAGG--AATTTATTTT
943965 CCTATAGGAATTTATTTT
1 CCTATAGGAATTTATTTT
943983 TGAAAGGTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 9 0.30
20 17 0.57
21 2 0.07
22 2 0.07
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (18 bp):
CCTATAGGAATTTATTTT
Found at i:946009 original size:170 final size:167
Alignment explanation
Indices: 945871--946176 Score: 422
Period size: 167 Copynumber: 1.8 Consensus size: 167
945861 GCATGTTTGT
945871 GAGTAAAGACA-AAGATTTT-TAAAAGACTTAATGCA-TTTTTACTATATGGCCATATTTGCCCC
1 GAGTAAAGA-AGAAGATTTTCT--AAGACTTAAT--ATTTTTTACTATATGGCCATA-TTGCCCC
* *
945933 CACCCTA-GAGCCTGAACCCCTGACACAGGGGCCAAGAATTTCACAATTTTGCTATAGGGCTTCA
60 CACCCTATG-GCCAGAACCCCTGACACAGGGGCCAAGAATTTCACAATTTTGCTAGAGGGCTTCA
* *
945997 TGGACATCATAACCATGCATTTAGTTTTTAACAAATATATATGG
124 TGGACATCATAACCATGCATTCAGTTTTTAACAAACATATATGG
* * *
946041 GAGTAGAGAAGAAGATTTTCTAAGATTTAATATTTTTTACTATATGGCCATATTGGCCCCACCCT
1 GAGTAAAGAAGAAGATTTTCTAAGACTTAATATTTTTTACTATATGGCCATATTGCCCCCACCCT
* * * *
946106 ATGGCCAGAACCCCTGACCCAGGGGCCATGATTTTCACAATTTTGGTAGAGGGCTTCATGGACAT
66 ATGGCCAGAACCCCTGACACAGGGGCCAAGAATTTCACAATTTTGCTAGAGGGCTTCATGGACAT
946171 CATAAC
131 CATAAC
946177 TGTGCAACCA
Statistics
Matches: 123, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
167 76 0.62
168 20 0.16
169 10 0.08
170 16 0.13
171 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (167 bp):
GAGTAAAGAAGAAGATTTTCTAAGACTTAATATTTTTTACTATATGGCCATATTGCCCCCACCCT
ATGGCCAGAACCCCTGACACAGGGGCCAAGAATTTCACAATTTTGCTAGAGGGCTTCATGGACAT
CATAACCATGCATTCAGTTTTTAACAAACATATATGG
Found at i:950141 original size:50 final size:50
Alignment explanation
Indices: 950066--950216 Score: 293
Period size: 50 Copynumber: 3.0 Consensus size: 50
950056 TCCTCGCTGT
950066 TAGCTCTGTATCAGATTAAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
1 TAGCTCTGTATCAGATTAAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
950116 TAGCTCTGTATCAGATTAAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
1 TAGCTCTGTATCAGATTAAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
*
950166 TAGCTCTGTATCAGATTGAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
1 TAGCTCTGTATCAGATTAAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
950216 T
1 T
950217 TGACACAGTG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (50 bp):
TAGCTCTGTATCAGATTAAGCTGGAGACACGTTCTATCTGCGTCTCGTGA
Found at i:950657 original size:32 final size:32
Alignment explanation
Indices: 950614--951802 Score: 1666
Period size: 32 Copynumber: 37.2 Consensus size: 32
950604 CTATTACGTA
* *
950614 CCAACTATAATCTCACTCTGCATCCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
950646 CCAACTGTAATCTCACTCTGGATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* * * *
950678 CAAACTGTATTCTCACTCTGCATCCTAAACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
950710 CCAACTGTAATCTCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
950742 CCAACTATAATCTCACTCTGCATCCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
950774 CCAACTGTAATCTTACTCTGCATCCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
950806 CCAACTTTAATCTCACTCTGGATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
950838 CCAACTGTAATCTCACTCTGCATTTTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
950870 CCAACTATAATCTCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
950902 CCAACTGTAATCTCACTCTGGATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
950934 CCAACTGTAATCTCACTCTGGATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
950966 CCAAGTGTAATCTCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* * *
950998 CCAACTATAATCTAACTCTGCATCCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951030 CCAACTATAATCTCACTCTGCATTCTTTACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* * *
951062 CCAACTGTAATCTTACTCTGGATTATATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951094 CCAACTGTAATCTCACTCTGGATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
951126 CCAAGTGTAATCTCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
** *
951158 CCAACTGTAATCTCACTCTGCATTCTATGTAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951190 CCAACTGTAATCTCACTCTGGATTCTATA-ATT
1 CCAACTGTAATCTCACTCTGCATTCTATACA-C
* * *
951222 CCAACTATAATCTCACTCTACATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* * *
951254 CCAACTGTAACCGCACTCTGCATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951286 CCAACTGTAACCGCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
951318 CCAACTGTAATCTCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* * *
951350 CCAACTGTAATCTCACTATCCATTCTATAAAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951382 CAAACTGTAATCTCACTCTGGATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951414 CCAAATGTAATCTCACTCTGCAATCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* * *
951446 CCAACTGTAATCTCCCTCTGGATTCTATA-ATT
1 CCAACTGTAATCTCACTCTGCATTCTATACA-C
* * *
951478 CCAACTATAATCTCACTCTACATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951510 CCAACTGTAACCGCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951542 CCAACTGTAACCGCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951574 CCAACTGTAATCTCACTCTGGATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951606 CCAACTGTAACCGCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
951638 CCAACTGTAATCTCACTCTGCATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951670 CCAAGTGTAATCTCACTCTGCATTCTATA-ATT
1 CCAACTGTAATCTCACTCTGCATTCTATACA-C
* *
951702 CCAACTGTAATCTCACTCTACATTCTATACAT
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
* *
951734 CCAACTGTAACCGCACTCTGCATTCTATACAC
1 CCAACTGTAATCTCACTCTGCATTCTATACAC
*
951766 CCAACTGTAATCTCACT-TAGCATTCTATACAT
1 CCAACTGTAATCTCACTCT-GCATTCTATACAC
951798 CCAAC
1 CCAAC
951803 CATTGCGTTC
Statistics
Matches: 1038, Mismatches: 112, Indels: 14
0.89 0.10 0.01
Matches are distributed among these distances:
31 4 0.00
32 1031 0.99
33 3 0.00
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.31
Consensus pattern (32 bp):
CCAACTGTAATCTCACTCTGCATTCTATACAC
Found at i:954665 original size:40 final size:40
Alignment explanation
Indices: 954577--954686 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
954567 TGTACTCACG
* *
954577 TAAGACTGAATATATCAATCCAAATATATATCTGTAATTACT
1 TAAGACTGGATATATCAATCC--ATATATATCTGTAATAACT
* * *
954619 TAAGACTGGATATATAAATCCATATCTATGTGTAATAACT
1 TAAGACTGGATATATCAATCCATATATATCTGTAATAACT
* *
954659 TCAGACTGGAAATATCAATCCATATATA
1 TAAGACTGGATATATCAATCCATATATA
954687 CATGTATGTG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 40 0.68
42 19 0.32
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (40 bp):
TAAGACTGGATATATCAATCCATATATATCTGTAATAACT
Found at i:954750 original size:40 final size:40
Alignment explanation
Indices: 954695--955529 Score: 956
Period size: 40 Copynumber: 20.8 Consensus size: 40
954685 TACATGTATG
* * ** *
954695 TGTACTCAAATCAGACTGGATCCATCAATCCCTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * *
954735 TGTAGTCAATTCAGACTGGATACATTATTCCTTAGACATA
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * * *
954775 TTTAGTTAATTCAGACTGGATATATCTATTCTAAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * * *
954815 TGTAGTCAACTCAGACTTGATACATCGACCCTTAGACATGC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACAT-C
* * * *
954856 -GTAGTCCATTCAAACTGGATATATCAATCCTAACACATGC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACAT-C
* * *
954896 -GTAGTCAACTCAGACTGGATATATCAATCCCTAGATATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* *
954935 TGTAGTCAACTCAGACTTGATATATCAATCCTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* *
954975 TGTAGTCAATTCAGACTGGATATAT-ATTCCTTAGACATA
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * * *
955014 TTTAGTCAATTCAGACTGAATATGTCAATCCTGAGACAGC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * *
955054 TTTAGTCCATTCAGACTGAATAAATCAATCCTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* *
955094 TTTAGTCAATTCAGACTGGATATATCAATCCCTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * *
955134 TTTAGTCAATTCAGACAGAATATATAAATCCTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * *
955174 TTTAGTCAATTTAGACTGAATATATCAATCCTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * * *
955214 TTTAGTCAATTCAAACTGGATATATCAATCTTTACACACC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * * *
955254 TGTAGTCATTTCAGGCTAGATATATCAATCTTTAGACATT
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * * *
955294 TGTAGTCCATTGAAACTAGATATATCAATCCTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* *
955334 TGTAGTCAATTCAGACTAGATATATCAATCTTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
955374 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATCATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAG--A-CATC
* * *
955417 TGTAGTCAATTCAGGCTAGATATATCAATCTTTAGACATC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* *
955457 TGTAGTCAATTCAGACTGGATGTATCAATCCTTAGACACC
1 TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
* * *
955497 TGTAGTCATTTCAGATTGGATTTATCAATCCTT
1 TGTAGTCAATTCAGACTGGATATATCAATCCTT
955530 CAAGACATTC
Statistics
Matches: 680, Mismatches: 109, Indels: 12
0.85 0.14 0.01
Matches are distributed among these distances:
39 35 0.05
40 606 0.89
41 2 0.00
42 1 0.00
43 36 0.05
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (40 bp):
TGTAGTCAATTCAGACTGGATATATCAATCCTTAGACATC
Found at i:955382 original size:21 final size:21
Alignment explanation
Indices: 955318--955383 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
955308 ACTAGATATA
*
955318 TCAATCCTTAGACATCTGTAG
1 TCAATCTTTAGACATCTGTAG
* ** *
955339 TCAA--TTCAGACTAGATATA-
1 TCAATCTTTAGAC-ATCTGTAG
955358 TCAATCTTTAGACATCTGTAG
1 TCAATCTTTAGACATCTGTAG
955379 TCAAT
1 TCAAT
955384 TCAGACTGGA
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
19 9 0.28
20 8 0.25
21 15 0.47
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
TCAATCTTTAGACATCTGTAG
Found at i:957967 original size:64 final size:64
Alignment explanation
Indices: 957766--957977 Score: 307
Period size: 64 Copynumber: 3.3 Consensus size: 64
957756 TCGCTACTCG
* * * *
957766 TGACCTGGGATGTTCGGATCCTTTGCTATTTATGACCTGGGATGTTTGGATCCTTTGCAATTTA
1 TGACCTGGGATGTTCGGATCCTTTGCTATTTATGGCTTGGGATGTTCGGATCCTTTGCTATTTA
* *
957830 TGGCTTGGGATGTTCGGATCCTTTGCTATTTATGGCTTGGGATGTTCGGATCCTTTGCTATTTA
1 TGACCTGGGATGTTCGGATCCTTTGCTATTTATGGCTTGGGATGTTCGGATCCTTTGCTATTTA
* * * * *
957894 TGGCTTGGGCTGTTCGGATCCTTTGCTATTTATGGCTTGGGATGTTCGGATTCTTTGCTATTTG
1 TGACCTGGGATGTTCGGATCCTTTGCTATTTATGGCTTGGGATGTTCGGATCCTTTGCTATTTA
* *
957958 TGACCTGGGCTTTTCGGATC
1 TGACCTGGGATGTTCGGATC
957978 TTCCTGACTT
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 136 1.00
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.42
Consensus pattern (64 bp):
TGACCTGGGATGTTCGGATCCTTTGCTATTTATGGCTTGGGATGTTCGGATCCTTTGCTATTTA
Found at i:957974 original size:96 final size:96
Alignment explanation
Indices: 957765--957977 Score: 327
Period size: 96 Copynumber: 2.2 Consensus size: 96
957755 ATCGCTACTC
*
957765 GTGACCTGGGATGTTCGGATCCTTTGCTATTTATGACCTGGGATGTTTGGATCCTTTGCAATTTA
1 GTGACCTGGGATGTTCGGATCCTTTGCTATTTATGACCTGGGATGTTCGGATCCTTTGCAATTTA
957830 TGGCTTGGGATGTTCGGATCCTTTGCTATTT
66 TGGCTTGGGATGTTCGGATCCTTTGCTATTT
* * * * * * *
957861 ATGGCTTGGGATGTTCGGATCCTTTGCTATTTATGGCTTGGGCTGTTCGGATCCTTTGCTATTTA
1 GTGACCTGGGATGTTCGGATCCTTTGCTATTTATGACCTGGGATGTTCGGATCCTTTGCAATTTA
*
957926 TGGCTTGGGATGTTCGGATTCTTTGCTATTT
66 TGGCTTGGGATGTTCGGATCCTTTGCTATTT
* *
957957 GTGACCTGGGCTTTTCGGATC
1 GTGACCTGGGATGTTCGGATC
957978 TTCCTGACTT
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 103 1.00
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.42
Consensus pattern (96 bp):
GTGACCTGGGATGTTCGGATCCTTTGCTATTTATGACCTGGGATGTTCGGATCCTTTGCAATTTA
TGGCTTGGGATGTTCGGATCCTTTGCTATTT
Found at i:957976 original size:32 final size:32
Alignment explanation
Indices: 957771--957956 Score: 318
Period size: 32 Copynumber: 5.8 Consensus size: 32
957761 ACTCGTGACC
* *
957771 TGGGATGTTCGGATCCTTTGCTATTTATGACC
1 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
* *
957803 TGGGATGTTTGGATCCTTTGCAATTTATGGCT
1 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
957835 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
1 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
957867 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
1 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
*
957899 TGGGCTGTTCGGATCCTTTGCTATTTATGGCT
1 TGGGATGTTCGGATCCTTTGCTATTTATGGCT
*
957931 TGGGATGTTCGGATTCTTTGCTATTT
1 TGGGATGTTCGGATCCTTTGCTATTT
957957 GTGACCTGGG
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 145 1.00
ACGTcount: A:0.13, C:0.16, G:0.27, T:0.44
Consensus pattern (32 bp):
TGGGATGTTCGGATCCTTTGCTATTTATGGCT
Found at i:960994 original size:2 final size:2
Alignment explanation
Indices: 960987--961054 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
960977 TTAAACGGAG
960987 CT CT CT CT CT CT CT CT C- CT -T CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
961027 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
961055 GAATTTGCTT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:962004 original size:2 final size:2
Alignment explanation
Indices: 961997--962056 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
961987 CAGCAAAGAA
961997 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
962039 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
962057 CTGTCAAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:963143 original size:11 final size:11
Alignment explanation
Indices: 963127--963153 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
963117 CTGAATGGCG
963127 CATTATTATTT
1 CATTATTATTT
963138 CATTATTATTT
1 CATTATTATTT
963149 CATTA
1 CATTA
963154 CCAACAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (11 bp):
CATTATTATTT
Found at i:963616 original size:1 final size:1
Alignment explanation
Indices: 963610--963638 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
963600 AAAAGTCGTA
963610 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
963639 GCTTGGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:965228 original size:27 final size:27
Alignment explanation
Indices: 965197--965266 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
965187 CGATAGGATC
*
965197 AAGGATCGGGTCTGATCGACTAGAATT
1 AAGGATCGGGTGTGATCGACTAGAATT
*
965224 AAGGATCGGGTGTGATCGACTAGGATT
1 AAGGATCGGGTGTGATCGACTAGAATT
965251 AAGGATCGGGTGTGAT
1 AAGGATCGGGTGTGAT
965267 AAATTGCGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.26
Consensus pattern (27 bp):
AAGGATCGGGTGTGATCGACTAGAATT
Found at i:966265 original size:18 final size:21
Alignment explanation
Indices: 966238--966280 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
966228 CACCACTAGT
*
966238 ACAACTACT-ATAACAACAACA
1 ACAACTACTGA-ACCAACAACA
966259 ACAACTACTGAACCAACAACA
1 ACAACTACTGAACCAACAACA
966280 A
1 A
966281 GGACTACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.56, C:0.30, G:0.02, T:0.12
Consensus pattern (21 bp):
ACAACTACTGAACCAACAACA
Found at i:970732 original size:54 final size:54
Alignment explanation
Indices: 970589--971609 Score: 1113
Period size: 54 Copynumber: 18.8 Consensus size: 54
970579 ATAGTGATCT
* * *
970589 ACTAAATGTAGAT-ATTATAGCCATGTTAGTGATAGCTTCAGTGTCCACGTATAC
1 ACTAAATGTAGATAATTA-AGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* *
970643 ACTAAAT-TAGA-AAATATAGCCATGTTAGTAATAGCTTTAGTATCAACGTATAC
1 ACTAAATGTAGATAATTA-AGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* *
970696 ACTAAATGTAGACAATTAAGCCATGTTAGTAATAGCTTTAGTAT---C-----C
1 ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
*
970742 ACTAAATGTAGATAATGT-AGCCATGTTAGTGATAGCTTCAGTATCAACGTATAC
1 ACTAAATGTAGATAAT-TAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* *
970796 ACTAAATGTAGATAA-TATAGCCATGTTGGTGATAGCTTAAGTATCCAACGTATAC
1 ACTAAATGTAGATAATTA-AGCCATGTTAGTGATAGCTTTAGTAT-CAACGTATAC
* * * *
970851 ACTAAATATAGACAATTTAGCCATGTTAGTGATAGCTTCAGTATCAACGTATAC
1 ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* * *
970905 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGATTTAGTATCCACGTATAC
1 ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* * *
970959 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATAC
1 ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* * * *
971013 ACTAAATGTAGATAATGT-AGCCATGTTAGTGATAGCTTCAGTGTCCACATATAC
1 ACTAAATGTAGATAAT-TAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* * * * *
971067 ACTAAATGTAGATAA-TATAGCCATTTTAGTGATAGCGTGATAGATTTTGTATCCAGGTACAC
1 ACTAAATGTAGATAATTA-AGCCA---T-GT--TA--GTGATAGCTTTAGTATCAACGTATAC
* *
971129 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTATAGTATCTAA-GTATAC
1 ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATC-AACGTATAC
* *
971183 ACTAAATGTAAATAATGT-AGCCATGTTAGTGATAGCTTTAGTATGC-TCGTATAC
1 ACTAAATGTAGATAAT-TAAGCCATGTTAGTGATAGCTTTAGTAT-CAACGTATAC
* *
971237 ACTAAATGTAGATAA-TATAGCCATGTTAGTGATAGATTTAGTATCCACGTATAC
1 ACTAAATGTAGATAATTA-AGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* * * *
971291 ATTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATAC
1 ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* *
971345 ACTAAATGTAGATAA-TATAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATAC
1 ACTAAATGTAGATAATTA-AGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
* * * * *
971399 ACTAAATGTAGATAATGT-AGCCATTTTAGTGATAGCGTGATAGATTTTGTATCCAGGTACAC
1 ACTAAATGTAGATAAT-TAAGCCA---T-GT--TA--GTGATAGCTTTAGTATCAACGTATAC
*
971461 ACTAAATGTAGATAATGT-AGCCATGTTAGTGATAGCTTTTGTATCTAA-GTATAC
1 ACTAAATGTAGATAAT-TAAGCCATGTTAGTGATAGCTTTAGTATC-AACGTATAC
971515 ACTAAATGTAGATAATGT-AGCCATGTTAGTGATAGCTTTAGTATGC-ACGTATAC
1 ACTAAATGTAGATAAT-TAAGCCATGTTAGTGATAGCTTTAGTAT-CAACGTATAC
* *
971569 ACTTAATATAGATAA-TATAGCCATGTTAGTGATAGCTTTAG
1 ACTAAATGTAGATAATTA-AGCCATGTTAGTGATAGCTTTAG
971610 GATTGCATTA
Statistics
Matches: 850, Mismatches: 65, Indels: 104
0.83 0.06 0.10
Matches are distributed among these distances:
46 40 0.05
47 1 0.00
49 1 0.00
51 1 0.00
52 4 0.00
53 50 0.06
54 588 0.69
55 58 0.07
56 6 0.01
57 2 0.00
58 8 0.01
59 2 0.00
60 4 0.00
62 84 0.10
63 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (54 bp):
ACTAAATGTAGATAATTAAGCCATGTTAGTGATAGCTTTAGTATCAACGTATAC
Found at i:971609 original size:278 final size:268
Alignment explanation
Indices: 970589--971606 Score: 1279
Period size: 278 Copynumber: 3.7 Consensus size: 268
970579 ATAGTGATCT
* * *
970589 ACTAAATGTAGAT-ATTATAGCCATGTTAGTGATAGCT-TCAGTGTCCACGTATACACTAAAT-T
1 ACTAAATGTAGATAATT-TAGCCATGTTAGTGATAGCTAT-AGTATCAAAGTATACACTAAATGT
* * * *
970651 AGAAAATATAGCCATGTTAGTAATAGCTTTAGTATC-AACGTATACACTAAATGTAGACAATTAA
64 AGATAATGTAGCCATGTTAGTGATAGCTTTAGTATCTAA-GTATACACTAAATGTAGATAATT-A
*
970715 GCCATGTTAGTAATAGCTTTAGTAT--C-----CACTAAATGTAGATAATGTAGCCATGTTAGTG
127 GCCATGTTAGTGATAGCTTTAGTATCACGTATACACTAAATGTAGATAATGTAGCCATGTTAGTG
* *
970773 ATAGCTTCAGTATCAACGTATACACTAAATGTAGATAATATAGCCATGTTGGTGATAGCTTAAGT
192 ATAGCTTCAGTATCAACGTATACACTAAATGTAGATAATATAGCCATGTTAGTGATAGCTTTAGT
*
970838 ATCCAACGTATAC
257 AT-CAAGGTATAC
* * *
970851 ACTAAATATAGACAATTTAGCCATGTTAGTGATAGCT-TCAGTATCAACGTATACACTAAATGTA
1 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTAT-AGTATCAAAGTATACACTAAATGTA
* * * *
970915 GATAATTTAGCCATGTTAGTGATAGATTTAGTATCCACGTATACACTAAATGTAGATAATTTAGC
65 GATAATGTAGCCATGTTAGTGATAGCTTTAGTATCTAAGTATACACTAAATGTAGATAA-TTAGC
*
970980 CATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGA
129 CATGTTAGTGATAGCTTTAGTATC-ACGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGA
* * *
971045 TAGCTTCAGTGTCCACATATACACTAAATGTAGATAATATAGCCATTTTAGTGATAGCGTGATAG
193 TAGCTTCAGTATCAACGTATACACTAAATGTAGATAATATAGCCA---T-GT--TA--GTGATAG
* * * *
971110 ATTTTGTATCCAGGTACAC
250 CTTTAGTATCAAGGTATAC
* *
971129 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTATAGTATCTAAGTATACACTAAATGTAA
1 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTATAGTATCAAAGTATACACTAAATGTAG
*
971194 ATAATGTAGCCATGTTAGTGATAGCTTTAGTATGCT-CGTATACACTAAATGTAGATAATATAGC
66 ATAATGTAGCCATGTTAGTGATAGCTTTAGTAT-CTAAGTATACACTAAATGTAGATAAT-TAGC
* * *
971258 CATGTTAGTGATAGATTTAGTATCCACGTATACATTAAATGTAGATAATTTAGCCATGTTAGTGA
129 CATGTTAGTGATAGCTTTAGTAT-CACGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGA
* * *
971323 TAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATATAGCCATGTTAGTGATAGCTTTAGTA
193 TAGCTTCAGTATCAACGTATACACTAAATGTAGATAATATAGCCATGTTAGTGATAGCTTTAGTA
*
971388 TCTAGGTATAC
258 TCAAGGTATAC
* * * * *
971399 ACTAAATGTAGATAATGTAGCCATTTTAGTGATAGCGTGATAGATTTTGTATCCAGGTACACACT
1 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGC-T-AT--A----GTATCAAAGTATACACT
*
971464 AAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTTGTATCTAAGTATACACTAAATGTAGATA
58 AAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATCTAAGTATACACTAAATGTAGATA
* * *
971529 ATGTAGCCATGTTAGTGATAGCTTTAGTATGCACGTATACACTTAATATAGATAATATAGCCATG
123 AT-TAGCCATGTTAGTGATAGCTTTAGTAT-CACGTATACACTAAATGTAGATAATGTAGCCATG
971594 TTAGTGATAGCTT
186 TTAGTGATAGCTT
971607 TAGGATTGCA
Statistics
Matches: 665, Mismatches: 58, Indels: 50
0.86 0.08 0.06
Matches are distributed among these distances:
262 53 0.08
263 81 0.12
264 3 0.00
270 56 0.08
271 76 0.11
272 4 0.01
274 4 0.01
275 3 0.00
277 4 0.01
278 365 0.55
279 16 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (268 bp):
ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGCTATAGTATCAAAGTATACACTAAATGTAG
ATAATGTAGCCATGTTAGTGATAGCTTTAGTATCTAAGTATACACTAAATGTAGATAATTAGCCA
TGTTAGTGATAGCTTTAGTATCACGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGATAG
CTTCAGTATCAACGTATACACTAAATGTAGATAATATAGCCATGTTAGTGATAGCTTTAGTATCA
AGGTATAC
Found at i:971622 original size:54 final size:54
Alignment explanation
Indices: 971459--971630 Score: 240
Period size: 54 Copynumber: 3.2 Consensus size: 54
971449 ATCCAGGTAC
* * *
971459 ACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTTGTATCT-AAGTAT
1 ACACTAAATATAGATAATGTAGCCATGTTAGTGATAGCTTTAGTAT-TGCAGTAT
*
971513 ACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTA-TGCACGTAT
1 ACACTAAATATAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATTGCA-GTAT
* * * *
971567 ACACTTAATATAGATAATATAGCCATGTTAGTGATAGCTTTAGGATTGCATTAT
1 ACACTAAATATAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATTGCAGTAT
971621 ACACTAAATA
1 ACACTAAATA
971631 AAGAACAGGT
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 101 0.94
55 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (54 bp):
ACACTAAATATAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATTGCAGTAT
Found at i:971679 original size:332 final size:328
Alignment explanation
Indices: 970589--971609 Score: 1505
Period size: 332 Copynumber: 3.1 Consensus size: 328
970579 ATAGTGATCT
* * * *
970589 ACTAAATGTAGATATTATAGCCATGTTAGTGATAGCTTCAGTGTCCACGTATACACTAAAT-TAG
1 ACTAAATGTAGATAATATAGCCATGTTAGTGATAGATTTAGTATCCACGTATACACTAAATGTAG
* * * * * *
970653 AAAATATAGCCATGTTAGTAATAGCTTTAGTATCAACGTATACACTAAATGTAGACAATTAAGCC
66 ATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATT-AGCC
* *
970718 ATGTTAGTAATAGCTTTAGTATC-----CACTAAATGTAGATAATGTAGCCATGTTAGTGATAGC
130 ATGTTAGTGATAGCTTTAGTATCATATACACTAAATGTAGATAATGTAGCCATTTTAGTGATAGC
* * * * * *
970778 -T--T-CA----GTATCAACGTATACACTAAATGTAGATAATATAGCCATGTTGGTGATAGCTTA
195 GTGATAGATTTTGTATCCAGGTACACACTAAATGTAGATAATATAGCCATGTTAGTGATAGCTTT
* * * * *
970835 AGTATCCAACGTATACACTAAATATAGACAATTTAGCCATGTTAGTGATAGCTTCAGTAT-CAAC
260 AGTATCTAA-GTATACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATGC-AC
970899 GTATAC
323 GTATAC
*
970905 ACTAAATGTAGATAATTTAGCCATGTTAGTGATAGATTTAGTATCCACGTATACACTAAATGTAG
1 ACTAAATGTAGATAATATAGCCATGTTAGTGATAGATTTAGTATCCACGTATACACTAAATGTAG
970970 ATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATGTAGCC
66 ATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAAT-TAGCC
* * *
971035 ATGTTAGTGATAGCTTCAGTGTCCACATATACACTAAATGTAGATAATATAGCCATTTTAGTGAT
130 ATGTTAGTGATAGCTTTAGTAT---CATATACACTAAATGTAGATAATGTAGCCATTTTAGTGAT
*
971100 AGCGTGATAGATTTTGTATCCAGGTACACACTAAATGTAGATAATTTAGCCATGTTAGTGATAGC
192 AGCGTGATAGATTTTGTATCCAGGTACACACTAAATGTAGATAATATAGCCATGTTAGTGATAGC
* * *
971165 TATAGTATCTAAGTATACACTAAATGTAAATAATGTAGCCATGTTAGTGATAGCTTTAGTATGCT
257 TTTAGTATCTAAGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATGCA
971230 CGTATAC
322 CGTATAC
*
971237 ACTAAATGTAGATAATATAGCCATGTTAGTGATAGATTTAGTATCCACGTATACATTAAATGTAG
1 ACTAAATGTAGATAATATAGCCATGTTAGTGATAGATTTAGTATCCACGTATACACTAAATGTAG
971302 ATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATATAGCC
66 ATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAAT-TAGCC
971367 ATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATGTAGCCATTTTAGTGAT
130 ATGTTAGTGATAGCTTTAGTATC-A--TATACACTAAATGTAGATAATGTAGCCATTTTAGTGAT
*
971432 AGCGTGATAGATTTTGTATCCAGGTACACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGC
192 AGCGTGATAGATTTTGTATCCAGGTACACACTAAATGTAGATAATATAGCCATGTTAGTGATAGC
*
971497 TTTTGTATCTAAGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATGCA
257 TTTAGTATCTAAGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATGCA
971562 CGTATAC
322 CGTATAC
* * *
971569 ACTTAATATAGATAATATAGCCATGTTAGTGATAGCTTTAG
1 ACTAAATGTAGATAATATAGCCATGTTAGTGATAGATTTAG
971610 GATTGCATTA
Statistics
Matches: 638, Mismatches: 45, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
316 56 0.09
317 79 0.12
318 1 0.00
320 1 0.00
325 35 0.05
326 1 0.00
328 1 0.00
329 2 0.00
330 1 0.00
332 406 0.64
333 55 0.09
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (328 bp):
ACTAAATGTAGATAATATAGCCATGTTAGTGATAGATTTAGTATCCACGTATACACTAAATGTAG
ATAATTTAGCCATGTTAGTGATAGCTTTAGTATCTAGGTATACACTAAATGTAGATAATTAGCCA
TGTTAGTGATAGCTTTAGTATCATATACACTAAATGTAGATAATGTAGCCATTTTAGTGATAGCG
TGATAGATTTTGTATCCAGGTACACACTAAATGTAGATAATATAGCCATGTTAGTGATAGCTTTA
GTATCTAAGTATACACTAAATGTAGATAATGTAGCCATGTTAGTGATAGCTTTAGTATGCACGTA
TAC
Found at i:985760 original size:31 final size:30
Alignment explanation
Indices: 985722--985805 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
985712 TTAATGCCCT
* * *
985722 GTTGGATATTTGAATATCCAACTGATTGACG
1 GTTGGATATTTAAATATCCAACT-ACTGACA
* * *
985753 GTTGGATATTAAAAATATCCAACTCCTGTCA
1 GTTGGATATT-TAAATATCCAACTACTGACA
985784 GTTGGATATTTAAATATCCAAC
1 GTTGGATATTTAAATATCCAAC
985806 ACCTGCTGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 11 0.24
31 23 0.51
32 11 0.24
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (30 bp):
GTTGGATATTTAAATATCCAACTACTGACA
Found at i:989034 original size:437 final size:437
Alignment explanation
Indices: 988191--989034 Score: 1271
Period size: 437 Copynumber: 1.9 Consensus size: 437
988181 GGTCTTTAGA
* * *
988191 TTGAGATACAAATGTTTGAATATTTTAGGGGCCAGCCCTTTAGATCCTTAATGGGGACAGACATT
1 TTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAAAGGGGACAGACATT
* * * * * *
988256 GGTGTTTTGATTGATGGAATCGATTAGAATCATCAACGCAAGCATTTTCTCTTCTACAAAGCTAA
66 GGTGTTTTGATTAATGGAATAGATAAAAATCATCAACGCAAACATTTTCTCTTCAACAAAGCTAA
* *
988321 ACAAAATATGTCTCCGTTTCTAGATATATTGCGTCAAAGTTTAAGTACTTTCGCCCCTAAAAATC
131 ACAAAATATATCTCCGTTTCTAGATATATTGCGTCAAAGTTTAAGTACTTTCGCCCCTAAAAATA
* *
988386 CCTAATTACGTAATGAATGGGCGTGGCAAAGATTTTACCTGATAAATATTGTTACGATCAACAAC
196 CCTAATTACGTAATAAATGGGCGTGGCAAAGATTTTACCTGATAAATATCGTTACGATCAACAAC
* *
988451 TTTGCTTCTATAATGCATTACAAAATCTTTATCGTTTTTAAGTTATTTGTAATAGAGTTTACGAT
261 TTTGCTTCTATAATGCATTACAAAATCTTTATCATTTTTAAGTTATTTGTAATAGAGTTTACGAG
* * ** * * * **
988516 TGTGTTGGCCCCTAGTTCAAGGGGCCAGCCCTTATTTCCTTAATTCATTCGAAAGGTCTTACGAT
326 TATCTTGGCAACTAATTAAAGGGGCCAGCCCCTATTTCCTTAATTCATTCGAAAGAACTTACGAT
* *
988581 TTGTAACATTTTTTGTTCTTACATTTATCTAGAATTGTTGTTCATTT
391 TTCTAACATCTTTTGTTCTTACATTTATCTAGAATTGTTGTTCATTT
988628 TTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAAAGGGGACAGACATT
1 TTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAAAGGGGACAGACATT
* * * *
988693 GGTGTTTTGATTAATGGAATATATAAAAATCATCAATGCAAACATTTTCTCTTCAACAATGCTTA
66 GGTGTTTTGATTAATGGAATAGATAAAAATCATCAACGCAAACATTTTCTCTTCAACAAAGCTAA
* *
988758 ACAAACTATATCTCC-TTCTCTAGATATATTGCGTCAAAGTTTCAGTACTTTCGCCCCTAAAAAT
131 ACAAAATATATCTCCGTT-TCTAGATATATTGCGTCAAAGTTTAAGTACTTTCGCCCCTAAAAAT
* * *
988822 ATCTAATTACGTAATAAATGGGCGTGGCAACGATTTTACCTGATAGATATCGTTACGATCAACAA
195 ACCTAATTACGTAATAAATGGGCGTGGCAAAGATTTTACCTGATAAATATCGTTACGATCAACAA
988887 CTTTGCTTCTATAATGCATTACAAAATCTTTATCATTTTTAAGTTATTTGTAATAGAGTTTACGA
260 CTTTGCTTCTATAATGCATTACAAAATCTTTATCATTTTTAAGTTATTTGTAATAGAGTTTACGA
* * * **
988952 GTATCTTGGCAACTAATTAAAGGGGCCAGCCCCTATTT-CTTGATTTTATTGGAAAGAACTTTTG
325 GTATCTTGGCAACTAATTAAAGGGGCCAGCCCCTATTTCCTT-AATTCATTCGAAAGAACTTACG
*
989016 ATTCTCTACCA-CTTTTGTT
389 ATT-TCTAACATCTTTTGTT
989035 ATATATATTT
Statistics
Matches: 363, Mismatches: 41, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
436 5 0.01
437 353 0.97
438 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (437 bp):
TTGAGATACAAATGATTGAATATTTTAGGGGCCAGCCCTCTAGATCCTTAAAGGGGACAGACATT
GGTGTTTTGATTAATGGAATAGATAAAAATCATCAACGCAAACATTTTCTCTTCAACAAAGCTAA
ACAAAATATATCTCCGTTTCTAGATATATTGCGTCAAAGTTTAAGTACTTTCGCCCCTAAAAATA
CCTAATTACGTAATAAATGGGCGTGGCAAAGATTTTACCTGATAAATATCGTTACGATCAACAAC
TTTGCTTCTATAATGCATTACAAAATCTTTATCATTTTTAAGTTATTTGTAATAGAGTTTACGAG
TATCTTGGCAACTAATTAAAGGGGCCAGCCCCTATTTCCTTAATTCATTCGAAAGAACTTACGAT
TTCTAACATCTTTTGTTCTTACATTTATCTAGAATTGTTGTTCATTT
Found at i:989414 original size:179 final size:179
Alignment explanation
Indices: 989114--989450 Score: 543
Period size: 179 Copynumber: 1.9 Consensus size: 179
989104 AATTCGTACT
* * *
989114 TAATTTTCGAGCCTAGACGAGCTCATAGAAATGGCGCCACTGGCGCCAAAAAACTACATTGTGCA
1 TAATTTTCGAGCCTAGACGAGCTCAAAGAAATGGCGCAACTGGCGCCAAAAAACTACATAGTGCA
* * * *
989179 CAACTTCAAACTATGGTCTACCTATCCTGAAAATTTTATATTCATATCTCTAATAGTTTCTGAGA
66 CAACTTCAAACTATAGACTACCCATCCTGAAAATTTCATATTCATATCTCTAATAGTTTCTGAGA
989244 TCAGCTCTGCACAAAATAGGTCGTAAAATTTTGAATGAAAATTCACACC
131 TCAGCTCTGCACAAAATAGGTCGTAAAATTTTGAATGAAAATTCACACC
* * *
989293 TAATTTTCGTGCCTAGGCGAGCTCAAAGAAATGGCGCAACTGGCG-TAAAACAA-TACAATAGTG
1 TAATTTTCGAGCCTAGACGAGCTCAAAGAAATGGCGCAACTGGCGCCAAAA-AACTAC-ATAGTG
*
989356 CACAACTTCAAACTATAGACTACCCATCCTGAAAATTTCGTATTCATATCTCTAATAGTTTCTGA
64 CACAACTTCAAACTATAGACTACCCATCCTGAAAATTTCATATTCATATCTCTAATAGTTTCTGA
989421 GATCAGCTCTGCACAAAATAGGTCGTAAAA
129 GATCAGCTCTGCACAAAATAGGTCGTAAAA
989451 AAATAGAAAA
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
178 7 0.05
179 138 0.95
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (179 bp):
TAATTTTCGAGCCTAGACGAGCTCAAAGAAATGGCGCAACTGGCGCCAAAAAACTACATAGTGCA
CAACTTCAAACTATAGACTACCCATCCTGAAAATTTCATATTCATATCTCTAATAGTTTCTGAGA
TCAGCTCTGCACAAAATAGGTCGTAAAATTTTGAATGAAAATTCACACC
Found at i:989698 original size:59 final size:59
Alignment explanation
Indices: 989607--989729 Score: 237
Period size: 59 Copynumber: 2.1 Consensus size: 59
989597 TGTGGAAAAA
*
989607 AATAATAATAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
1 AATAATAAGAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
989666 AATAATAAGAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
1 AATAATAAGAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
989725 AATAA
1 AATAA
989730 AAACTTATTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (59 bp):
AATAATAAGAAGAAACAGTACGAAAACAATAAGGTCTTCCGTTGGAAACGGAAGACCTT
Found at i:991209 original size:20 final size:20
Alignment explanation
Indices: 991184--991235 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
991174 CGCATTATCT
*
991184 TACAACACTCGCTTTCATTG
1 TACAACAGTCGCTTTCATTG
991204 TACAACAGTCGCTTTCATTG
1 TACAACAGTCGCTTTCATTG
991224 TACAACAGTCGC
1 TACAACAGTCGC
991236 AAATAGACGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (20 bp):
TACAACAGTCGCTTTCATTG
Found at i:1000399 original size:20 final size:20
Alignment explanation
Indices: 1000374--1000418 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1000364 TTAAACCGAC
1000374 TGTGCAAGAGATATCAATCT
1 TGTGCAAGAGATATCAATCT
*
1000394 TGTGCAAGCGATATCAATCT
1 TGTGCAAGAGATATCAATCT
1000414 TGTGC
1 TGTGC
1000419 CATCACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTGCAAGAGATATCAATCT
Found at i:1001009 original size:13 final size:13
Alignment explanation
Indices: 1000991--1001015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1000981 GTTTTCTGCA
1000991 ATTTTTTCTAAAG
1 ATTTTTTCTAAAG
1001004 ATTTTTTCTAAA
1 ATTTTTTCTAAA
1001016 AATCAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTTTTTCTAAAG
Found at i:1005238 original size:18 final size:18
Alignment explanation
Indices: 1005217--1005293 Score: 102
Period size: 18 Copynumber: 4.3 Consensus size: 18
1005207 CTTATCAGCT
*
1005217 GAGTCTGACTCCTCACTC
1 GAGTCGGACTCCTCACTC
*
1005235 GAGTCGGACTCGC-CACTT
1 GAGTCGGACTC-CTCACTC
*
1005253 GAGTCGGACTCCTCACTT
1 GAGTCGGACTCCTCACTC
*
1005271 GAGTCGGACTCATCACTC
1 GAGTCGGACTCCTCACTC
1005289 GAGTC
1 GAGTC
1005294 AAACATATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
17 1 0.02
18 51 0.96
19 1 0.02
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.25
Consensus pattern (18 bp):
GAGTCGGACTCCTCACTC
Found at i:1005577 original size:22 final size:22
Alignment explanation
Indices: 1005545--1005587 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1005535 TTATGGAAAA
*
1005545 TTTGGGTTTACTCCGGGTTTAG
1 TTTGGGCTTACTCCGGGTTTAG
*
1005567 TTTGGGCTTACTCGGGGTTTA
1 TTTGGGCTTACTCCGGGTTTA
1005588 CTTGGAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTGGGCTTACTCCGGGTTTAG
Found at i:1007494 original size:2 final size:2
Alignment explanation
Indices: 1007487--1007545 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
1007477 TGTGTATCTC
1007487 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
1007529 AG AA AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
1007546 TACATTAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1014114 original size:81 final size:80
Alignment explanation
Indices: 1013969--1014131 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 80
1013959 ATGCTTTTTA
*
1013969 ATTGCAACAAAATCATGAGCATCGGCTTAAAAAAAAACAAGAGTTTGTATCATTTGCATTCTCTT
1 ATTGCAACAAAATCATGAGCATCGGCTTAAAAAAAAACAACAGTTTGTATCATTTGCATTCTCTT
1014034 GTTCGGTTTCATTGG
66 GTTCGGTTTCATTGG
1014049 ATTGCAACAAAATCATGAGCATCGGCTTAAAAAAAGAACAACAGTTTGTATCATTTGCATTCTCT
1 ATTGCAACAAAATCATGAGCATCGGCTTAAAAAAA-AACAACAGTTTGTATCATTTGCATTCTCT
1014114 TGTTCGGTTTCATTGG
65 TGTTCGGTTTCATTGG
1014130 AT
1 AT
1014132 GCACAGTCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 35 0.43
81 46 0.57
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (80 bp):
ATTGCAACAAAATCATGAGCATCGGCTTAAAAAAAAACAACAGTTTGTATCATTTGCATTCTCTT
GTTCGGTTTCATTGG
Found at i:1031524 original size:167 final size:166
Alignment explanation
Indices: 1030470--1031600 Score: 1429
Period size: 166 Copynumber: 6.8 Consensus size: 166
1030460 GTGAATATGC
* * * * * * * *
1030470 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCGCA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1030535 ATATGGCATGCCTAAACAAATAGTGTGTTACAATTTCAAGCATCTGCTATAAATACACTGTAGCT
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAAT--A--GT---T
* *
1030600 GCTGAGAAATCTTTGAGGAAAATTTGTTTGAAAATTTTGGC-T
124 GCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* *
1030642 AAAATAAACAAAGTAC-TCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCTAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * * * * *
1030706 GATATAGCATG-CTTTCACAAACACTGTGTAAAAATTTCAAGCATCTCCGATAAATAGCTGCTGA
65 AATATGGCATGCCTAT-ACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGA
* * *
1030770 GAAATCTTTGAAGAAAATTTTTTTGAAAATTTTAGCAA
129 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* * *
1030808 AAAATAAAC--AGTCATTATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1030871 ATATGGCATGCCAAAACAAATACTGTGTTAAAATTTTAAGCATCTGCGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
1030936 AATCTTTGACGAAAATTTGTTTGAAAATGTTGGCCAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGG-CAA
* * ** * **
1030973 AAAA-AACCAAAGTCGTCATTTAACAGGAAGTGGACACCCGATTGATACAAAAATATATATCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* * * *
1031037 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTTAAGCATCTGCGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
1031102 AATCTTTGACGAAAATTTGTTTGAAAATGTTGGCAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* * * *
1031138 AAAATAAACAAAGTCGTCATTTAAACAAGAAGTTGAAG-CCTGATTAGTACAAAAATACATCCCA
1 AAAATAAACAAAGTCGTCATTT-AACAGGAAGTTGACGTCC-GATTGGTACAAAAATATATCCCA
* * *
1031202 CGATATCGCATGCCTATACAAATACTGTG-TACAAATTTCAAGCATCTTCGATAAACT--TTGCT
64 CAATATGGCATGCCTATACAAATACTGTGTTA-AAATTTCAAGCATCTGCGATAAA-TAGTTGCT
* * * * **
1031264 GAGAATTCTTTGACGGAAATTTGTTTGAAATTTTTTGCTT
127 GAGAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
* * *
1031304 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATAACCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
* *
1031369 ATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
*
1031434 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGG-CAA
* *
1031471 AAAATAACCAAAGTCGTTATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
*
1031536 ATATGGCATGCCT-TAACAAACACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
66 ATATGGCATGCCTAT-ACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
1031600 A
130 A
1031601 TAAATGCGAC
Statistics
Matches: 840, Mismatches: 100, Indels: 43
0.85 0.10 0.04
Matches are distributed among these distances:
163 1 0.00
164 134 0.16
165 137 0.16
166 272 0.32
167 195 0.23
168 2 0.00
170 1 0.00
171 2 0.00
172 95 0.11
173 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCAA
Found at i:1032271 original size:65 final size:65
Alignment explanation
Indices: 1032109--1032448 Score: 477
Period size: 65 Copynumber: 5.2 Consensus size: 65
1032099 TATTCTACAT
** * *
1032109 CTGTCCAAATCCTCTTGAATACCTATT-TTCCTTAAATGGAATACAACCCAATAAAAAATTGGAC
1 CTGTCCAAATCCTCTTGGCTACCT-TTCTTCCTTCACTGGAATACAACCCAAT-AAAAATTGGAC
1032173 AC
64 AC
* * * *
1032175 CTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCGCTGGAATACAAACCAATAAAAATTGGACTA
1 CTGTCCAAATCCTCTTGGCTACCTTTCTTCCTTCACTGGAATACAACCCAATAAAAATTGGAC-A
1032240 -
65 C
* * *
1032240 CTGTCCAAATCCTCTTGGTTACCTTTTTTCCTTCACTGGAATACAACCCAATAGAAATTGGACAC
1 CTGTCCAAATCCTCTTGGCTACCTTTCTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
* * * *
1032305 CTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCACTGGAATACAAACCAATAGAAATTGGACAC
1 CTGTCCAAATCCTCTTGGCTACCTTTCTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
* * *
1032370 CTGTCCAAATCCTCTTGGTTACCTTTCTTCCTTCACTGAAATACAACCCAATATAAATTGGACAC
1 CTGTCCAAATCCTCTTGGCTACCTTTCTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
1032435 CTGTCCAAATCCTC
1 CTGTCCAAATCCTC
1032449 NNNNNNNNNN
Statistics
Matches: 245, Mismatches: 26, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
64 1 0.00
65 202 0.82
66 42 0.17
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (65 bp):
CTGTCCAAATCCTCTTGGCTACCTTTCTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
Found at i:1032344 original size:130 final size:130
Alignment explanation
Indices: 1032109--1032448 Score: 556
Period size: 130 Copynumber: 2.6 Consensus size: 130
1032099 TATTCTACAT
** * * *
1032109 CTGTCCAAATCCTCTTGAATACCTATTTTCCTTAAATGGAATACAACCCAATAAAAAATTGGACA
1 CTGTCCAAATCCTCTTGGTTACCTTTTTTCCTTCACTGGAATACAACCCAAT-AAAAATTGGACA
*
1032174 CCTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCGCTGGAATACAAACCAATAAAAATTGGACT
65 CCTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCACTGGAATACAAACCAATAAAAATTGGAC-
1032239 A-
129 AC
*
1032240 CTGTCCAAATCCTCTTGGTTACCTTTTTTCCTTCACTGGAATACAACCCAATAGAAATTGGACAC
1 CTGTCCAAATCCTCTTGGTTACCTTTTTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
*
1032305 CTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCACTGGAATACAAACCAATAGAAATTGGACAC
66 CTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCACTGGAATACAAACCAATAAAAATTGGACAC
* * *
1032370 CTGTCCAAATCCTCTTGGTTACCTTTCTTCCTTCACTGAAATACAACCCAATATAAATTGGACAC
1 CTGTCCAAATCCTCTTGGTTACCTTTTTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
1032435 CTGTCCAAATCCTC
66 CTGTCCAAATCCTC
1032449 NNNNNNNNNN
Statistics
Matches: 197, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
129 1 0.01
130 149 0.76
131 47 0.24
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (130 bp):
CTGTCCAAATCCTCTTGGTTACCTTTTTTCCTTCACTGGAATACAACCCAATAAAAATTGGACAC
CTGTCCAAATCCTCCTGGCTATCTTTCTTCCTTCACTGGAATACAAACCAATAAAAATTGGACAC
Found at i:1034173 original size:177 final size:176
Alignment explanation
Indices: 1033876--1034229 Score: 672
Period size: 177 Copynumber: 2.0 Consensus size: 176
1033866 CCTCTATCCC
*
1033876 CATATTGCAAGTTATTCTTCCTGGAATGGTGTTTGCGTTCAGACATTCTCTGAAATATTCCTTAA
1 CATATTGCAAGTTATTCTTCCTGGAATGGTGTTTGCGTTCAGACATTCTCTGAAATATCCCTTAA
1033941 CTTCCTCCAGTTCAGCCTCCGTCCATTTTATTCATTCTGCAATGAAACAAATTTGTACATCACAT
66 CTTCCTCCAGTTCAGCCTCCGTCCATTTTATTCATTCTGCAATGAAACAAATTTGTACATCACAT
*
1034006 AAACATATGTTCATTAAATAAAGCTAGAAAATAAGATAACTCAAAT
131 AAACATATGTTAATTAAATAAAGCTAGAAAATAAGATAACTCAAAT
1034052 CNATATTGCAAGTTATTCTTCCTGGAATGGTGTTTGCGTTCAGACATTCTCTGAAATATCCCTTA
1 C-ATATTGCAAGTTATTCTTCCTGGAATGGTGTTTGCGTTCAGACATTCTCTGAAATATCCCTTA
1034117 ACTTCCTCCAGTTCAGCCTCCGTCCATTTTATTCATTCTGCAATGAAACAAATTTGTACATCACA
65 ACTTCCTCCAGTTCAGCCTCCGTCCATTTTATTCATTCTGCAATGAAACAAATTTGTACATCACA
*
1034182 TAAACATATGTTAATTAAATAAAGCTAGAAAATAAGATCACTCAAAT
130 TAAACATATGTTAATTAAATAAAGCTAGAAAATAAGATAACTCAAAT
1034229 C
1 C
1034230 TACACCACTT
Statistics
Matches: 174, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
176 1 0.01
177 173 0.99
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (176 bp):
CATATTGCAAGTTATTCTTCCTGGAATGGTGTTTGCGTTCAGACATTCTCTGAAATATCCCTTAA
CTTCCTCCAGTTCAGCCTCCGTCCATTTTATTCATTCTGCAATGAAACAAATTTGTACATCACAT
AAACATATGTTAATTAAATAAAGCTAGAAAATAAGATAACTCAAAT
Found at i:1037264 original size:17 final size:17
Alignment explanation
Indices: 1037242--1037285 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
1037232 TTGATAACGG
*
1037242 GACGTTTCGCTCCTATA
1 GACGTTTCGCTCCTAAA
1037259 GACGTTTCGCTCCTAAA
1 GACGTTTCGCTCCTAAA
*
1037276 GACCTTTCGC
1 GACGTTTCGC
1037286 GCTGAAACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (17 bp):
GACGTTTCGCTCCTAAA
Found at i:1037330 original size:13 final size:14
Alignment explanation
Indices: 1037303--1037335 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
1037293 CGTTTCGCAC
1037303 ATATATTATTTATT
1 ATATATTATTTATT
1037317 ATATATTA-TTATT
1 ATATATTATTTATT
1037330 ATATAT
1 ATATAT
1037336 ATTGCGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATATTATTTATT
Found at i:1038246 original size:17 final size:15
Alignment explanation
Indices: 1038204--1038252 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1038194 GCGCGTAACA
1038204 TCTCGGGGCGAAACG
1 TCTCGGGGCGAAACG
* *
1038219 TCTCGGAGCGAAAGG
1 TCTCGGGGCGAAACG
*
1038234 TCTTTCGGGGCGAACCG
1 TC--TCGGGGCGAAACG
1038251 TC
1 TC
1038253 CCGCATTCGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
17 12 0.44
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.18
Consensus pattern (15 bp):
TCTCGGGGCGAAACG
Found at i:1044134 original size:27 final size:27
Alignment explanation
Indices: 1044094--1044175 Score: 137
Period size: 27 Copynumber: 3.0 Consensus size: 27
1044084 CATACTACTC
1044094 TGTCGTTAAATTACTTAACTCAAAATT
1 TGTCGTTAAATTACTTAACTCAAAATT
* *
1044121 TGTCGTCAATTTACTTAACTCAAAATT
1 TGTCGTTAAATTACTTAACTCAAAATT
*
1044148 TGTCGTTAAATTACTTAACTCAACATT
1 TGTCGTTAAATTACTTAACTCAAAATT
1044175 T
1 T
1044176 CCTTTACAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (27 bp):
TGTCGTTAAATTACTTAACTCAAAATT
Found at i:1067761 original size:23 final size:23
Alignment explanation
Indices: 1067735--1067810 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
1067725 TGTCATATCC
1067735 TAATACTGGAAGTTATTTTCAAT
1 TAATACTGGAAGTTATTTTCAAT
** * * *
1067758 TAATA-T-GCCGTACAATGTCATAT
1 TAATACTGGAAGT-TATTTTCA-AT
1067781 CCTAATACTGGAAGTTATTTTCAAT
1 --TAATACTGGAAGTTATTTTCAAT
1067806 TAATA
1 TAATA
1067811 TGCCGTACAA
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
21 3 0.08
22 6 0.16
23 12 0.32
25 7 0.19
26 6 0.16
27 3 0.08
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (23 bp):
TAATACTGGAAGTTATTTTCAAT
Found at i:1067880 original size:48 final size:48
Alignment explanation
Indices: 1067664--1067879 Score: 360
Period size: 48 Copynumber: 4.5 Consensus size: 48
1067654 TTTCAGTAAT
*
1067664 ATATGCCGTACAATGTCGTATCCTAATACTGGAAGTCATTTCCAATGA
1 ATATGCCGTACAATGTCATATCCTAATACTGGAAGTCATTTCCAATGA
* * *
1067712 ATATGCCGTACAATGTCATATCCTAATACTGGAAGTTATTTTCAATTA
1 ATATGCCGTACAATGTCATATCCTAATACTGGAAGTCATTTCCAATGA
* * *
1067760 ATATGCCGTACAATGTCATATCCTAATACTGGAAGTTATTTTCAATTA
1 ATATGCCGTACAATGTCATATCCTAATACTGGAAGTCATTTCCAATGA
*
1067808 ATATGCCGTACAATGTCATATCCTTATACTGGAAGTCATTTCCAATGA
1 ATATGCCGTACAATGTCATATCCTAATACTGGAAGTCATTTCCAATGA
1067856 ATATGCCGTACAATGTCATATCCT
1 ATATGCCGTACAATGTCATATCCT
1067880 TTTACTTGTT
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 160 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (48 bp):
ATATGCCGTACAATGTCATATCCTAATACTGGAAGTCATTTCCAATGA
Found at i:1071693 original size:20 final size:20
Alignment explanation
Indices: 1071670--1071709 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1071660 TTTATTAAGA
*
1071670 GAAGATGTGATTTTTTTTGT
1 GAAGATGTGAGTTTTTTTGT
*
1071690 GAAGATGTGGGTTTTTTTGT
1 GAAGATGTGAGTTTTTTTGT
1071710 ATCACGGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (20 bp):
GAAGATGTGAGTTTTTTTGT
Found at i:1079756 original size:18 final size:19
Alignment explanation
Indices: 1079720--1079757 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1079710 TCCAGTGAAC
1079720 TTTTAAACAATGACATATA
1 TTTTAAACAATGACATATA
1079739 TTTTAAATC-ATG-CATATA
1 TTTTAAA-CAATGACATATA
1079757 T
1 T
1079758 GTTTGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 10 0.56
20 1 0.06
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (19 bp):
TTTTAAACAATGACATATA
Found at i:1092092 original size:4 final size:4
Alignment explanation
Indices: 1092083--1092108 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1092073 AGAACAGTTT
1092083 ACAG ACAG ACAG ACAG ACAG ACAG AC
1 ACAG ACAG ACAG ACAG ACAG ACAG AC
1092109 GGAGAGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.23, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:1092120 original size:16 final size:16
Alignment explanation
Indices: 1092083--1092128 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
1092073 AGAACAGTTT
*
1092083 ACAGACAGACAGACAG
1 ACAGACAGACGGACAG
*
1092099 ACAGACAGACGGAGAG
1 ACAGACAGACGGACAG
* *
1092115 AGAGACAAACGGAC
1 ACAGACAGACGGAC
1092129 GACGGACATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.22, G:0.30, T:0.00
Consensus pattern (16 bp):
ACAGACAGACGGACAG
Found at i:1095530 original size:13 final size:13
Alignment explanation
Indices: 1095512--1095536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1095502 GGGGGCAGAC
1095512 TATAATAGTTATA
1 TATAATAGTTATA
1095525 TATAATAGTTAT
1 TATAATAGTTAT
1095537 CAAAACACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TATAATAGTTATA
Found at i:1096212 original size:13 final size:13
Alignment explanation
Indices: 1096194--1096218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1096184 AATTACACTC
1096194 AATTATCATTACA
1 AATTATCATTACA
1096207 AATTATCATTAC
1 AATTATCATTAC
1096219 CTCATCCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTATCATTACA
Found at i:1101885 original size:172 final size:172
Alignment explanation
Indices: 1101579--1102030 Score: 798
Period size: 172 Copynumber: 2.6 Consensus size: 172
1101569 GTATCAAGTC
* ** *
1101579 TATCGACCAAGGCT-ATTTAGGAACTTGACCAAGGTATTAGTGATATAAACATTTGGTATAAATT
1 TATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAATT
1101643 TTATGAAAATCCGTCAAAATATGTAGGCATGAGAGCGCTTACAAGGTCAACTTTTGGATAAAACG
66 TTATGAAAATCCGTCAAAATATGTAGGCATGAGAGCGCTTACAAGGTCAACTTTTGGATAAAACG
1101708 GAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAAAG
131 GAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAAAG
*
1101750 TATCGACCAATGCTGATTTTCGAACTTGACCACGGTATTAGTGGTATAAACATTTGGTATAAATT
1 TATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAATT
* *
1101815 TTATGAAAATCCGTCAAAATGTGTAGGCATGAGAGCGCTTACAAGGTCAATTTTTGGATAAAACG
66 TTATGAAAATCCGTCAAAATATGTAGGCATGAGAGCGCTTACAAGGTCAACTTTTGGATAAAACG
1101880 GAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAAAG
131 GAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAAAG
*
1101922 TATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTGGGTATAAATT
1 TATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAATT
* * *
1101987 TAATGAAAATCCCTCAAAATTTGTAGGCATGAGAGCGCTTACAA
66 TTATGAAAATCCGTCAAAATATGTAGGCATGAGAGCGCTTACAA
1102031 AAAAGTGTGA
Statistics
Matches: 268, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
171 13 0.05
172 255 0.95
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (172 bp):
TATCGACCAATGCTGATTTTCGAACTTGACCAAGGTATTAGTGGTATAAACATTTGGTATAAATT
TTATGAAAATCCGTCAAAATATGTAGGCATGAGAGCGCTTACAAGGTCAACTTTTGGATAAAACG
GAGTCATTATTGTGGTCAAAGTCCCATAACTCCAACAAAAAG
Found at i:1102427 original size:13 final size:13
Alignment explanation
Indices: 1102408--1102441 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1102398 GCACGATTTG
*
1102408 AAAAAAACACACAC
1 AAAAAAAAACA-AC
1102422 AAAAAAAAACAAC
1 AAAAAAAAACAAC
1102435 AAAAAAA
1 AAAAAAA
1102442 CAAGAGACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAC
Found at i:1102427 original size:14 final size:13
Alignment explanation
Indices: 1102408--1102443 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1102398 GCACGATTTG
1102408 AAAAAAACACACAC
1 AAAAAAACACA-AC
*
1102422 AAAAAAAAACAAC
1 AAAAAAACACAAC
1102435 AAAAAAACA
1 AAAAAAACA
1102444 AGAGACCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACACAAC
Found at i:1106355 original size:12 final size:12
Alignment explanation
Indices: 1106338--1106367 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1106328 ACGGAAGAGT
*
1106338 GACAGACGGACA
1 GACAGAAGGACA
1106350 GACAGAAGGACA
1 GACAGAAGGACA
1106362 GACAGA
1 GACAGA
1106368 GTGATTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.20, G:0.33, T:0.00
Consensus pattern (12 bp):
GACAGAAGGACA
Found at i:1117296 original size:2 final size:2
Alignment explanation
Indices: 1117289--1117337 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1117279 ATTTACGGTC
1117289 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1117331 AG AG AG A
1 AG AG AG A
1117338 AACGTCACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1125746 original size:16 final size:16
Alignment explanation
Indices: 1125727--1125769 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
1125717 TACTCAAATA
*
1125727 TTTGGGTACGAGTTGG
1 TTTGGGTACGAGTCGG
*
1125743 TTTGGGTGCGAGTCGG
1 TTTGGGTACGAGTCGG
*
1125759 GTTGGGTACGA
1 TTTGGGTACGA
1125770 CTTGACTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.09, G:0.47, T:0.33
Consensus pattern (16 bp):
TTTGGGTACGAGTCGG
Found at i:1135903 original size:8 final size:8
Alignment explanation
Indices: 1135892--1135937 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
1135882 GCGTCCGTCC
*
1135892 GTCCGTGT
1 GTCCGTGG
1135900 GTCCGTGG
1 GTCCGTGG
* *
1135908 GTCCTTGT
1 GTCCGTGG
1135916 GTCCGTGG
1 GTCCGTGG
*
1135924 GTCCGTGC
1 GTCCGTGG
1135932 GTCCGT
1 GTCCGT
1135938 CCGTCACACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.39, T:0.33
Consensus pattern (8 bp):
GTCCGTGG
Found at i:1135905 original size:16 final size:16
Alignment explanation
Indices: 1135884--1135942 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
1135874 AATGCCGGGC
1135884 GTCCGTCCGTCCGTGT
1 GTCCGTCCGTCCGTGT
** *
1135900 GTCCGTGGGTCCTTGT
1 GTCCGTCCGTCCGTGT
** *
1135916 GTCCGTGGGTCCGTGC
1 GTCCGTCCGTCCGTGT
1135932 GTCCGTCCGTC
1 GTCCGTCCGTC
1135943 ACACCTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.00, C:0.34, G:0.36, T:0.31
Consensus pattern (16 bp):
GTCCGTCCGTCCGTGT
Found at i:1136237 original size:172 final size:172
Alignment explanation
Indices: 1135951--1136919 Score: 1582
Period size: 172 Copynumber: 5.6 Consensus size: 172
1135941 TCACACCTTT
*
1135951 TTGTAAGCGCTTTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* *
1136016 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCTTTGGTCGATACTTTTTGTTGGAGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
* *
1136081 CTTTGACTGCAATAATGACTCTGTTTTATCCAAAAATTGACC
131 CTTTGACCGCAATAATGACTCCGTTTTATCCAAAAATTGACC
1136123 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* *
1136188 CCACTACTACCTTGGTCAAGTTCGAAAATCAGCATTGGTTGATACTTTTTGTTGGCGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
* **
1136253 CTTTGACTGCAATAATGACTCCGTTTTATCCAAAAATTGTTC
131 CTTTGACCGCAATAATGACTCCGTTTTATCCAAAAATTGACC
* *
1136295 TTGTAAGAGCTCTCATGCCTACAAATTTTGACAGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * * * *
1136360 CCACTAATACTTTGGTCAAGTTCAAAAATCAGCATTGTTCGATACTTTTTGTTGGTGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
* * * *
1136425 C-TTGGCCACAATCATGACTCCGTTTTTTTCCAAAAATTGACC
131 CTTTGACCGCAATAATGACTCCG-TTTTATCCAAAAATTGACC
1136467 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * * * *
1136532 CTACTATTACCTTGGTCAAGTTCGAAAATCAGCGTTAGTCGATACTTTTTGTTGGCGTTTTAGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
1136597 CTTTGACCGCAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTTTGACCGCAATAATGACTCCGTTTTATCCAAAAATTGACC
1136639 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * * *
1136704 CTACTATTACCTTGGTCAAGTTCGAAAATCAGCGTTAGTCGATACTTTTTGTTGGTGTTATGGGA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
* * * *
1136769 C-TTGGCCACAATCATGACTCCGTTTTTTTCCAAAAATTGACC
131 CTTTGACCGCAATAATGACTCCG-TTTTATCCAAAAATTGACC
1136811 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* *
1136876 CTACTATTACCTTGGTCAAGTTCGAAAATCAGCCTTGGTCGATA
66 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATA
1136920 GACTCGATAC
Statistics
Matches: 746, Mismatches: 48, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
171 35 0.05
172 693 0.93
173 18 0.02
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (172 bp):
TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGCGTTATGGGA
CTTTGACCGCAATAATGACTCCGTTTTATCCAAAAATTGACC
Found at i:1141181 original size:2 final size:2
Alignment explanation
Indices: 1141174--1141203 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1141164 GGCATATACA
1141174 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1141204 ATTCTGTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:1146681 original size:85 final size:85
Alignment explanation
Indices: 1146494--1147531 Score: 1545
Period size: 85 Copynumber: 12.2 Consensus size: 85
1146484 ATACACTGGA
* *
1146494 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
* * * * *
1146558 TTACCGTCAAAAACATAGGA
66 TTACGGACAGAAACATTGGC
* *
1146578 TAGGTTAGCCAGGTTTATTGAAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
1146643 TTACGGACAGAAACATTGGC
66 TTACGGACAGAAACATTGGC
* *
1146663 AAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACT-AAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTA-
*
1146727 CATACGGACAGAAACATTGGC
65 CTTACGGACAGAAACATTGGC
* *
1146748 TAGGTTAGCCAGATTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
1146813 TTACGGACAGAAACATTGGC
66 TTACGGACAGAAACATTGGC
* * *
1146833 TAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACT-AAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTA-
*
1146897 CATACGGACAGAAACATTGGC
65 CTTACGGACAGAAACATTGGC
* *
1146918 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
* * * * *
1146982 TTACCGTCAAAAACATAGGA
66 TTACGGACAGAAACATTGGC
* *
1147002 TAGGTTAGCCAGGTTTATTGAAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
1147067 TTACGGACAGAAACATTGGC
66 TTACGGACAGAAACATTGGC
* * *
1147087 TAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACT-AAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTA-
*
1147151 CATACGGACAGAAACATTGGC
65 CTTACGGACAGAAACATTGGC
* *
1147172 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
* *
1147236 TTACAGTCAGAAACATTGGC
66 TTACGGACAGAAACATTGGC
* * * *
1147256 AAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCATACTGTAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
*
1147321 TTAC-CATCAGAAACATTGGC
66 TTACGGA-CAGAAACATTGGC
*
1147341 TAGGTTAGCCAGGTTTATTGGAATCATTGTAAGAGAAATTATGATACCCTCTCG-TCTTACTGTA
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCT-GTTCTTACTGTA
1147405 CTTACGGACAGAAACATTGGC
65 CTTACGGACAGAAACATTGGC
* * *
1147426 AAGCTTAACCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTCG-TCTTACTGTA
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCT-GTTCTTACTGTA
* *
1147490 CTTACCGTCAGAAACATTGGC
65 CTTACGGACAGAAACATTGGC
1147511 TAGGTTAGCCAGGTTTATTGG
1 TAGGTTAGCCAGGTTTATTGG
1147532 CGTCAGTGGC
Statistics
Matches: 866, Mismatches: 76, Indels: 23
0.90 0.08 0.02
Matches are distributed among these distances:
84 194 0.22
85 670 0.77
86 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (85 bp):
TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTAC
TTACGGACAGAAACATTGGC
Found at i:1147042 original size:254 final size:255
Alignment explanation
Indices: 1146490--1147531 Score: 1616
Period size: 254 Copynumber: 4.1 Consensus size: 255
1146480 TAAAATACAC
**
1146490 TGGATAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACT
1 TGGATAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCTTACT
* * * * * * *
1146554 GTACTTACCGTCAAAAACATAGGATAGGTTAGCCAGGTTTATTGAAATCAATGTAAGAGAAATTA
66 GTACTTACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTA
* *
1146619 TGATGCCCTCTGTTCTTACTGTACTTACGGACAGAAACATTGGCAAGGTTAGCCAGGTTTATTGG
131 TGATGCCCTCTGTTCTTACTGAACATACGGACAGAAACATTGGCAAGGTTAGCCAGGTTTATTGG
* * * * * *
1146684 AATCAATGTAAGAGAAATTATGATACCCTCTGTTCTTACT-AACCATACGGACAGAAACAT
196 AATCAATGTAAGAGAAATTATGACACCCTCTCTTCTTACTGTA-CTTACCGTCAGAAACAT
* * *
1146744 TGGCTAGGTTAGCCAGATTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACT
1 TGGATAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCTTACT
1146809 GTACTTACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTA
66 GTACTTACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTA
*
1146874 TGATGCCCTCTGTTCTTACT-AACCATACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTATTG
131 TGATGCCCTCTGTTCTTACTGAA-CATACGGACAGAAACATTGGCAAGGTTAGCCAGGTTTATTG
*
1146938 GAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACTGTACTTACCGTCAAAAACAT
195 GAATCAATGTAAGAGAAATTATGACACCCTCTCTTCTTACTGTACTTACCGTCAGAAACAT
* * *
1146998 AGGATAGGTTAGCCAGGTTTATTGAAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACT
1 TGGATAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCTTACT
1147063 GTACTTACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTA
66 GTACTTACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTA
*
1147128 TGATGCCCTCTGTTCTTACT-AACCATACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTATTG
131 TGATGCCCTCTGTTCTTACTGAA-CATACGGACAGAAACATTGGCAAGGTTAGCCAGGTTTATTG
*
1147192 GAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACTGTACTTACAGTCAGAAACAT
195 GAATCAATGTAAGAGAAATTATGACACCCTCTCTTCTTACTGTACTTACCGTCAGAAACAT
*
1147252 TGGCA-AGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCATAC
1 TGG-ATAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCTTAC
* * *
1147316 TGTACTTAC-CATCAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCATTGTAAGAGAAAT
65 TGTACTTACGGA-CAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAAT
* * * * *
1147380 TATGATACCCTCTCG-TCTTACTGTACTTACGGACAGAAACATTGGCAAGCTTAACCAGGTTTAT
129 TATGATGCCCTCT-GTTCTTACTGAACATACGGACAGAAACATTGGCAAGGTTAGCCAGGTTTAT
* *
1147444 TGGAATCAATGTAAGAGAAATTATGATACCCTCTCGTCTTACTGTACTTACCGTCAGAAACAT
193 TGGAATCAATGTAAGAGAAATTATGACACCCTCTCTTCTTACTGTACTTACCGTCAGAAACAT
*
1147507 TGGCTAGGTTAGCCAGGTTTATTGG
1 TGGATAGGTTAGCCAGGTTTATTGG
1147532 CGTCAGTGGC
Statistics
Matches: 734, Mismatches: 45, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
253 1 0.00
254 522 0.71
255 211 0.29
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (255 bp):
TGGATAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTCTTCTTACT
GTACTTACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTA
TGATGCCCTCTGTTCTTACTGAACATACGGACAGAAACATTGGCAAGGTTAGCCAGGTTTATTGG
AATCAATGTAAGAGAAATTATGACACCCTCTCTTCTTACTGTACTTACCGTCAGAAACAT
Found at i:1147114 original size:339 final size:339
Alignment explanation
Indices: 1146494--1147531 Score: 1613
Period size: 339 Copynumber: 3.1 Consensus size: 339
1146484 ATACACTGGA
1146494 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCCCTCTTCTTACTGTACT
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCCCTCTTCTTACTGTACT
* * * * *
1146559 TACCGTCAAAAACATAGGATAGGTTAGCCAGGTTTATTGAAATCAATGTAAGAGAAATTATGATG
66 TACAGTCAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATG
* * *
1146624 CCCTCTGTTCTTACTGTACTTACGGACAGAAACATTGGCA-AGGTTAGCCAGGTTTATTGGAATC
131 CCCTCTCTTCTTACTGTACTTACCGTCAGAAACATTGG-ATAGGTTAGCCAGGTTTATTGGAATC
* *
1146688 AATGTAAGAGAAATTATGATACCCTCTGTTCTTACT-AACCATACGGACAGAAACATTGGCTAGG
195 AATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTA-CTTACGGACAGAAACATTGGCTAGG
*
1146752 TTAGCCAGATTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTACTTAC
259 TTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTACTTAC
1146817 GGACAGAAACATTGGC
324 GGACAGAAACATTGGC
* ** * *
1146833 TAGGTTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACT-AAC
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCC-CTCTTCTTACTGTA-
* * *
1146897 CATACGGACAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGA
64 CTTACAGTCAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGA
** * * *
1146962 CACCC-CTCTTCTTACTGTACTTACCGTCAAAAACATAGGATAGGTTAGCCAGGTTTATTGAAAT
129 TGCCCTCTCTTCTTACTGTACTTACCGTCAGAAACATTGGATAGGTTAGCCAGGTTTATTGGAAT
*
1147026 CAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTACTTACGGACAGAAACATTGGCTAGG
194 CAATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTACTTACGGACAGAAACATTGGCTAGG
* * *
1147091 TTAGCCAGGTTTACTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACT-AACCATA
259 TTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTA-CTTA
1147155 CGGACAGAAACATTGGC
323 CGGACAGAAACATTGGC
1147172 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCCCTCTTCTTACTGTACT
1 TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCCCTCTTCTTACTGTACT
*
1147237 TACAGTCAGAAACATTGGCAAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATG
66 TACAGTCAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATG
* * *
1147302 CCCTCTCTTCATACTGTACTTACCATCAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCA
131 CCCTCTCTTCTTACTGTACTTACCGTCAGAAACATTGGATAGGTTAGCCAGGTTTATTGGAATCA
* * *
1147367 TTGTAAGAGAAATTATGATACCCTCTCG-TCTTACTGTACTTACGGACAGAAACATTGGCAAGCT
196 ATGTAAGAGAAATTATGATACCCTCT-GTTCTTACTGTACTTACGGACAGAAACATTGGCTAGGT
* *
1147431 TAACCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATACCCTCTCG-TCTTACTGTACTTAC
260 TAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCT-GTTCTTACTGTACTTAC
* *
1147495 CGTCAGAAACATTGGC
324 GGACAGAAACATTGGC
1147511 TAGGTTAGCCAGGTTTATTGG
1 TAGGTTAGCCAGGTTTATTGG
1147532 CGTCAGTGGC
Statistics
Matches: 634, Mismatches: 55, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
338 76 0.12
339 483 0.76
340 75 0.12
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (339 bp):
TAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGACACCCCTCTTCTTACTGTACT
TACAGTCAGAAACATTGGCTAGGTTAGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATG
CCCTCTCTTCTTACTGTACTTACCGTCAGAAACATTGGATAGGTTAGCCAGGTTTATTGGAATCA
ATGTAAGAGAAATTATGATACCCTCTGTTCTTACTGTACTTACGGACAGAAACATTGGCTAGGTT
AGCCAGGTTTATTGGAATCAATGTAAGAGAAATTATGATGCCCTCTGTTCTTACTGTACTTACGG
ACAGAAACATTGGC
Found at i:1148963 original size:25 final size:25
Alignment explanation
Indices: 1148935--1148984 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1148925 ATTAAAAACA
1148935 GTTAAATAAATTAATGTTGTTTTGT
1 GTTAAATAAATTAATGTTGTTTTGT
1148960 GTTAAATAAATTAATGTTGTTTTGT
1 GTTAAATAAATTAATGTTGTTTTGT
1148985 ATCACATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (25 bp):
GTTAAATAAATTAATGTTGTTTTGT
Found at i:1149658 original size:102 final size:102
Alignment explanation
Indices: 1149482--1149684 Score: 300
Period size: 102 Copynumber: 2.0 Consensus size: 102
1149472 TACCCCTGGG
*
1149482 GGTCATGATTTTCACAACTTTGAATAAACACTACCTGAGGATGCTTTCACACAAGTTTCAGCTTC
1 GGTCATGATTTTCACAACTTTGAATAAACACTACCTGAGGATGCTTTCAAACAAGTTTCAGCTTC
*
1149547 CCTGCCTGATTTGTTTCTGAGAAGAAGATTTTTAAAT
66 CCTGCCTGATTAGTTTCTGAGAAGAAGATTTTTAAAT
* ** *
1149584 GGTCATGATTTTCACAACTTTGTATCTACACTACCTTAGGATG-TTTCCAAACAAGTTTCAGCTT
1 GGTCATGATTTTCACAACTTTGAATAAACACTACCTGAGGATGCTTT-CAAACAAGTTTCAGCTT
** * *
1149648 TGCTGGCTGATTAGTTTCTGAGAAGTAGATTTTTAAA
65 CCCTGCCTGATTAGTTTCTGAGAAGAAGATTTTTAAA
1149685 GATTTACTCT
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 3 0.03
102 87 0.97
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (102 bp):
GGTCATGATTTTCACAACTTTGAATAAACACTACCTGAGGATGCTTTCAAACAAGTTTCAGCTTC
CCTGCCTGATTAGTTTCTGAGAAGAAGATTTTTAAAT
Found at i:1150466 original size:166 final size:166
Alignment explanation
Indices: 1149584--1150518 Score: 1228
Period size: 167 Copynumber: 5.6 Consensus size: 166
1149574 ATTTTTAAAT
* * * *
1149584 GGTCATGATTTTCACAACTTTGTATCTACACTACCTTAGGATGTTTCCAAACAAGTTTCAGCTTT
1 GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
* *
1149649 GCTGGCTGATTAGTTTCTGAGAAGTAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAAC
66 CCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAAC
* * *
1149714 TTCGACCCCCTATTGTGGCCTCATCCTACCCCCAGG
131 TTCGACCCCCCATTGTGGCCCCACCCTACCCCCAGG
* * * *
1149750 GGTCATTATTTTCACAACTTTGAATATACACTACCTGAGGATGCTTCC-CAAAAGTTTAAGCTTT
1 GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
* * *
1149814 CCTGCCTGATTTGTTTCT--G-AGAAGATTTTTAAAGATTTACTCTATGTATTCCTATGTTAAAC
66 CCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAAC
* * * *
1149876 TTCGACCCCCAATTGT-GCCCCATCCTA-CTCCTGG
131 TTCGACCCCCCATTGTGGCCCCACCCTACCCCCAGG
* **
1149910 GGTTATGATTTTCACAAAATTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
1 GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
* * * * *
1149975 CCTGG-T-CTTATGGTTCATGAGAATAAGATTTTTAAAGATTTACTCTATATATACATATGTTAA
66 CCTGGCTGATTA-GTTTC-TGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAA
* * *
1150038 ACTTCGCCCCCCCCCCCCTTGTGGCCCCACCCTACCCTCAGG
129 ACTTCG----ACCCCCCATTGTGGCCCCACCCTACCCCCAGG
* *
1150080 GGTCATGATTTTCACAACTTTGTATCTACACTACCTGAGGATGCTTTCACACAAGTTTCAGCTTT
1 GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
** * * *
1150145 GATGCCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATACGTTAAAC
66 CCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAAC
*
1150210 TTCGACCCCCCCATTGTGGCCCCACCCTACCCTCAGG
131 TTCGA-CCCCCCATTGTGGCCCCACCCTACCCCCAGG
* *
1150247 GGTCACGATTTTCACAACTTTGTATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
1 GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
* * *
1150312 CCTGGCTGATTAGTTTTTGAGAAGAAGATTTTAAAAGATTTACTCTATATATTCCTATGTTAAAG
66 CCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAAC
* *
1150377 ATCGACCCCCCATTGTGGCCCCACCCTACCCCCGGG
131 TTCGACCCCCCATTGTGGCCCCACCCTACCCCCAGG
* * *
1150413 GGTCATGATTTTCACAACTTTGAATCTACATTACCTTAGTATGCTGT-CACACAAGTTTCAGCTT
1 GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCT-TCCACACAAGTTTCAGCTT
* *
1150477 TCCTGG-T-CTTATGGTTCATGAGAAGAAGATTTTTGAAA-ATTT
65 TCCTGGCTGATTA-GTTTC-TGAGAAGAAGATTTTT-AAAGATTT
1150519 CTCGAAAATT
Statistics
Matches: 674, Mismatches: 76, Indels: 38
0.86 0.10 0.05
Matches are distributed among these distances:
159 2 0.00
160 53 0.08
161 29 0.04
162 56 0.08
163 2 0.00
164 46 0.07
165 32 0.05
166 154 0.23
167 158 0.23
168 9 0.01
169 10 0.01
170 115 0.17
171 5 0.01
172 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (166 bp):
GGTCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT
CCTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAAC
TTCGACCCCCCATTGTGGCCCCACCCTACCCCCAGG
Found at i:1154012 original size:4 final size:4
Alignment explanation
Indices: 1154003--1154131 Score: 73
Period size: 4 Copynumber: 32.8 Consensus size: 4
1153993 ATACCATACA
* * * * *
1154003 TCTC TCTC TCTT TCTC TCTC TCT- TCTC TATC TCTC TCTG TGTC TGTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * * *
1154050 TGTC TGTC TCTC TCTC T-TT TCTA TGTC TGTC TGTC TGTC TGTC TGTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * *
1154097 TGTC TGTC TGTC TGTC TCTC TCTC TCTC TCTC TCT
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCT
1154132 TCAAATTTAA
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 5 0.05
4 105 0.95
ACGTcount: A:0.02, C:0.34, G:0.12, T:0.53
Consensus pattern (4 bp):
TCTC
Found at i:1154018 original size:6 final size:6
Alignment explanation
Indices: 1154003--1154131 Score: 73
Period size: 6 Copynumber: 21.8 Consensus size: 6
1153993 ATACCATACA
* * * * *
1154003 TCTCTC TCTCTT TCTCTC TCTCT- TCTCTA TCTCTC TCTGTG TCTGTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * * *
1154050 TGTCTG TCTCTC TCTCT- TTTCTA TGTCTG TCTGTC TGTCTG TCTGTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * *
1154097 TGTCTG TCTGTC TGTCTC TCTCTC TCTCTC TCTCT
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCT
1154132 TCAAATTTAA
Statistics
Matches: 89, Mismatches: 32, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
5 9 0.10
6 80 0.90
ACGTcount: A:0.02, C:0.34, G:0.12, T:0.53
Consensus pattern (6 bp):
TCTCTC
Found at i:1154020 original size:12 final size:12
Alignment explanation
Indices: 1154003--1154131 Score: 82
Period size: 12 Copynumber: 10.8 Consensus size: 12
1153993 ATACCATACA
*
1154003 TCTCTCTCTCTT
1 TCTCTCTCTCTG
1154015 TCTCTCTCTCT-
1 TCTCTCTCTCTG
*
1154026 TCTCTATCTCTCTC
1 TCTC--TCTCTCTG
* * *
1154040 TGTGTCTGTCTG
1 TCTCTCTCTCTG
* *
1154052 TCTGTCTCTCTC
1 TCTCTCTCTCTG
* *
1154064 TCT-TTTCTATG
1 TCTCTCTCTCTG
* *
1154075 TCTGTCTGTCTG
1 TCTCTCTCTCTG
* *
1154087 TCTGTCTGTCTG
1 TCTCTCTCTCTG
* *
1154099 TCTGTCTGTCTG
1 TCTCTCTCTCTG
*
1154111 TCTCTCTCTCTC
1 TCTCTCTCTCTG
1154123 TCTCTCTCT
1 TCTCTCTCT
1154132 TCAAATTTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
11 12 0.12
12 76 0.78
13 7 0.07
14 2 0.02
ACGTcount: A:0.02, C:0.34, G:0.12, T:0.53
Consensus pattern (12 bp):
TCTCTCTCTCTG
Found at i:1154053 original size:8 final size:8
Alignment explanation
Indices: 1154042--1154113 Score: 92
Period size: 8 Copynumber: 9.1 Consensus size: 8
1154032 TCTCTCTCTG
1154042 TGTCTGTC
1 TGTCTGTC
1154050 TGTCTGTC
1 TGTCTGTC
* *
1154058 TCTCTCTC
1 TGTCTGTC
* * *
1154066 T-TTTCTA
1 TGTCTGTC
1154073 TGTCTGTC
1 TGTCTGTC
1154081 TGTCTGTC
1 TGTCTGTC
1154089 TGTCTGTC
1 TGTCTGTC
1154097 TGTCTGTC
1 TGTCTGTC
1154105 TGTCTGTC
1 TGTCTGTC
1154113 T
1 T
1154114 CTCTCTCTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
7 5 0.09
8 51 0.91
ACGTcount: A:0.01, C:0.26, G:0.19, T:0.53
Consensus pattern (8 bp):
TGTCTGTC
Found at i:1154089 original size:43 final size:41
Alignment explanation
Indices: 1154015--1154125 Score: 141
Period size: 41 Copynumber: 2.6 Consensus size: 41
1154005 TCTCTCTCTT
1154015 TCTCTCTCTCTTCTCTATCTCTCTCTGTGTCTGTCTGTCTG
1 TCTCTCTCTCTTCTCTATCTCTCTCTGTGTCTGTCTGTCTG
* * *
1154056 TCTCTCTCTCTTTTCTATGTCTGTCTGTCTGTCTGTCTGTCTG
1 TCTCTCTCTCTTCTCTATCTCTCTCTG--TGTCTGTCTGTCTG
* * *
1154099 TCTGTCTGTCTGTCTCTCTCTCTCTCT
1 TCTCTCTCTCT-TCTCTATCTCTCTCT
1154126 CTCTCTTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 24 0.41
43 23 0.40
44 11 0.19
ACGTcount: A:0.02, C:0.32, G:0.14, T:0.52
Consensus pattern (41 bp):
TCTCTCTCTCTTCTCTATCTCTCTCTGTGTCTGTCTGTCTG
Found at i:1154827 original size:33 final size:33
Alignment explanation
Indices: 1154789--1154900 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 33
1154779 AAGTCTCATA
1154789 TACACGTATATTTTA-ATACAGATATATTGTAT
1 TACACGTATATTTTATATACAGATATATTGTAT
*
1154821 GTACACGTATATTTTATATACA-AGTACATTTGTA-
1 -TACACGTATATTTTATATACAGA-TATA-TTGTAT
* * *
1154855 TACACGTACATTGTATATACACG-TATATTTTAT
1 TACACGTATATTTTATATACA-GATATATTGTAT
1154888 ATACACGTATATT
1 -TACACGTATATT
1154901 CAGTCGAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
32 4 0.06
33 38 0.58
34 19 0.29
35 5 0.08
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (33 bp):
TACACGTATATTTTATATACAGATATATTGTAT
Found at i:1154831 original size:17 final size:17
Alignment explanation
Indices: 1154786--1154900 Score: 128
Period size: 17 Copynumber: 6.9 Consensus size: 17
1154776 ACAAAGTCTC
*
1154786 ATATACACGTATATTTT
1 ATATACACGTATATTGT
1154803 A-ATACA-GATATATTGT
1 ATATACACG-TATATTGT
* *
1154819 ATGTACACGTATATTTT
1 ATATACACGTATATTGT
* *
1154836 ATATACAAGTACATT-T
1 ATATACACGTATATTGT
* *
1154852 GTATACACGTACATTGT
1 ATATACACGTATATTGT
*
1154869 ATATACACGTATATTTT
1 ATATACACGTATATTGT
1154886 ATATACACGTATATT
1 ATATACACGTATATT
1154901 CAGTCGAACA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
15 1 0.01
16 27 0.33
17 54 0.65
18 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (17 bp):
ATATACACGTATATTGT
Found at i:1154870 original size:15 final size:16
Alignment explanation
Indices: 1154837--1154871 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1154827 GTATATTTTA
1154837 TATACAAGTACATTTG
1 TATACAAGTACATTTG
*
1154853 TATACACGTACA-TTG
1 TATACAAGTACATTTG
1154868 TATA
1 TATA
1154872 TACACGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (16 bp):
TATACAAGTACATTTG
Found at i:1160800 original size:2 final size:2
Alignment explanation
Indices: 1160793--1160840 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1160783 AGACTAAAAA
1160793 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1160835 TC TC TC
1 TC TC TC
1160841 ACGCTTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1164996 original size:2 final size:2
Alignment explanation
Indices: 1164989--1165015 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1164979 ATAACGAATT
1164989 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1165016 TCAGAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.