Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 21 of 228
Found at i:6956294 original size:30 final size:31
Alignment explanation
Indices: 6956247--6956324 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
6956237 GTAAAAAAAG
**
6956247 AAAACATTTTCCTTCCC-AATAAAGAACACGC
1 AAAACATTTT-CTTCCCAAATAAAGAACACAA
* *
6956278 AGAACATTTTCTTCCCAAATGAAGAACACAA
1 AAAACATTTTCTTCCCAAATAAAGAACACAA
*
6956309 AAAATATTTTCTTCCC
1 AAAACATTTTCTTCCC
6956325 TCTTGGATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 6 0.15
31 34 0.85
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.27
Consensus pattern (31 bp):
AAAACATTTTCTTCCCAAATAAAGAACACAA
Found at i:6961597 original size:41 final size:41
Alignment explanation
Indices: 6961503--6961648 Score: 202
Period size: 41 Copynumber: 3.5 Consensus size: 41
6961493 TTTAACATAT
** *
6961503 TCACCGGCACTTAGCCTGCTAAACTTTACAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCT-AGGTTTATAGCCTGATTCAGA
* * *
6961545 TCACCGACACTTAGTCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
* *
6961586 TCATCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
*
6961627 TCACCGGCACTTAGCCTACTAG
1 TCACCGGCACTTAGCCTGCTAG
6961649 ACTTAAAGTC
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 73 0.80
42 18 0.20
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
Found at i:6962125 original size:114 final size:112
Alignment explanation
Indices: 6961996--6962763 Score: 1437
Period size: 112 Copynumber: 6.8 Consensus size: 112
6961986 ACACATATAC
6961996 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6962061 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
66 TACAATAGATATAC--ATATATATATACATATTCGAACTTCATTTATGT
6962110 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6962175 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGCAT
66 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATG--T
6962224 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6962289 TACAATAGATATACATATATATATACATATTCGAACTTCATGTATGT
66 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGT
6962336 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6962401 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGT
66 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGT
6962448 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6962513 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGT
66 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGT
*
6962560 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATG
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6962625 TACAATAGATATACATATATATGTATACATATTCGAACTTCATTTATGC
66 TACAATAGATATACATATATA--TATACATATTCGAACTTCATTTATGT
*
6962674 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6962739 TACAATATATATACATATATATATA
66 TACAATAGATATACATATATATATA
6962764 TATGTATATA
Statistics
Matches: 643, Mismatches: 7, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
112 345 0.54
114 298 0.46
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (112 bp):
ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGT
Found at i:6962200 original size:12 final size:12
Alignment explanation
Indices: 6962172--6962204 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6962162 AGCTCATCAA
6962172 ATATACA-ATAG
1 ATATACATATAG
*
6962183 ATATACATATAT
1 ATATACATATAG
6962195 ATATACATAT
1 ATATACATAT
6962205 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:6962314 original size:12 final size:12
Alignment explanation
Indices: 6962286--6962318 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6962276 AGCTCATCAA
6962286 ATATACA-ATAG
1 ATATACATATAG
*
6962297 ATATACATATAT
1 ATATACATATAG
6962309 ATATACATAT
1 ATATACATAT
6962319 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:6962354 original size:226 final size:225
Alignment explanation
Indices: 6961996--6962763 Score: 1441
Period size: 226 Copynumber: 3.4 Consensus size: 225
6961986 ACACATATAC
6961996 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6962061 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCA
66 TACAATAGATATAC--ATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCA
6962126 TACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACAT
129 TACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACAT
6962191 ATATATATACATATTCGAACTTCATTTATGCAT
194 ATATATATACATATTCGAACTTCATTTATGC-T
6962224 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6962289 TACAATAGATATACATATATATATACATATTCGAACTTCATGTATGTATATATATAACATTCATA
66 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCATA
6962354 CTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATAT
131 CTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATAT
6962419 ATATATACATATTCGAACTTCATTTATG-T
196 ATATATACATATTCGAACTTCATTTATGCT
6962448 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6962513 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCATA
66 TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCATA
*
6962578 CTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATGTACAATAGATATACATAT
131 CTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATAT
6962643 ATATGTATACATATTCGAACTTCATTTATGC-
196 ATA--TATACATATTCGAACTTCATTTATGCT
*
6962674 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6962739 TACAATATATATACATATATATATA
66 TACAATAGATATACATATATATATA
6962764 TATGTATATA
Statistics
Matches: 532, Mismatches: 5, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
224 197 0.37
226 256 0.48
228 79 0.15
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (225 bp):
ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
TACAATAGATATACATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCATA
CTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATAT
ATATATACATATTCGAACTTCATTTATGCT
Found at i:6962426 original size:12 final size:12
Alignment explanation
Indices: 6962398--6962430 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6962388 AGCTCATCAA
6962398 ATATACA-ATAG
1 ATATACATATAG
*
6962409 ATATACATATAT
1 ATATACATATAG
6962421 ATATACATAT
1 ATATACATAT
6962431 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:6962538 original size:12 final size:12
Alignment explanation
Indices: 6962510--6962542 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6962500 AGCTCATCAA
6962510 ATATACA-ATAG
1 ATATACATATAG
*
6962521 ATATACATATAT
1 ATATACATATAG
6962533 ATATACATAT
1 ATATACATAT
6962543 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:6975887 original size:11 final size:11
Alignment explanation
Indices: 6975871--6975896 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6975861 GATTATCGCT
6975871 TTTTATTTCTC
1 TTTTATTTCTC
6975882 TTTTATTTCTC
1 TTTTATTTCTC
6975893 TTTT
1 TTTT
6975897 TCCACCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTCTC
Found at i:6975897 original size:12 final size:12
Alignment explanation
Indices: 6975869--6975897 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
6975859 TAGATTATCG
6975869 CTTTTTATTTCT
1 CTTTTTATTTCT
6975881 C-TTTTATTTCT
1 CTTTTTATTTCT
6975892 CTTTTT
1 CTTTTT
6975898 CCACCCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTATTTCT
Found at i:6979322 original size:59 final size:59
Alignment explanation
Indices: 6979254--6979442 Score: 204
Period size: 59 Copynumber: 3.2 Consensus size: 59
6979244 TGTGGGGGGA
*
6979254 ATTATATATTTTTATTAAATTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
* * ** * * * * * *
6979313 ATTATATATTATAATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTATTAAACTATATTTA-ATAAAAATTATTTTAA-ATT-A-TATTTTA-TAGT
*
6979374 ATTATATATTTTTATTAAACTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
6979433 ATTATATATT
1 ATTATATATT
6979443 ATGATTTTAG
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 7 0.07
59 42 0.41
60 14 0.14
61 32 0.31
62 7 0.07
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (59 bp):
ATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
Found at i:6979378 original size:61 final size:60
Alignment explanation
Indices: 6979313--6979498 Score: 200
Period size: 61 Copynumber: 3.1 Consensus size: 60
6979303 ATTTTATAGT
6979313 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAA-AATTTTATTAA
* * ** * * * * * *
6979374 ATTATATATTTTTATTAAACTATATTTA-ATAATAATTATTTTAA-ATT-ATATTTTA-TAGT
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAAATTTTATTA-A
*
6979433 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAA-AATTTTATTAA
6979494 ATTAT
1 ATTAT
6979499 GTTAAAATAT
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 32 0.33
60 14 0.14
61 37 0.38
62 7 0.07
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (60 bp):
ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAAATTTTATTAA
Found at i:6979383 original size:120 final size:120
Alignment explanation
Indices: 6979253--6979498 Score: 456
Period size: 120 Copynumber: 2.0 Consensus size: 120
6979243 ATGTGGGGGG
*
6979253 AATTATATATTTTTATTAAATTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
*
6979318 ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
66 ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
*
6979373 AATTATATATTTTTATTAAACTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
*
6979438 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
66 ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
6979493 AATTAT
1 AATTAT
6979499 GTTAAAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (120 bp):
AATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
Found at i:6979473 original size:59 final size:59
Alignment explanation
Indices: 6979290--6979473 Score: 203
Period size: 59 Copynumber: 3.1 Consensus size: 59
6979280 TAATAAAAAT
6979290 TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
* * * * ** * * * *
6979349 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAACTATATTTA-ATAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
*
6979409 TTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
6979469 TATTT
1 TATTT
6979474 AATATTAACA
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 37 0.38
60 14 0.14
61 32 0.33
62 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
Found at i:6987599 original size:33 final size:33
Alignment explanation
Indices: 6987561--6987628 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
6987551 AATTAATGGG
*
6987561 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAAATTAAGGTATGGGATA
*
6987594 AAAAGATGGTTTGGTAAATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAAATTAAGGTATGGGATA
6987627 AA
1 AA
6987629 GTGGATTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (33 bp):
AAAAGATGGTTTGATAAATTAAGGTATGGGATA
Found at i:6997626 original size:6 final size:6
Alignment explanation
Indices: 6997615--6997644 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6997605 TCTTCATCAC
6997615 ATTAAG ATTAAG ATTAAG A-TAAG ATTAAG A
1 ATTAAG ATTAAG ATTAAG ATTAAG ATTAAG A
6997645 GTGTTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (6 bp):
ATTAAG
Found at i:6997639 original size:11 final size:12
Alignment explanation
Indices: 6997615--6997644 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
6997605 TCTTCATCAC
6997615 ATTAAGATTAAG
1 ATTAAGATTAAG
6997627 ATTAAGA-TAAG
1 ATTAAGATTAAG
6997638 ATTAAGA
1 ATTAAGA
6997645 GTGTTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (12 bp):
ATTAAGATTAAG
Found at i:6999383 original size:27 final size:28
Alignment explanation
Indices: 6999344--6999397 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
6999334 TTTAAATGTG
*
6999344 AAGGGGATTGCTAAGTGCTGATTCCCCC
1 AAGGGGATTGCTAAATGCTGATTCCCCC
6999372 AAGGGG-TTGCTAAATGCTGATTCCCC
1 AAGGGGATTGCTAAATGCTGATTCCCC
6999398 GACTCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (28 bp):
AAGGGGATTGCTAAATGCTGATTCCCCC
Found at i:6999418 original size:102 final size:102
Alignment explanation
Indices: 6999242--6999574 Score: 549
Period size: 102 Copynumber: 3.3 Consensus size: 102
6999232 ATTGAATAAA
* *
6999242 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
6999307 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* * *
6999344 AAGGGGATTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAATGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
6999409 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* *
6999446 AAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
**
6999511 GGTTGCTAAGTGCTGAACCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* *
6999548 AAAGGGGTCGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
6999575 GACTCATTGG
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 215 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
Found at i:7004589 original size:149 final size:149
Alignment explanation
Indices: 7004166--7005253 Score: 1340
Period size: 149 Copynumber: 7.2 Consensus size: 149
7004156 TTTGGTGTGT
** *
7004166 TTTTTATTGAAAGTAATAAAATCTGATAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTTTA
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAA-A--TA-AAAGGGCCGAAATAAGGATTTTTTT-
* * *
7004230 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAAGATAATCTACTAAAATATTGTAAA
61 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
7004295 ATAATAAAATTAGAAAATATTATA
126 ATAATAAAATTAGAAAATAATATA
* *
7004319 TTTTTA---AAAGTAATAAAATTCGGGGGGAAAATACGA-ACAAAAGGCCGAAATAATGG-TTTT
1 TTTTTATTGAAAGTAATAAAA-TC--TGGGAAAA-A--ATA-AAAGGGCCGAAATAA-GGATTTT
* *
7004379 TCTT-AAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATG
58 T-TTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
7004442 TAAAATAATAAAATTAGAAAATAATATA
122 TAAAATAATAAAATTAGAAAATAATATA
* *
7004470 TTTTTATTGAAAGTAATAAAATTTGGGAAAAAAT-AAATGGCCGAAATAAGGATTTTTTTAAAAA
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATAAAAGGGCCGAAATAAGGATTTTTTT-AAAA
*
7004534 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAAAGTACTAAAATAATGTAAAATAA
65 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
*
7004599 TAAAATTATAAAATAATATA
130 TAAAATTAGAAAATAATATA
* * *
7004619 TTTTTATTGAAAGTAATAAAATTTGAGAAAAAA-ATAAAGGGCCGAAATAAGGATTTTTTAAAAA
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATA-AAAGGGCCGAAATAAGGATTTTTTTAAAA
* * * **
7004683 TTTATTTTAAAAACAGACAAAATGAATACATTTCAAACATAATGTACTAAAATAAAATAAAATAA
65 TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
7004748 TAAAATTAGAAAATAATATA
130 TAAAATTAGAAAATAATATA
* * *
7004768 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATACGAACAAAGAGTCGAAATAATGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAT----A-AAAGGGCCGAAATAAGGATTTTTTT
* * * *
7004833 AAAATTTATTTAAAAAATAGACTAAATGAATACATTTTAAACATAATGTACTAAAGTAATGTAAA
61 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
7004898 ATAATAAAATTAGAAAATAATATA
126 ATAATAAAATTAGAAAATAATATA
* *
7004922 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATACGAACAAAGGGCCGGAATAAAGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAT----A-AAAGGGCCGAAATAAGGATTTTTTT
* * * * * *
7004987 -AAATTTATTTAAAAAACATAGTAAATTAATAAATTTCAAATATAATGTACTAAAATAATGTCAA
61 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
7005051 ATAATAAAA-TATGAAAATAATATA
126 ATAATAAAATTA-GAAAATAATATA
* *
7005075 TTTTTATTGAAAGTAATAAAATCTGGAAAAAATACGTACAAAGGGCCGAAATAAGAGTTTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGGAAAAA-A--TA-AAAGGGCCGAAATAAG-G---ATTTT
**
7005140 TTTAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
58 TTTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
* * * *
7005205 AAAAAAATAAATTTGGAAAATAGTATA
123 AAAATAATAAAATTAGAAAATAATATA
*
7005232 -TTTT-TTAAAAGTAATAAAATCT
1 TTTTTATTGAAAGTAATAAAATCT
7005254 AAAAAAATAT
Statistics
Matches: 831, Mismatches: 72, Indels: 62
0.86 0.07 0.06
Matches are distributed among these distances:
146 4 0.00
147 19 0.02
148 11 0.01
149 218 0.26
150 36 0.04
151 86 0.10
152 44 0.05
153 127 0.15
154 181 0.22
155 18 0.02
156 12 0.01
157 74 0.09
158 1 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.32
Consensus pattern (149 bp):
TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATAAAAGGGCCGAAATAAGGATTTTTTTAAAAT
TTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
AAAATTAGAAAATAATATA
Found at i:7005074 original size:153 final size:153
Alignment explanation
Indices: 7004166--7005281 Score: 1457
Period size: 154 Copynumber: 7.3 Consensus size: 153
7004156 TTTGGTGTGT
*
7004166 TTTTTATTGAAAGTAATAAAATCT-GATAAAAATACGAACAAAGGGCCGAAAT-AAGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGA-AAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTT
* * *
7004229 AAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAAGATAATCTACTAAAATATTGTAA
65 -AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
7004294 AATAATAAAATTAGAAAATATTATA
129 AATAATAAAATTAGAAAATAATATA
* ** * * *
7004319 TTTTTA---AAAGTAATAAAATTCGGGGGGAAAATACGAACAAAAGGCCGAAATAATGGTTTTTC
1 TTTTTATTGAAAGTAATAAAA-TC-TGGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTT-
* *
7004381 TT-AAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
63 TTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
7004444 AAATAATAAAATTAGAAAATAATATA
128 AAATAATAAAATTAGAAAATAATATA
* * *
7004470 TTTTTATTGAAAGTAATAAAATTTGGGAAAAAAT------AAATGGCCGAAATAAGGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCT-GGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTT
*
7004529 AAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAAAGTACTAAAATAATGTAA
65 -AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
7004594 AATAATAAAATTATAAAATAATATA
129 AATAATAAAATTAGAAAATAATATA
* * * * *
7004619 TTTTTATTGAAAGTAATAAAAT-TTGAGAAAA-A--AATAAAGGGCCGAAATAAGGATTTTTTAA
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTA
* * * **
7004680 AAATTTATTTTAAAAACAGACAAAATGAATACATTTCAAACATAATGTACTAAAATAAAATAAAA
66 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
7004745 TAATAAAATTAGAAAATAATATA
131 TAATAAAATTAGAAAATAATATA
* * *
7004768 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATACGAACAAAGAGTCGAAATAATGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCT-GGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTT
* * * *
7004833 AAAATTTATTTAAAAAATAGACTAAATGAATACATTTTAAACATAATGTACTAAAGTAATGTAAA
65 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
7004898 ATAATAAAATTAGAAAATAATATA
130 ATAATAAAATTAGAAAATAATATA
*
7004922 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAATACGAACAAAGGGCCGGAATAAAGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCT-GGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTT
* * * * * *
7004987 -AAATTTATTTAAAAAACATAGTAAATTAATAAATTTCAAATATAATGTACTAAAATAATGTCAA
65 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
7005051 ATAATAAAA-TATGAAAATAATATA
130 ATAATAAAATTA-GAAAATAATATA
* *
7005075 TTTTTATTGAAAGTAATAAAATCTGGAAAAAATACGTACAAAGGGCCGAAATAAGAGTTTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAATACGAACAAAGGGCCGAAATAA-AG---ATTTT
**
7005140 TTTAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
62 TTTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
* * * *
7005205 AAAAAAATAAATTTGGAAAATAGTATA
127 AAAATAATAAAATTAGAAAATAATATA
* * * * *
7005232 -TTTT-TTAAAAGTAATAAAATCT-AAAAAAATATGAACAAATGGCCAAAATA
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAATACGAACAAAGGGCCGAAATA
7005282 CGAACAATTG
Statistics
Matches: 854, Mismatches: 81, Indels: 55
0.86 0.08 0.06
Matches are distributed among these distances:
146 2 0.00
147 26 0.03
148 11 0.01
149 199 0.23
150 36 0.04
151 85 0.10
152 64 0.07
153 125 0.15
154 203 0.24
155 17 0.02
156 11 0.01
157 74 0.09
158 1 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (153 bp):
TTTTTATTGAAAGTAATAAAATCTGGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTA
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATA
Found at i:7005619 original size:23 final size:23
Alignment explanation
Indices: 7005565--7005609 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
7005555 AATTATGATA
7005565 AATTATTTAAATATTTAAATATAT
1 AATT-TTTAAATATTTAAATATAT
7005589 AATTTTTAAAT-TTTAAA-ATAT
1 AATTTTTAAATATTTAAATATAT
7005610 TATCTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 6 0.29
23 7 0.33
24 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTTTAAATATTTAAATATAT
Found at i:7013144 original size:5 final size:6
Alignment explanation
Indices: 7013126--7013156 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
7013116 CACTTCAACA
7013126 TAAAAT TAAAAT T-AAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TA
7013157 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:7013144 original size:11 final size:11
Alignment explanation
Indices: 7013128--7013152 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7013118 CTTCAACATA
7013128 AAATTAAAATT
1 AAATTAAAATT
7013139 AAATTAAAATT
1 AAATTAAAATT
7013150 AAA
1 AAA
7013153 ATTAGATTTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:7031282 original size:23 final size:23
Alignment explanation
Indices: 7031255--7031299 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7031245 GTTACTATTA
7031255 TTTATTT-AATTTAATAAAAATAG
1 TTTATTTAAATTT-ATAAAAATAG
*
7031278 TTTATTTAAATTTATAACAATA
1 TTTATTTAAATTTATAAAAATA
7031300 ATAATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATTTAAATTTATAAAAATAG
Found at i:7031965 original size:105 final size:105
Alignment explanation
Indices: 7031831--7032120 Score: 420
Period size: 105 Copynumber: 2.8 Consensus size: 105
7031821 AAATAAAATT
* *
7031831 CGTGATAGTGTTACCGTTAATTAACAAAATAAAATTATAATTTAAATTACTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
* * * **
7031896 TCTTTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAA
66 TCTCTGAAAAGAAGATATTGTAAACTGACTTTAATTTGAA
* *
7031936 CGTGATAGTATCACTGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
* *
7032001 TCTCTGAAAATAAGATATTGTAAACTGACTTTTATTTGAA
66 TCTCTGAAAAGAAGATATTGTAAACTGACTTTAATTTGAA
* * *
7032041 -GATGATAGTATTACCGTTAATTAATAAAATAAAATTATAATTTAAATCATTAATTCGTTTTTGT
1 CG-TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGT
*
7032105 TTCTCTGGAAATGAAG
65 TTCTCT-GAAAAGAAG
7032121 CCTTTTTTTT
Statistics
Matches: 165, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
104 1 0.01
105 157 0.95
106 7 0.04
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.43
Consensus pattern (105 bp):
CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
TCTCTGAAAAGAAGATATTGTAAACTGACTTTAATTTGAA
Found at i:7041301 original size:19 final size:19
Alignment explanation
Indices: 7041274--7041313 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7041264 GTCCAAGTGT
* *
7041274 ATAACTAGTATTACACTAC
1 ATAACTAGTACTACACCAC
*
7041293 ATAATTAGTACTACACCAC
1 ATAACTAGTACTACACCAC
7041312 AT
1 AT
7041314 TAAAGCATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAC
Found at i:7043281 original size:22 final size:22
Alignment explanation
Indices: 7043256--7043297 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7043246 CCATTAGTTG
7043256 CTACAA-CCATTCAACAAAACTA
1 CTACAAGCC-TTCAACAAAACTA
7043278 CTACAAGCCTTCAACAAAAC
1 CTACAAGCCTTCAACAAAAC
7043298 ACAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (22 bp):
CTACAAGCCTTCAACAAAACTA
Found at i:7043352 original size:30 final size:31
Alignment explanation
Indices: 7043276--7043337 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
7043266 TCAACAAAAC
**
7043276 TACTACAAGCCTTCAACAAAACACAAAAATT
1 TACTACAATACTTCAACAAAACACAAAAATT
* *
7043307 TACTACAATACTTCAATAAAACACACAAATT
1 TACTACAATACTTCAACAAAACACAAAAATT
7043338 GCTACAACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (31 bp):
TACTACAATACTTCAACAAAACACAAAAATT
Found at i:7044695 original size:29 final size:29
Alignment explanation
Indices: 7044662--7044717 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7044652 ACAGGGATTA
*
7044662 GATTAAATTAGTTTTTATACTATTAAATG
1 GATTAAATTAGTCTTTATACTATTAAATG
* * *
7044691 GATTAATTTAGTCTTTCTATTATTAAA
1 GATTAAATTAGTCTTTATACTATTAAA
7044718 AAGAATCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (29 bp):
GATTAAATTAGTCTTTATACTATTAAATG
Found at i:7054627 original size:11 final size:11
Alignment explanation
Indices: 7054607--7054636 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7054597 TTATATAAAG
7054607 CTTCCCTTTCC
1 CTTCCCTTTCC
*
7054618 CTTCCTTTTCC
1 CTTCCCTTTCC
7054629 CTTCCCTT
1 CTTCCCTT
7054637 ACTCTGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CTTCCCTTTCC
Found at i:7055505 original size:21 final size:22
Alignment explanation
Indices: 7055462--7055505 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7055452 ATGTATATTT
*
7055462 TGTTACATTAATGTTTTTAAAA
1 TGTTACATTAATGTTTATAAAA
*
7055484 TGTTATATTAAT-TTTATAAAA
1 TGTTACATTAATGTTTATAAAA
7055505 T
1 T
7055506 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TGTTACATTAATGTTTATAAAA
Found at i:7072431 original size:35 final size:35
Alignment explanation
Indices: 7072392--7072462 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
7072382 TTCCCATTTA
7072392 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
7072427 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
7072462 A
1 A
7072463 TCTTCTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (35 bp):
AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
Found at i:7074325 original size:25 final size:26
Alignment explanation
Indices: 7074282--7074333 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
7074272 TTGTTTATGG
** *
7074282 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
7074308 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
7074333 T
1 T
7074334 GTGTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:7075667 original size:16 final size:16
Alignment explanation
Indices: 7075646--7075677 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7075636 ACTTAGTAAT
7075646 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
7075662 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
7075678 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:7077078 original size:47 final size:47
Alignment explanation
Indices: 7077009--7077102 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
7076999 TGCTTCGATT
*
7077009 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
7077056 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
7077103 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:7077608 original size:9 final size:9
Alignment explanation
Indices: 7077594--7077999 Score: 86
Period size: 9 Copynumber: 44.6 Consensus size: 9
7077584 ATTAATATTA
7077594 TACATAAAT
1 TACATAAAT
*
7077603 TACATAACT
1 TACATAAAT
*
7077612 TA-ATTAAT
1 TACATAAAT
*
7077620 TA-AT-ATT
1 TACATAAAT
*
7077627 ATACATAACT
1 -TACATAAAT
* *
7077637 TATATAACT
1 TACATAAAT
*
7077646 TAC--AACT
1 TACATAAAT
*
7077653 TACATAACT
1 TACATAAAT
7077662 TACATTAATATT
1 TACA-TAA-A-T
*
7077674 ATATATAAAT
1 -TACATAAAT
*
7077684 TACATAACT
1 TACATAAAT
7077693 TACATTAATATT
1 TACA-TAA-A-T
7077705 ATACATAAAT
1 -TACATAAAT
*
7077715 TACATAACT
1 TACATAAAT
*
7077724 TA-ATTAAT
1 TACATAAAT
*
7077732 TA-AT-ATT
1 TACATAAAT
*
7077739 ATACATAACT
1 -TACATAAAT
* *
7077749 TACCTAACT
1 TACATAAAT
*
7077758 TA-ATTAAT
1 TACATAAAT
*
7077766 TA-AT-ATT
1 TACATAAAT
**
7077773 ATACATAGCT
1 -TACATAAAT
*
7077783 TAC--AACT
1 TACATAAAT
*
7077790 TACATAACT
1 TACATAAAT
7077799 TACATTAATAT
1 TACA-TAA-AT
7077810 TACACATAAAT
1 T--ACATAAAT
*
7077821 TACATAACT
1 TACATAAAT
7077830 TACATTAATAT
1 TACA-TAA-AT
7077841 TACACATAAAT
1 T--ACATAAAT
*
7077852 TACATAACT
1 TACATAAAT
*
7077861 TACATTAA-
1 TACATAAAT
7077869 TACAT--A-
1 TACATAAAT
*
7077875 -ACTTAAAT
1 TACATAAAT
*
7077883 TACATAACT
1 TACATAAAT
*
7077892 TA-ATTAAT
1 TACATAAAT
7077900 TA-AT--AT
1 TACATAAAT
*
7077906 TACACATAACT
1 T--ACATAAAT
*
7077917 TAC--AACT
1 TACATAAAT
*
7077924 TACATAACT
1 TACATAAAT
7077933 TACATTAATATT
1 TACA-TAA-A-T
7077945 ATACATAAAT
1 -TACATAAAT
*
7077955 TACATAACT
1 TACATAAAT
7077964 TACATTAATATT
1 TACA-TAA-A-T
7077976 ATACATAAAT
1 -TACATAAAT
*
7077986 TACATAACT
1 TACATAAAT
7077995 TACAT
1 TACAT
7078000 TAATACGACA
Statistics
Matches: 308, Mismatches: 41, Indels: 96
0.69 0.09 0.22
Matches are distributed among these distances:
5 3 0.01
6 4 0.01
7 27 0.09
8 43 0.14
9 145 0.47
10 27 0.09
11 16 0.05
12 22 0.07
13 21 0.07
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAAAT
Found at i:7077652 original size:16 final size:16
Alignment explanation
Indices: 7077633--7077665 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7077623 TATTATACAT
*
7077633 AACTTATATAACTTAC
1 AACTTACATAACTTAC
7077649 AACTTACATAACTTAC
1 AACTTACATAACTTAC
7077665 A
1 A
7077666 TTAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:7077687 original size:31 final size:31
Alignment explanation
Indices: 7077652--7078004 Score: 187
Period size: 31 Copynumber: 11.6 Consensus size: 31
7077642 AACTTACAAC
7077652 TTACATAACTTACATTAATATTATATATAAA
1 TTACATAACTTACATTAATATTATATATAAA
*
7077683 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATATATAAA
* * *
7077714 TTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTT-A--CATTAATATTATATATAAA
* * * **
7077748 TTACCTAACTTAATTAATTAATATTATACATAGC
1 TTACATAACTT-A--CATTAATATTATATATAAA
* *
7077782 TTAC--AACTTACA-TAA-CTTACAT-TAATA
1 TTACATAACTTACATTAATATTATATATAA-A
* * *
7077809 TTACACATAAATTACA-TAA-CTTACAT-TAATA
1 TT--ACATAACTTACATTAATATTATATATAA-A
* * *
7077840 TTACACATAAATTACA-TAA-CTTACAT-T-AA
1 TT--ACATAACTTACATTAATATTATATATAAA
*
7077869 -TACATAACTTAAATTACATAACTTA-AT-T-AA
1 TTACATAACTTACATTA-AT-A-TTATATATAAA
* * *
7077899 TTA-AT-A-TTACA--CATA--ACT-TACAAC
1 TTACATAACTTACATTAATATTA-TATATAAA
*
7077923 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATATATAAA
*
7077954 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATATATAAA
7077985 TTACATAACTTACATTAATA
1 TTACATAACTTACATTAATA
7078005 CGACATAACT
Statistics
Matches: 273, Mismatches: 23, Indels: 52
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.00
22 1 0.00
24 5 0.02
25 4 0.01
26 13 0.05
27 13 0.05
28 9 0.03
29 8 0.03
30 9 0.03
31 151 0.55
32 6 0.02
34 53 0.19
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.38
Consensus pattern (31 bp):
TTACATAACTTACATTAATATTATATATAAA
Found at i:7077951 original size:134 final size:136
Alignment explanation
Indices: 7077640--7078005 Score: 612
Period size: 134 Copynumber: 2.7 Consensus size: 136
7077630 CATAACTTAT
*
7077640 ATAACTTACAACTTACATAACTTACATTAATATTATATATAAATTACATAACTTACATTAATATT
1 ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
* * *
7077705 ATACATAAATTACATAACTTA-ATTAATTAATATTATACATAACTTACCTAACTTAATTAATTAA
66 ATACATAAATTACATAACTTACATTAA-T-ACATTATACATAAATTACATAACTTAATTAATTAA
*
7077769 TATTATAC
129 TATTACAC
* *
7077777 ATAGCTTACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATT
1 ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
* *
7077842 ACACATAAATTACATAACTTACATTAATACA-TA-ACTTAAATTACATAACTTAATTAATTAATA
66 ATACATAAATTACATAACTTACATTAATACATTATACATAAATTACATAACTTAATTAATTAATA
7077905 TTACAC
131 TTACAC
7077911 ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
1 ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
7077976 ATACATAAATTACATAACTTACATTAATAC
66 ATACATAAATTACATAACTTACATTAATAC
7078006 GACATAACTT
Statistics
Matches: 216, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
134 124 0.57
135 2 0.01
136 2 0.01
137 83 0.38
138 5 0.02
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (136 bp):
ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATT
ATACATAAATTACATAACTTACATTAATACATTATACATAAATTACATAACTTAATTAATTAATA
TTACAC
Found at i:7078019 original size:112 final size:109
Alignment explanation
Indices: 7077790--7078005 Score: 222
Period size: 103 Copynumber: 2.0 Consensus size: 109
7077780 GCTTACAACT
* * *
7077790 TACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATATTACACATAAATTAC
1 TACATAACTTA-ATTAACA-TA-ACTTAAATTACATAACTTACATTAATATTATACATAAATTAC
* * *
7077855 ATAACTT-A-CATTAATA-CATAACTTAAATTACATAACTTA-ATTAA
63 ATAACTTAATAATTAATATTAT-ACATAAATTACATAACTTACATTAA
7077899 T---TAA--T-ATTACACATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTAC
1 TACATAACTTAATTA-ACATAACTTA-AA-TTACATAACTTACATTAATATTATACATAAATTAC
*
7077958 ATAACTT-A-CATTAATATTATACATAAATTACATAACTTACATTAA
63 ATAACTTAATAATTAATATTATACATAAATTACATAACTTACATTAA
7078003 TAC
1 TAC
7078006 GACATAACTT
Statistics
Matches: 95, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
101 4 0.04
102 8 0.08
103 70 0.74
104 9 0.09
106 3 0.03
109 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (109 bp):
TACATAACTTAATTAACATAACTTAAATTACATAACTTACATTAATATTATACATAAATTACATA
ACTTAATAATTAATATTATACATAAATTACATAACTTACATTAA
Found at i:7078043 original size:94 final size:92
Alignment explanation
Indices: 7077945--7078119 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 92
7077935 CATTAATATT
7077945 ATACATAAATTACATAACTTACATTAATA-TTATACA-TAAATTACATAACTTACATTAATACGA
1 ATACATAAATTACATAACTT--ATTAATACTTATACATTAAA-TACATAACTTACA-TAATACGA
7078008 CATAACTTATTAATATATTTATGGATAAATG
62 CATAACTTATTAATATATTTATGGATAAATG
* * * *
7078039 ATACATAACTTACATAACTTATTAATACTTTTACATTTTTAATACATAACTTATATAATACGACA
1 ATACATAAATTACATAACTTATTAATACTTATACA--TTAAATACATAACTTACATAATACGACA
7078104 TAACTTATTAATATAT
64 TAACTTATTAATATAT
7078120 ATCATATGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
92 7 0.10
93 6 0.08
94 45 0.62
95 12 0.16
96 3 0.04
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (92 bp):
ATACATAAATTACATAACTTATTAATACTTATACATTAAATACATAACTTACATAATACGACATA
ACTTATTAATATATTTATGGATAAATG
Found at i:7083684 original size:21 final size:21
Alignment explanation
Indices: 7083658--7083708 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7083648 ATACAACTTA
* *
7083658 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
7083679 AAGCAGAGGTAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
7083700 AAGCTGAGG
1 AAGCAGAGG
7083709 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:7083704 original size:87 final size:87
Alignment explanation
Indices: 7083607--7083774 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 87
7083597 GAGGCAACAT
*
7083607 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG-ATACAACTTAAAGCAGATGCGG
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGCA-ACAACTTAAAGCAGATGCGA
7083670 CAGCGAGAGAAGCAGAGGTAGCAG
64 CAGCGAGAGAAGCAGAGGTAGCAG
* * * *
7083694 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAACAGCTTAAAGTAGATGTGACA
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAACAACTTAAAGCAGATGCGACA
7083759 GCGAGAGAAGCAGAGG
66 GCGAGAGAAGCAGAGG
7083775 CTAAAGCGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 69 0.93
88 5 0.07
ACGTcount: A:0.40, C:0.16, G:0.30, T:0.13
Consensus pattern (87 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAACAACTTAAAGCAGATGCGACA
GCGAGAGAAGCAGAGGTAGCAG
Found at i:7083709 original size:21 final size:21
Alignment explanation
Indices: 7083669--7083709 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7083659 AGCAGATGCG
7083669 GCAGCGAGAGAAGCAGAGGTA
1 GCAGCGAGAGAAGCAGAGGTA
*
7083690 GCAGCGAGAGAAGCTGAGGT
1 GCAGCGAGAGAAGCAGAGGT
7083710 TCAACGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.44, T:0.07
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGTA
Found at i:7083784 original size:21 final size:21
Alignment explanation
Indices: 7083758--7083797 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7083748 TAGATGTGAC
7083758 AGCGAGAGAAGCAGAGGCTAA
1 AGCGAGAGAAGCAGAGGCTAA
* *
7083779 AGCGAGGGAAGTAGAGGCT
1 AGCGAGAGAAGCAGAGGCT
7083798 GCAGTGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCGAGAGAAGCAGAGGCTAA
Found at i:7084180 original size:43 final size:43
Alignment explanation
Indices: 7084119--7084378 Score: 334
Period size: 43 Copynumber: 6.1 Consensus size: 43
7084109 CAAAATTAGC
* *
7084119 GGCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
7084162 GGCGTTTTTCGCCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
7084205 GGCGTTTTTTGGTTAAGCGCCGCTAAAGACCATCGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
7084248 GGCGTTTTTTG-GTAAGCGCTGCTAGAGA-CACGGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
7084289 AGCGTTTTGTT--TTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTT-TTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
7084331 GGCGTTTTTAT--TTAAGCGCCACTACAGACCATGGTCTATAGC
1 GGCGTTTTT-TGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
7084373 GGCGTT
1 GGCGTT
7084379 GTAAAAAAAA
Statistics
Matches: 193, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
41 33 0.17
42 70 0.36
43 90 0.47
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (43 bp):
GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:7084326 original size:83 final size:85
Alignment explanation
Indices: 7084120--7084371 Score: 314
Period size: 83 Copynumber: 3.0 Consensus size: 85
7084110 AAAATTAGCG
* *
7084120 GCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGTGGCGTTTTTCGCCTAAGCGCCGC
1 GCGTTTTTTG-TTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCGCCTAAGCGCCGC
* *
7084185 TAAAGACCATGGTCTATAGTG
65 TAAAGACCACGGTCTATAGTA
* * * *
7084206 GCGTTTTTTGGTTAAGCGCCGCTAAAGACCATCGTCTATAGTGGCGTTTTTTG-GTAAGCGCTGC
1 GCGTTTTTT-GTTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCGCCTAAGCGCCGC
*
7084270 TAGAGA-CACGGTCTATAGTA
65 TAAAGACCACGGTCTATAGTA
*** *
7084290 GCGTTTTGTT-TTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTT-ATTTAAGCGCCAC
1 GCGTTTT-TTGTTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCGCCTAAGCGCCGC
* *
7084353 TACAGACCATGGTCTATAG
65 TAAAGACCACGGTCTATAG
7084372 CGGCGTTGTA
Statistics
Matches: 146, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
83 52 0.36
84 30 0.21
85 16 0.11
86 47 0.32
87 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (85 bp):
GCGTTTTTTGTTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCGCCTAAGCGCCGCT
AAAGACCACGGTCTATAGTA
Found at i:7090518 original size:47 final size:47
Alignment explanation
Indices: 7090464--7091013 Score: 922
Period size: 47 Copynumber: 11.6 Consensus size: 47
7090454 TATTTGAATA
* *
7090464 AATGTGAAAGTGTATATATGTGATAATGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
7090511 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
7090558 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATG
7090607 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATG
*
7090656 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
7090705 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
7090752 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
7090799 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
7090846 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
7090893 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
7090940 AATGTGAAAGTGTATATATGTGAT-AGGGCTGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATG
* *
7090987 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
7091014 TCCCGAAGGG
Statistics
Matches: 483, Mismatches: 14, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
46 4 0.01
47 338 0.70
48 2 0.00
49 136 0.28
51 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:7099153 original size:16 final size:16
Alignment explanation
Indices: 7099132--7099165 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7099122 AATATACTAG
7099132 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
7099148 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
7099164 TT
1 TT
7099166 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:7099403 original size:16 final size:16
Alignment explanation
Indices: 7099382--7099423 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7099372 AATAATTTGA
*
7099382 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
7099398 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
7099414 TAGTTTTAAT
1 TAATTTTAAT
7099424 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:7101227 original size:3 final size:3
Alignment explanation
Indices: 7101219--7101265 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
7101209 AATAAAACTG
* * *
7101219 ATA ATA ATAA ATA GTA ATA ATA ATA ATA ACA ATA AT- ATA AAA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7101264 AT
1 AT
7101266 TAATTAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:7113703 original size:25 final size:26
Alignment explanation
Indices: 7113674--7113730 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
7113664 AAAATTTCCA
7113674 ATATCA-TACCAAAATATT-TAACGTT
1 ATATCAGTACCAAAAT-TTATAACGTT
* *
7113699 ATATCAGTACTAAAATTTATAATGTT
1 ATATCAGTACCAAAATTTATAACGTT
7113725 ATATCA
1 ATATCA
7113731 AAATTTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (26 bp):
ATATCAGTACCAAAATTTATAACGTT
Found at i:7116243 original size:24 final size:24
Alignment explanation
Indices: 7116216--7116292 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
7116206 TACATAAAAG
*
7116216 ATGCATATATATTATAAAAAAACC
1 ATGCATATATATTATATAAAAACC
*
7116240 ATGCGA-GTATATTATATAAAAA-C
1 ATGC-ATATATATTATATAAAAACC
*
7116263 ATGCATATATAAATTATATAAAAACA
1 ATGCATATAT--ATTATATAAAAACC
7116289 ATGC
1 ATGC
7116293 GTGTATGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.02
23 8 0.18
24 18 0.41
25 13 0.30
26 4 0.09
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (24 bp):
ATGCATATATATTATATAAAAACC
Found at i:7116305 original size:25 final size:23
Alignment explanation
Indices: 7116223--7116305 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
7116213 AAGATGCATA
* * *
7116223 TATATTATAAAAAAACCATGCGAG
1 TATAATATATAAAAA-CATGCGTG
* * *
7116247 TATATTATATAAAAACATGCATA
1 TATAATATATAAAAACATGCGTG
7116270 TATAAATTATATAAAAACAATGCGTG
1 TAT-AA-TATATAAAAAC-ATGCGTG
7116296 TATGAATATA
1 TAT-AATATA
7116306 GAAATAATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 8 0.17
24 15 0.31
25 15 0.31
26 10 0.21
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (23 bp):
TATAATATATAAAAACATGCGTG
Found at i:7118093 original size:89 final size:88
Alignment explanation
Indices: 7117794--7118461 Score: 628
Period size: 89 Copynumber: 7.5 Consensus size: 88
7117784 AAGATTTATA
* * ** * *
7117794 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGAGCTACTTTACTGC
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-TGC
*
7117859 CAGTACAGGAAGACAAGATCTGTT
65 CAATACAGGAAGACAAGATCTGTT
* * * ** *
7117883 ATCTTCGATCTACTTCACCACTAGTATGGGAAGACAATATCTGCTATCTTTGATCTACTTCACTG
1 -TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-TG
* *
7117948 CCAGTACAGGAAGACAAGGTCTGTT
64 CCAATACAGGAAGACAAGATCTGTT
*
7117973 ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGC
1 -TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGC
* *
7118038 CAATACATGAAGACAAGATCTACTT
65 CAATACAGGAAGACAAGATCT-GTT
* * * * * *
7118063 TCTTCGATCTATTTCACCACCAGTATAGGAAGACAAGATCTACTCTCTTTGATCTACTTCATGCC
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
* *
7118128 AATACATGAAGACAAGATCTGTCA
66 AATACAGGAAGACAAGATCTGT-T
* * ** *
7118152 TCTTCGATCTATTTCA-TGCCAATACATAAAGACAAGATCTGCT-TTTTTCGATCTACTT--TGC
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTT-GATCTACTTCATGC
** *
7118213 CACCAGTATGGGAAGACAAGATCTGCTA
65 CA--A-TACAGGAAGACAAGATCTG-TT
* ** ** * * *
7118241 TCTTCAATCTACTTCA-TGGCAATACATAAAGACAAGATCTGCCATCTTCGATTTACTTCATGCC
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
** *
7118305 AATACATAAAGACAAGATCTGCTA
66 AATACAGGAAGACAAGATCTG-TT
* * * * * * **
7118329 TCTTCGATCTACTTCA-TGCCAATACATGAAGATAAGATCTGCTTTCTTCGACCTACTTCACCAC
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-TGC
* **
7118393 CAGTATGGGAAGACAAGATCTGTT
65 CAATACAGGAAGACAAGATCTGTT
* * * *
7118417 ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCT
1 -TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCT
7118462 GCTTTTCAAC
Statistics
Matches: 493, Mismatches: 72, Indels: 26
0.83 0.12 0.04
Matches are distributed among these distances:
86 5 0.01
87 4 0.01
88 102 0.21
89 212 0.43
90 165 0.33
91 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTACCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATGCC
AATACAGGAAGACAAGATCTGTT
Found at i:7118175 original size:133 final size:134
Alignment explanation
Indices: 7117792--7118432 Score: 718
Period size: 133 Copynumber: 4.8 Consensus size: 134
7117782 ATAAGATTTA
* * * * * *
7117792 TATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTATCTTTGAGCTACTTTACT
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACT
* * * * *
7117857 GCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCA--CCACTAGTATGGGAAGACAA
66 GCCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATA-CAT--AAAGACAA
*
7117920 TATCTGC
128 GATCTGC
* ** * * *
7117927 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGGTCTGTTATCTTCGATCTACTTCACT
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACT
* *
7117992 GCCAATACAGGAAGACAAGATCTG-CTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGA
66 GCCAATACAGGAAGACAAGATCTGTC-ATCTTCGATCTACTTCATGCCAATACATAAAGACAAGA
*
7118056 TCTAC
130 TCTGC
* * * * *
7118061 TTTCTTCGATCTATTTCACCACCAGTATAGGAAGACAAGATCTACTCTCTTTGATCTACTTCA-T
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACT
* *
7118125 GCCAATACATGAAGACAAGATCTGTCATCTTCGATCTATTTCATGCCAATACATAAAGACAAGAT
66 GCCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGAT
7118190 CTGC
131 CTGC
* * ** * *
7118194 TTTTTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCTACTTCA-T
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACT
* ** * *
7118258 GGCAATACATAAAGACAAGATCTGCCATCTTCGATTTACTTCATGCCAATACATAAAGACAAGAT
66 GCCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGAT
7118323 CTGC
131 CTGC
** * * * * * * *
7118327 TATCTTCGATCTACTTCA-TGCCAATACATGAAGATAAGATCTGCTTTCTTCGACCTACTTCACC
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACT
* * ** * *
7118391 ACCAGTATGGGAAGACAAGATCTGTTATCTTCGATCCACTTC
66 GCCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTC
7118433 GCTACCAATA
Statistics
Matches: 426, Mismatches: 75, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
132 34 0.08
133 227 0.53
134 66 0.15
135 92 0.22
136 2 0.00
137 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (134 bp):
TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACT
GCCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGAT
CTGC
Found at i:7118288 original size:44 final size:44
Alignment explanation
Indices: 7117822--7118461 Score: 624
Period size: 45 Copynumber: 14.4 Consensus size: 44
7117812 ACCAATATGG
* * * * *
7117822 GAAGACAAGATCTGCTATCTTTGAGCTACTTTACTGCCAGTACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACAT
* * *
7117867 GAAGACAAGATCTGTTATCTTCGATCTACTTCA--CCACTAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATA-CAT
* * * *
7117910 GGGAAGACAATATCTGCTATCTTTGATCTACTTCACTGCCAGTACAG
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACAT
* * *
7117957 GAAGACAAGGTCTGTTATCTTCGATCTACTTCACTGCCAATACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACAT
*
7118002 GAAGACAAGATCTGCTATCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
* * * ** * * *
7118046 GAAGACAAGATCTACTTTCTTCGATCTATTTCACCACCAGTATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACAT
* * *
7118091 GAAGACAAGATCTACTCTCTTTGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
*
7118135 GAAGACAAGATCTG-TCATCTTCGATCTATTTCATGCCAATACAT
1 GAAGACAAGATCTGCT-ATCTTCGATCTACTTCATGCCAATACAT
* * * ***
7118179 AAAGACAAGATCTGCTTTTTTCGATCTACTT--TGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCA--A-TACAT
* *
7118224 GAAGACAAGATCTGCTATCTTCAATCTACTTCATGGCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
* * *
7118268 AAAGACAAGATCTGCCATCTTCGATTTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
*
7118312 AAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
* * * ** * ***
7118356 GAAGATAAGATCTGCTTTCTTCGACCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGCCAATACAT
* * * * * *
7118401 GAAGACAAGATCTGTTATCTTCGATCCACTTCGCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ATGCCAATACAT
*
7118446 GAAGACAGGATCTGCT
1 GAAGACAAGATCTGCT
7118462 GCTTTTCAAC
Statistics
Matches: 493, Mismatches: 86, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
42 10 0.02
43 2 0.00
44 221 0.45
45 250 0.51
47 5 0.01
48 5 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGCCAATACAT
Found at i:7119764 original size:6 final size:6
Alignment explanation
Indices: 7119753--7119785 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7119743 TGGTCTCTCA
*
7119753 TTTCTT TTTCTT TTTCTT TTTCCT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
7119786 TCATCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:7120425 original size:18 final size:18
Alignment explanation
Indices: 7120399--7120441 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7120389 TGGTTTGGCA
*
7120399 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
7120417 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
7120435 GAAAGAA
1 GAAAGAA
7120442 CATTTGCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:7122356 original size:19 final size:20
Alignment explanation
Indices: 7122332--7122377 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7122322 TAACGGTGTT
* *
7122332 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
7122351 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
7122371 -AATGCAA
1 TAATGCAA
7122378 GAAAGAGACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:7122424 original size:14 final size:14
Alignment explanation
Indices: 7122405--7122431 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7122395 TGGTTCAATT
7122405 CTTTACTAGAAAAA
1 CTTTACTAGAAAAA
7122419 CTTTACTAGAAAA
1 CTTTACTAGAAAA
7122432 CAAATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
CTTTACTAGAAAAA
Found at i:7122845 original size:16 final size:16
Alignment explanation
Indices: 7122824--7122857 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7122814 TTCTATAATG
7122824 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
7122840 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
7122856 AA
1 AA
7122858 GTGAAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:7133644 original size:22 final size:23
Alignment explanation
Indices: 7133618--7133676 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
7133608 GGATGGTGAT
* *
7133618 GTTAAATTCATTAAGCATGATTA
1 GTTAAATTAATTAAGCATAATTA
* *
7133641 -TTAAGTTAATTAAGTATAATTA
1 GTTAAATTAATTAAGCATAATTA
7133663 GTTAAATTAATTAA
1 GTTAAATTAATTAA
7133677 ATCTTAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (23 bp):
GTTAAATTAATTAAGCATAATTA
Found at i:7142630 original size:18 final size:17
Alignment explanation
Indices: 7142593--7142682 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
7142583 GCTCATAGTC
*
7142593 TTGGTGAGCTCAGAATT
1 TTGGTGAGCTCACAATT
7142610 TTGGGTGAGCTCACACA-T
1 TT-GGTGAGCTCACA-ATT
** * *
7142628 TTGGTGAGCTCGTAGTC
1 TTGGTGAGCTCACAATT
*
7142645 TTGGTAAGCTCACAGA-T
1 TTGGTGAGCTCACA-ATT
* *
7142662 ATGGTGAGCTCACAAAT
1 TTGGTGAGCTCACAATT
7142679 TTGG
1 TTGG
7142683 GTTAGCTTGC
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
16 1 0.02
17 39 0.71
18 14 0.25
19 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (17 bp):
TTGGTGAGCTCACAATT
Found at i:7142644 original size:52 final size:51
Alignment explanation
Indices: 7142563--7142682 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 51
7142553 GCAGCTTTAA
* * * *
7142563 TGAGCTCGCAC-TATTGGAGAGCTCATAGTCTTGGTGAGCTCAGA-ATTTTGGG
1 TGAGCTCACACAT-TTGGAGAGCTCATAGTCTTGGTAAGCTCACAGA-TAT-GG
* *
7142615 TGAGCTCACACATTTGGTGAGCTCGTAGTCTTGGTAAGCTCACAGATATGG
1 TGAGCTCACACATTTGGAGAGCTCATAGTCTTGGTAAGCTCACAGATATGG
*
7142666 TGAGCTCACAAATTTGG
1 TGAGCTCACACATTTGG
7142683 GTTAGCTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 18 0.31
52 39 0.66
53 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
TGAGCTCACACATTTGGAGAGCTCATAGTCTTGGTAAGCTCACAGATATGG
Found at i:7143515 original size:24 final size:23
Alignment explanation
Indices: 7143431--7143508 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
7143421 CGGTCATTTC
* *
7143431 TTTTAATTTCATTTGTGTCTCTT
1 TTTTTATTTAATTTGTGTCTCTT
* *
7143454 TTTTTGTTTAATAT-TG-CTCATT
1 TTTTTATTTAATTTGTGTCTC-TT
*
7143476 TCTTTTAATTTGATTTGTGTCTCTT
1 T-TTTT-ATTTAATTTGTGTCTCTT
7143501 TTTTTATT
1 TTTTTATT
7143509 ATTATTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
21 3 0.07
22 5 0.12
23 17 0.40
24 10 0.23
25 5 0.12
26 3 0.07
ACGTcount: A:0.14, C:0.10, G:0.09, T:0.67
Consensus pattern (23 bp):
TTTTTATTTAATTTGTGTCTCTT
Found at i:7147913 original size:32 final size:31
Alignment explanation
Indices: 7147868--7147963 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
7147858 CTTAGATAAT
7147868 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
7147899 TTTAAAGAGTTTTTATTATGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
7147931 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
7147962 TT
1 TT
7147964 GTAATTTGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:7159678 original size:14 final size:14
Alignment explanation
Indices: 7159655--7159701 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
7159645 AAAGCACTTT
*
7159655 TGAAAGAAAAGCTG
1 TGAAAAAAAAGCTG
7159669 TGAAAAAAAAGCTG
1 TGAAAAAAAAGCTG
*
7159683 TG-AAAACAAGCTG
1 TGAAAAAAAAGCTG
7159696 TGAAAA
1 TGAAAA
7159702 CAAGCTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.53, C:0.09, G:0.23, T:0.15
Consensus pattern (14 bp):
TGAAAAAAAAGCTG
Found at i:7159688 original size:13 final size:13
Alignment explanation
Indices: 7159655--7159709 Score: 74
Period size: 13 Copynumber: 4.1 Consensus size: 13
7159645 AAAGCACTTT
7159655 TGAAAGAAAAGCTG
1 TGAAA-AAAAGCTG
7159669 TGAAAAAAAAGCTG
1 TG-AAAAAAAGCTG
*
7159683 TGAAAACAAGCTG
1 TGAAAAAAAGCTG
*
7159696 TGAAAACAAGCTG
1 TGAAAAAAAGCTG
7159709 T
1 T
7159710 TTTTGACTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
13 24 0.62
14 12 0.31
15 3 0.08
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.16
Consensus pattern (13 bp):
TGAAAAAAAGCTG
Found at i:7159985 original size:33 final size:35
Alignment explanation
Indices: 7159948--7160044 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
7159938 ATGGTTATAT
7159948 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
7159981 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
7160016 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
7160045 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:7161922 original size:3 final size:3
Alignment explanation
Indices: 7161914--7161952 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7161904 ATATTTTTGC
7161914 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
7161953 TTTTCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:7164859 original size:28 final size:26
Alignment explanation
Indices: 7164809--7164860 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
7164799 TTTATTTTTT
**
7164809 ATTTTTTATTTTAAATACTTTTTTAA
1 ATTTTTTATTTTAAATAAATTTTTAA
7164835 ATTTTTTATTTTTAAAATAAATTTTT
1 ATTTTTTA-TTTT-AAATAAATTTTT
7164861 GGTGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 4 0.18
28 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTTTATTTTAAATAAATTTTTAA
Found at i:7169091 original size:6 final size:6
Alignment explanation
Indices: 7169082--7169131 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
7169072 TTTAAATTTT
* *
7169082 ATATTA ATATTA ATATTA ATATTA A-ATAA ATATAATT ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATAT--TA ATATTA ATATTA
7169131 A
1 A
7169132 ATAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 4 0.11
6 29 0.78
8 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATTA
Found at i:7169123 original size:25 final size:24
Alignment explanation
Indices: 7169094--7169140 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
7169084 ATTAATATTA
7169094 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAA-ATAATT
7169119 ATATTAATATTAAATAAAATAA
1 ATATTAATATTAAATAAAATAA
7169141 AAAACCCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATTAATATTAAATAAAATAATT
Found at i:7170679 original size:24 final size:24
Alignment explanation
Indices: 7170628--7170689 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
7170618 TAGCTCGAAA
* * *
7170628 GAGCGTCCCATTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCCCTCAT
7170652 GAGCATCCCGTTATTAGCCCTC-T
1 GAGCATCCCGTTATTAGCCCTCAT
*
7170675 CGAGCTTCCCGTTAT
1 -GAGCATCCCGTTAT
7170690 ATAGTTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCCCTCAT
Found at i:7170935 original size:73 final size:75
Alignment explanation
Indices: 7170791--7170946 Score: 176
Period size: 73 Copynumber: 2.1 Consensus size: 75
7170781 AGCGTCTCGT
* * * * * *
7170791 TATATGGCTCTTCGTGAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCCCGATATGGCTTGCCTA
1 TATATGGCTATCCGTGAGCTTCCTGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATA
7170856 AACTTCCCGA
66 AACTTCCCGA
* * *
7170866 TATATGGCTATCCG-GAGCTTCTTG-TTAATGGCTCTTCG-GAGCTACCCGTTATAGGCTCGCAT
1 TATATGGCTATCCGTGAGCTTCCTGATTAAAGGCTCTTCGTGAGCTACCCGATAT-GGCTCGCAT
* *
7170928 GAGCTTCCCGA
65 AAACTTCCCGA
7170939 T-TATGGCT
1 TATATGGCT
7170947 CTTATGAACT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
72 19 0.28
73 29 0.42
74 9 0.13
75 12 0.17
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (75 bp):
TATATGGCTATCCGTGAGCTTCCTGATTAAAGGCTCTTCGTGAGCTACCCGATATGGCTCGCATA
AACTTCCCGA
Found at i:7170953 original size:24 final size:24
Alignment explanation
Indices: 7170772--7170958 Score: 69
Period size: 24 Copynumber: 7.6 Consensus size: 24
7170762 ACACACCGCA
* * *
7170772 GCTCTTATGAGCGTCTCGTTATATG
1 GCTCTTATGAGCTTCCCGAT-TATG
* * *
7170797 GCTCTTCGTGAGCTTCCTGATTAAAG
1 GCTCTT-ATGAGCTTCCCGATT-ATG
*
7170823 GCTCTTTGTGAGCTTCCCGA-TATG
1 GCTC-TTATGAGCTTCCCGATTATG
* *
7170847 GCTTGCCTA--AACTTCCCGATATATG
1 GC-T-CTTATGAGCTTCCCGAT-TATG
* *** **
7170872 GCTATCCGGAGCTTCTTG-TTAATG
1 GCTCTTATGAGCTTCCCGATT-ATG
** *
7170896 GCTCTTCGGAGCTACCCG-TTATAG
1 GCTCTTATGAGCTTCCCGATTAT-G
**
7170920 GCTCGCATGAGCTTCCCGATTATG
1 GCTCTTATGAGCTTCCCGATTATG
*
7170944 GCTCTTATGAACTTC
1 GCTCTTATGAGCTTC
7170959 TCGTATTACA
Statistics
Matches: 119, Mismatches: 31, Indels: 25
0.68 0.18 0.14
Matches are distributed among these distances:
23 12 0.10
24 51 0.43
25 26 0.22
26 28 0.24
27 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Found at i:7177536 original size:21 final size:21
Alignment explanation
Indices: 7177511--7177702 Score: 93
Period size: 21 Copynumber: 9.1 Consensus size: 21
7177501 CCGAAGGCTG
*
7177511 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* *
7177532 AACAGAAACTCATAAGAGTTA
1 AACAGAAGCTCATAAGAGCTA
*** * *
7177553 ATTGGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * * *
7177574 AACAAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
7177595 AACAGAAGCTCA-ATAGAGCTTA
1 AACAGAAGCTCATA-AGAGC-TA
* * * * *
7177617 AA-GGAAACTCATATGAGTTG
1 AACAGAAGCTCATAAGAGCTA
* * *
7177637 AACAGAAGCTCAAAAGTGCTG
1 AACAGAAGCTCATAAGAGCTA
* * *
7177658 AAC-GAAAACTCATATGAGTTA
1 AACAG-AAGCTCATAAGAGCTA
* * *
7177679 AACTGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
7177700 AAC
1 AAC
7177703 GGAAAGTAAA
Statistics
Matches: 118, Mismatches: 47, Indels: 12
0.67 0.27 0.07
Matches are distributed among these distances:
20 5 0.04
21 107 0.91
22 6 0.05
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:7177603 original size:42 final size:42
Alignment explanation
Indices: 7177511--7177698 Score: 164
Period size: 42 Copynumber: 4.5 Consensus size: 42
7177501 CCGAAGGCTG
* * *
7177511 AACAGAAGCTCATGAGAGCTAAACAGAAACTCATAAGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGTTA
*** * * *
7177553 ATTGGAAGCTCGTAAGAGCTGAACAAAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGTTA
* * * *
7177595 AACAGAAGCTCA-ATAGAGCTTAA-AGGAAACTCATATGAGTTG
1 AACAGAAGCTCATA-AGAGCTGAACA-AAAACTCATAAGAGTTA
* * * *
7177637 AACAGAAGCTCAAAAGTGCTGAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGTTA
* * *
7177679 AACTGAAGCTCGTGAGAGCT
1 AACAGAAGCTCATAAGAGCT
7177699 AAACGGAAAG
Statistics
Matches: 113, Mismatches: 29, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
41 2 0.02
42 110 0.97
43 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAAAAACTCATAAGAGTTA
Found at i:7177658 original size:84 final size:84
Alignment explanation
Indices: 7177511--7177707 Score: 220
Period size: 84 Copynumber: 2.3 Consensus size: 84
7177501 CCGAAGGCTG
** **
7177511 AACAGAAGCTCATGAGAGCTAAACAGAAACTCATAAGAGTTAATTGGAAGCTCGTAAGAGCTGAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAACTCATAAGAGTTAATCAGAAGCTCAAAAGAGCTGAA
*
7177576 CAAAAACCCATAAGGGTTA
66 CAAAAACCCATAAGAGTTA
* * *
7177595 AACAGAAGCTCAAT-AGAGCTTAAA-GGAAACTCATATGAGTTGAA-CAGAAGCTCAAAAGTGCT
1 AACAGAAGCTC-ATGAGAGC-TAAACAGAAACTCATAAGAGTT-AATCAGAAGCTCAAAAGAGCT
* * *
7177657 GAACGAAAACTCATATGAGTTA
63 GAACAAAAACCCATAAGAGTTA
* * *
7177679 AACTGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAA
7177708 GTAAACATGA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
83 5 0.05
84 82 0.86
85 8 0.08
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (84 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAACTCATAAGAGTTAATCAGAAGCTCAAAAGAGCTGAA
CAAAAACCCATAAGAGTTA
Found at i:7178331 original size:16 final size:16
Alignment explanation
Indices: 7178310--7178340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7178300 ATTTGGTCCT
7178310 AAAATTAATATCTAAC
1 AAAATTAATATCTAAC
*
7178326 AAAATTATTATCTAA
1 AAAATTAATATCTAA
7178341 AATCATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTAATATCTAAC
Found at i:7179728 original size:20 final size:20
Alignment explanation
Indices: 7179703--7179741 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7179693 ACCTAAGTGT
7179703 TAGTAACAACTATTTCTAAC
1 TAGTAACAACTATTTCTAAC
7179723 TAGTAACAACTATTTCTAA
1 TAGTAACAACTATTTCTAA
7179742 ATAAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
TAGTAACAACTATTTCTAAC
Found at i:7181258 original size:20 final size:21
Alignment explanation
Indices: 7181208--7181275 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
7181198 AAAAAATATA
*
7181208 AATTCTGAAATTTTTATAAA-T
1 AATT-TGAAATTTTTAAAAACT
** *
7181229 -ATTTTTAA-TTTTAAAAATT
1 AATTTGAAATTTTTAAAAACT
*
7181248 AATTTGAAATTTTTGAAAACT
1 AATTTGAAATTTTTAAAAACT
7181269 AATTTGA
1 AATTTGA
7181276 TTTTTCTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 8 0.22
19 4 0.11
20 9 0.24
21 16 0.43
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (21 bp):
AATTTGAAATTTTTAAAAACT
Found at i:7186933 original size:2 final size:2
Alignment explanation
Indices: 7186926--7186976 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7186916 ACAAATCTTT
7186926 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
7186968 TC TC TC TC T
1 TC TC TC TC T
7186977 TTGTCTTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7196512 original size:20 final size:21
Alignment explanation
Indices: 7196487--7196530 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
7196477 ATAAAATATT
7196487 AAAAATAAATATT-TTTTTTA
1 AAAAATAAATATTATTTTTTA
*
7196507 AAAAATACATATTAATTTTTTA
1 AAAAATAAATATT-ATTTTTTA
7196529 AA
1 AA
7196531 GTTGTTTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAAATAAATATTATTTTTTA
Found at i:7201151 original size:34 final size:34
Alignment explanation
Indices: 7201086--7201151 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
7201076 ATGTTAAGTT
* *
7201086 TACATATATATATATATGGGTAGTATTGAATACA
1 TACAAATATATATATATAGGTAGTATTGAATACA
* *
7201120 TACAAATATATATGTATAGTTAGT-TTCGAATA
1 TACAAATATATATATATAGGTAGTATT-GAATA
7201152 GGTGAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.07
34 25 0.93
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (34 bp):
TACAAATATATATATATAGGTAGTATTGAATACA
Found at i:7201467 original size:41 final size:41
Alignment explanation
Indices: 7201422--7201566 Score: 238
Period size: 41 Copynumber: 3.5 Consensus size: 41
7201412 GACTTTAAGT
*
7201422 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
7201463 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
7201504 CTAGCAAGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
7201545 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
7201567 ATATGTTAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 1 0.01
41 97 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:7204621 original size:16 final size:15
Alignment explanation
Indices: 7204600--7204630 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7204590 AACCCTAATT
7204600 TTTCCTTTCTTCTTTC
1 TTTCCTTT-TTCTTTC
7204616 TTTCCTTTTTCTTTC
1 TTTCCTTTTTCTTTC
7204631 CTGTCCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCCTTTTTCTTTC
Found at i:7204869 original size:30 final size:29
Alignment explanation
Indices: 7204835--7204891 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
7204825 TTATCAAATA
7204835 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
*
7204865 AATAAATATCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
7204892 GAAAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:7205783 original size:18 final size:18
Alignment explanation
Indices: 7205762--7205796 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7205752 TACAAAACAT
* *
7205762 AAGAATATATGTACGTAG
1 AAGAAAATATATACGTAG
7205780 AAGAAAATATATACGTA
1 AAGAAAATATATACGTA
7205797 TGTGAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (18 bp):
AAGAAAATATATACGTAG
Found at i:7205829 original size:17 final size:17
Alignment explanation
Indices: 7205807--7205841 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7205797 TGTGAATTAT
*
7205807 AAAAATAAAATAAGATA
1 AAAAATAAAATAAAATA
*
7205824 AAAAATGAAATAAAATA
1 AAAAATAAAATAAAATA
7205841 A
1 A
7205842 TATATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAATA
Found at i:7206096 original size:3 final size:3
Alignment explanation
Indices: 7206076--7206151 Score: 66
Period size: 3 Copynumber: 25.3 Consensus size: 3
7206066 AAATAAAAAC
* * *
7206076 ATA ACA ATA ATA ACA ATA AT- ATCA ATA ATA ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * *
7206121 GTA A-A GATA ATA AAA ACA ATA ATA ATA ATA A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
7206152 AAGATGATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
2 3 0.05
3 52 0.90
4 3 0.05
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:7210449 original size:34 final size:35
Alignment explanation
Indices: 7210371--7210450 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
7210361 AAGTAAAATG
*
7210371 AAAATATAAAAAAATATGTATATGTATATATATTT
1 AAAATATAAAAAAATATGTATATGTATATATATAT
* ** * *
7210406 ACAGCATAAAAGAA-ATGTATATGTATATATCTAT
1 AAAATATAAAAAAATATGTATATGTATATATATAT
7210440 AAAATATAAAA
1 AAAATATAAAA
7210451 TATATAAAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 26 0.72
35 10 0.28
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATATAAAAAAATATGTATATGTATATATATAT
Found at i:7210702 original size:5 final size:5
Alignment explanation
Indices: 7210692--7210716 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7210682 ACAATAGCGT
7210692 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
7210717 GTTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:7211313 original size:21 final size:20
Alignment explanation
Indices: 7211274--7211317 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
7211264 TTCACAAAAC
*
7211274 AAATGAAAAGAAAAAAGAAT
1 AAATAAAAAGAAAAAAGAAT
*
7211294 AAATAAAAATGAAAATAGAAT
1 AAATAAAAA-GAAAAAAGAAT
7211315 AAA
1 AAA
7211318 CGCGATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (20 bp):
AAATAAAAAGAAAAAAGAAT
Found at i:7212268 original size:44 final size:44
Alignment explanation
Indices: 7212219--7212895 Score: 479
Period size: 44 Copynumber: 15.2 Consensus size: 44
7212209 TCAGAGAGAT
* * *
7212219 AAGATCTGCTGTATTTGATCTACTTTAAGCCAATACATGAAGAC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
* * * *
7212263 AAGATCTG-TTATCTTTGATCTACCTCATGCCAATATATGAAGAC
1 AAGATCTGCTT-TCTTTGATCTACTTTACGCCAATACATGAAGAC
* * *** *
7212307 AAGATTTGCTTTCTTCGATCTAC-TT-CGCCACCAGTATGGGAAGAT
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCA--A-TACATGAAGAC
* * * * *
7212352 AAGATCTGGTATCTTTGACCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
* ***
7212396 AAGATCTGCTTTTTTTCGATCTAC-TT-CGCCACCAGTATGGGAAGAC
1 AAGATCTGCTTTCTTT-GATCTACTTTACGCCA--A-TACATGAAGAC
* * * *
7212442 AAGATCTGATATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
* * ***
7212486 AATATCTGCTTTCTTCGATCTAC-TT-CGCCACCAGTATGGGAAGAC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCA--A-TACATGAAGAC
* * *
7212531 AAGATCTG-TTATCTTTGATCTACTTCACGCTAGTACATGAAGAC
1 AAGATCTGCTT-TCTTTGATCTACTTTACGCCAATACATGAAGAC
* *
7212575 AAGATCTGCTTTCTTCGATCTAC-TT-CGCCACCAGTATGA-GAAGAC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCA--A-TA-CATGAAGAC
* *
7212620 AAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGCTT-TCTTTGATCTACTTTACGCCAATACATGAAGAC
* * ***
7212664 AAGACCTG-TTTTTTTCGATCTAC-TT-CGCCACCAGTATGGGAAGAC
1 AAGATCTGCTTTCTTT-GATCTACTTTACGCCA--A-TACATGAAGAC
* *
7212709 AAGATCTG-TTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTT-TCTTTGATCTACTTTACGCCAATACATGAAGAC
7212753 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
* * * * * *** *
7212797 AATATCTACTTT-TTTCGATCTACTTTGCCACCAGTATGGGAAGAT
1 AAGATCTGCTTTCTTT-GATCTACTTT-ACGCCAATACATGAAGAC
* * * * * *
7212842 AAGATCTGCTTTATTTGATCTACTTCATGTCAATACATAAAGAT
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
7212886 AAGATCTGCT
1 AAGATCTGCT
7212896 GCTTTTCAAC
Statistics
Matches: 490, Mismatches: 104, Indels: 78
0.73 0.15 0.12
Matches are distributed among these distances:
42 18 0.04
43 18 0.04
44 244 0.50
45 153 0.31
46 33 0.07
47 24 0.05
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGAC
Found at i:7212367 original size:89 final size:89
Alignment explanation
Indices: 7212257--7212777 Score: 862
Period size: 89 Copynumber: 5.8 Consensus size: 89
7212247 GCCAATACAT
* * * * *
7212257 GAAGACAAGATCTGTTATCTTTGATCTACCTCATGCCAATATATGAAGACAAGATTTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
7212322 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * *
7212346 GAAGATAAGATCTGGTATCTTTGACCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTTCT
7212411 TCGATCTACTTCGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* *
7212436 GAAGACAAGATCTGATATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
7212501 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
*
7212525 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
7212590 CGATCTACTTCGCCACCAGTATGA
66 CGATCTACTTCGCCACCAGTATGG
* * *
7212614 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGACCTGTTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
7212679 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
7212703 GAAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
7212768 TGATCTACTT
66 CGATCTACTT
7212778 TACGCCAATA
Statistics
Matches: 402, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
89 318 0.79
90 84 0.21
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:7212810 original size:133 final size:133
Alignment explanation
Indices: 7212219--7212895 Score: 639
Period size: 133 Copynumber: 5.1 Consensus size: 133
7212209 TCAGAGAGAT
* * * *
7212219 AAGATCTGCTGTATTTGATCTACTTTAAGCCAATACATGAAGACAAGATCTGTTATCTTT-GATC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCTCTT-T-TTTCGATC
* ** * * * *
7212283 TACCTCATGCCA--A-TATATGAAGACAAGATTTGCTT-TCTTCGATCTACTTCGCCACCAGTAT
64 TACTTC--GCCACCAGTATGGGAAGACAAGATCTGCTTATCTTCGATCTACTTC-ACGCCAGTAC
** *
7212344 GGGAAGAT
126 ATGAAGAC
* * * * *
7212352 AAGATCTGGTATCTTTGACCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTTCGATC
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCT-C-TTTTTTCGATC
* *
7212417 TACTTCGCCACCAGTATGGGAAGACAAGATCTG-ATATCTTTGATCTACTTCACGCCAGTACATG
64 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTATCTTCGATCTACTTCACGCCAGTACATG
7212481 AAGAC
129 AAGAC
* * *** *
7212486 AATATCTGCTTTCTTCGATCTAC-TT-CGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT-G
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCA--A-TACATGAAGACAAGATCTCTT-T-TTTCG
* * * *** * *
7212548 ATCTACTTC-ACGCTAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTA
61 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTATCTTCGATCTACTTC-ACGCCAGTA
*
7212611 TGA-GAAGAC
125 -CATGAAGAC
* * * *
7212620 AAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGACCTGTTTTTTTCGATC
1 AAGATCTGCTT-TCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCT-CTTTTTTCGATC
*
7212684 TACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTCGATCTACTTCACGCCAATACATG
64 TACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTATCTTCGATCTACTTCACGCCAGTACATG
7212748 AAGAC
129 AAGAC
*
7212753 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGACAATATCTACTTTTTTCGATCT
1 AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCT-CTTTTTTCGATCT
* * * * * *
7212818 ACTTTGCCACCAGTATGGGAAGATAAGATCTGCTTTAT-TT-GATCTACTTCATGTCAATACATA
65 ACTTCGCCACCAGTATGGGAAGACAAGATCTGC-TTATCTTCGATCTACTTCACGCCAGTACATG
*
7212881 AAGAT
129 AAGAC
7212886 AAGATCTGCT
1 AAGATCTGCT
7212896 GCTTTTCAAC
Statistics
Matches: 445, Mismatches: 73, Indels: 52
0.78 0.13 0.09
Matches are distributed among these distances:
132 13 0.03
133 245 0.55
134 126 0.28
135 56 0.13
136 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (133 bp):
AAGATCTGCTTTCTTTGATCTACTTTACGCCAATACATGAAGACAAGATCTCTTTTTTCGATCTA
CTTCGCCACCAGTATGGGAAGACAAGATCTGCTTATCTTCGATCTACTTCACGCCAGTACATGAA
GAC
Found at i:7212864 original size:178 final size:177
Alignment explanation
Indices: 7212219--7212867 Score: 810
Period size: 178 Copynumber: 3.6 Consensus size: 177
7212209 TCAGAGAGAT
* * *
7212219 AAGATCTGCTGTATTTGATCTACTTTAAGCCA-A-TACATGAAGACAAGATCTGTTATCTTTGAT
1 AAGATCTGCTTTCTTTGATCTAC-TT-CGCCACAGTACATGAAGACAAGATCTGTTATCTTTGAT
* ** * * *
7212282 CTACCTCATGCCAATATATGAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
64 CTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
* * *
7212347 AAGATAAGATCTGGTATCTTTGACCTACTTCACGCCAGTACATGAAGAC
129 AAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* *** *
7212396 AAGATCTGCTTTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGATATCTTTGAT
1 AAGATCTGCTTTCTTT-GATCTACTTCGCCA-CAGTACATGAAGACAAGATCTGTTATCTTTGAT
* *
7212461 CTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
64 CTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
*
7212526 AAGACAAGATCTGTTATCTTTGATCTACTTCACGCTAGTACATGAAGAC
129 AAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* *
7212575 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGA-GAAGACAAGATCTGTTATCTTTGAT
1 AAGATCTGCTTTCTTTGATCTACTTCGCCA-CAGTA-CATGAAGACAAGATCTGTTATCTTTGAT
* * * *
7212639 CTACTTCACGCCAGTACATGAAGACAAGACCTGTTTTTTTCGATCTACTTCGCCACCAGTATGGG
64 CTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
* *
7212704 AAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAC
129 AAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* *
7212753 AAGATCTGCTTTCTTTGATCTACTTTACGCCA-A-TACATGAAGACAATATCTACTT-T-TTTCG
1 AAGATCTGCTTTCTTTGATCTAC-TT-CGCCACAGTACATGAAGACAAGATCT-GTTATCTTT-G
*** * * *
7212814 ATCTACTTTGC-CACCAGTATGGGAAGATAAGATCTGCTTTATTTGATCTACTTC
62 ATCTAC-TT-CACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
7212868 ATGTCAATAC
Statistics
Matches: 418, Mismatches: 42, Indels: 23
0.87 0.09 0.05
Matches are distributed among these distances:
176 8 0.02
177 38 0.09
178 220 0.53
179 147 0.35
180 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (177 bp):
AAGATCTGCTTTCTTTGATCTACTTCGCCACAGTACATGAAGACAAGATCTGTTATCTTTGATCT
ACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
GACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
Found at i:7214208 original size:14 final size:14
Alignment explanation
Indices: 7214191--7214237 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7214181 CCATTTTTAC
7214191 TTTTTACTTTTTCA
1 TTTTTACTTTTTCA
7214205 TTTTT-CATTTTTCA
1 TTTTTAC-TTTTTCA
*
7214219 TTTTCA-TCTTTTCA
1 TTTTTACT-TTTTCA
7214233 TTTTT
1 TTTTT
7214238 TCACATCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 26 0.93
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTTACTTTTTCA
Found at i:7214240 original size:8 final size:7
Alignment explanation
Indices: 7214198--7214237 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
7214188 TACTTTTTAC
7214198 TTTTTCA
1 TTTTTCA
7214205 TTTTTCA
1 TTTTTCA
7214212 TTTTTCA
1 TTTTTCA
7214219 -TTTTCA
1 TTTTTCA
7214225 TCTTTTCA
1 T-TTTTCA
7214233 TTTTT
1 TTTTT
7214238 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:7215183 original size:19 final size:19
Alignment explanation
Indices: 7215159--7215199 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7215149 GTTTGGCAAA
7215159 AAAAAAATCCAAAAGAATG
1 AAAAAAATCCAAAAGAATG
**
7215178 AAAAAAATCGTAAAGAATG
1 AAAAAAATCCAAAAGAATG
7215197 AAA
1 AAA
7215200 GAACATTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAAAATCCAAAAGAATG
Found at i:7217133 original size:24 final size:24
Alignment explanation
Indices: 7217088--7217133 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7217078 GAGGTGTTTG
* *
7217088 ATGCATATGATGTAATGTAATGTA
1 ATGCAAATGATGAAATGTAATGTA
7217112 ATGCAAATGCATGAAATG-AATG
1 ATGCAAATG-ATGAAATGTAATG
7217134 CGAAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (24 bp):
ATGCAAATGATGAAATGTAATGTA
Found at i:7217598 original size:16 final size:16
Alignment explanation
Indices: 7217577--7217610 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7217567 TTCTATAATG
7217577 AAATGCCATACAGTCA
1 AAATGCCATACAGTCA
*
7217593 AAATGCCATGCAGTCA
1 AAATGCCATACAGTCA
7217609 AA
1 AA
7217611 GTGAAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.18
Consensus pattern (16 bp):
AAATGCCATACAGTCA
Found at i:7219141 original size:34 final size:35
Alignment explanation
Indices: 7219063--7219142 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
7219053 AAGTAAAATG
*
7219063 AAAATATAAAAAAATATGTATATGTATATATATTT
1 AAAATATAAAAAAATATGTATATGTATATATATAT
* ** * *
7219098 ACAGCATAAAAGAA-ATGTATATGTATATATCTAT
1 AAAATATAAAAAAATATGTATATGTATATATATAT
7219132 AAAATATAAAA
1 AAAATATAAAA
7219143 TATATAAAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 26 0.72
35 10 0.28
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATATAAAAAAATATGTATATGTATATATATAT
Found at i:7219395 original size:5 final size:5
Alignment explanation
Indices: 7219385--7219409 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7219375 ACAATAGCGT
7219385 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
7219410 GTTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:7220007 original size:21 final size:20
Alignment explanation
Indices: 7219968--7220011 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
7219958 TTCACAAAAC
*
7219968 AAATGAAAAGAAAAAAGAAT
1 AAATAAAAAGAAAAAAGAAT
*
7219988 AAATAAAAATGAAAATAGAAT
1 AAATAAAAA-GAAAAAAGAAT
7220009 AAA
1 AAA
7220012 CGTGATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (20 bp):
AAATAAAAAGAAAAAAGAAT
Found at i:7223849 original size:39 final size:40
Alignment explanation
Indices: 7223780--7223859 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
7223770 GCTTAATACG
* * *
7223780 ATAAAACATTTATTATGTTTATTTGTA-TTTTTTAATATA
1 ATAAAACATTTAATATGTTTAGTGGTATTTTTTTAATATA
7223819 ATAAAACATTTAATATGTTT-GTGGTAATTTTTTTAATATA
1 ATAAAACATTTAATATGTTTAGTGGT-ATTTTTTTAATATA
7223859 A
1 A
7223860 ATACTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.08
39 20 0.56
40 13 0.36
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (40 bp):
ATAAAACATTTAATATGTTTAGTGGTATTTTTTTAATATA
Found at i:7228462 original size:22 final size:23
Alignment explanation
Indices: 7228434--7228477 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
7228424 ATTGGTAATT
7228434 ATTTAATTATT-ATTTTTTTATC
1 ATTTAATTATTGATTTTTTTATC
7228456 ATTTAATTATTGGATTTTTTTA
1 ATTTAATTATT-GATTTTTTTA
7228478 GTCGCTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTAATTATTGATTTTTTTATC
Found at i:7232848 original size:7 final size:7
Alignment explanation
Indices: 7232830--7232885 Score: 62
Period size: 7 Copynumber: 8.1 Consensus size: 7
7232820 TTGAGTCCTA
7232830 AAAAAATG
1 AAAAAA-G
*
7232838 AAAAAAT
1 AAAAAAG
*
7232845 AAAAAGG
1 AAAAAAG
7232852 AAAAAAG
1 AAAAAAG
7232859 AAAAAAG
1 AAAAAAG
7232866 -AAAAAG
1 AAAAAAG
*
7232872 -ACAAAG
1 AAAAAAG
7232878 AAAAAAG
1 AAAAAAG
7232885 A
1 A
7232886 GAGCCAAGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
6 11 0.27
7 24 0.59
8 6 0.15
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:7232861 original size:21 final size:20
Alignment explanation
Indices: 7232830--7232885 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
7232820 TTGAGTCCTA
*
7232830 AAAAAATGAAAAAATAAAAAGG
1 AAAAAA-GAAAAAAGAAAAA-G
7232852 AAAAAAGAAAAAAGAAAAAG
1 AAAAAAGAAAAAAGAAAAAG
*
7232872 -ACAAAGAAAAAAGA
1 AAAAAAGAAAAAAGA
7232886 GAGCCAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 13 0.41
20 1 0.03
21 12 0.38
22 6 0.19
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAAAG
Found at i:7233780 original size:24 final size:24
Alignment explanation
Indices: 7233748--7233803 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
7233738 ATCCTAAAAG
*
7233748 TACAGTGGATT-ACACTTTGAAGAT
1 TACAGTGGATTGA-ACCTTGAAGAT
7233772 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
7233796 TACAGTGG
1 TACAGTGG
7233804 GGGAAATCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:7234281 original size:45 final size:45
Alignment explanation
Indices: 7234133--7235038 Score: 412
Period size: 44 Copynumber: 20.2 Consensus size: 45
7234123 ATATGGTGAA
* * * ** *
7234133 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * * * *
7234177 TCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * *
7234221 TTTTATCTCCTTGAAGTTGCGGTGGAGCAGACTGAAGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* ** *
7234266 TCTTATC-CCTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAA
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * **
7234311 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGCCAACAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * *
7234355 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
*
7234399 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC-AAG
* * * * *
7234444 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT-AA-CA-AG
* * ** ** *
7234494 ATCTTATCTCTCTGAAGTTGCAGTAGAGCA-A---ATCATGGC-GG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * * *
7234535 ATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACGAT--GAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-GATAACAAG
* ** ** ** * ** *
7234580 TCCTATAACTTTGAAGTTGCAGTAGGTCGAATTAAATCT-ACCATTACAAG
1 TCTTATCTCCCTGAAGTTGCAGT--G--G-AGCAGA-CTGAAGATAACAAG
* ** * * *
7234630 TATTATCTCATTGAAGTTGCAGTTGAGCAGACTGAAGATATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* ** *
7234675 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * * * * *
7234719 TCTTATCCCCCTAAAGTTGCAGTGGGGCA-AATTAAAACT-GCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAACAAG
* * * * *
7234763 TCTTGTCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATATCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * * *
7234808 TCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--ACAAG
* ** * * *
7234859 TCTTATCTCTCTGAAGTTGCAGCAGAGTAGA-T---CATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * * * * ** *
7234900 CCCTATCTCCCTAAAGTTGCAGTGGAGCAAATTCAAG-CCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* ** *
7234944 CCTTATC-CTCCTGAAG-TGCAGTGGAGCAGGTTGAAG-T--TAAG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
* * * * *
7234985 TCTTAT-TCCCTGAAGTTGCAGTGGAGTAGATTAAAGATAGCGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
7235029 TCTTATCTCC
1 TCTTATCTCC
7235039 TCGGAGCTGC
Statistics
Matches: 649, Mismatches: 162, Indels: 101
0.71 0.18 0.11
Matches are distributed among these distances:
40 7 0.01
41 80 0.12
42 3 0.00
43 31 0.05
44 234 0.36
45 193 0.30
46 7 0.01
47 9 0.01
48 4 0.01
49 8 0.01
50 21 0.03
51 52 0.08
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAG
Found at i:7234455 original size:133 final size:135
Alignment explanation
Indices: 7234133--7235020 Score: 486
Period size: 133 Copynumber: 6.6 Consensus size: 135
7234123 ATATGGTGAA
* * * ** *
7234133 TCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCA--ATAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA-AATCTTATCTCCCTGAAGTTG
* * ** ** * *
7234196 CAATGGAGCGGATTAAAG-TTACAAGTTTTATCTCCTTGAAGTTGCGGTGGAGCAGACTGAAGAA
65 CAGTGGAGCAGATTAAAGCCAACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
7234260 AACAAG
130 AACAAG
* *
7234266 TCTTATC-CCTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTG
* * * *
7234330 CAGTGGAGCAGATTCAAGCCAACAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAG-T
65 CAGTGGAGCAGATTAAAGCCAACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
*
7234393 TACAAG
130 AACAAG
* * *
7234399 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * * * * * *
7234464 AGTGGAACAGATTAAAGCTATAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-AATC
66 AGTGGAGCAGATTAAAGC---CAA-CA-AG-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
* * *
7234528 ATG---GC-GG
125 AAGAAAACAAG
* * * * * ** **
7234535 ATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACGAT-G--AATCCTATAACTTTGAAGT
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAA-GATAGCAAATCTTATCTCCCTGAAGT
* * ** ** *
7234597 TGCAGTAGG-TC-GAATTAAATCTACCATTACAAGTATTATCTCATTGAAGTTGCAGTTGAGCAG
63 TGCAGT-GGAGCAG-ATTAAA---GCCA--ACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAG
* * *
7234660 ACTGAAGATATCAAA
121 ACTGAAGAAAACAAG
* ** * *
7234675 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAATCTTATCCCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * * ** * * * * *
7234739 AGTGGGGCAAATTAAA-ACTGCAAGTCTTGTCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATA
66 AGTGGAGCAGATTAAAGCCAACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
* *
7234803 TCAAA
131 ACAAG
* * * * * *
7234808 TCTCATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCTGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GCAAATCTTATCTCCCTGA
** * * * * * *
7234873 AGTTGCAGCAGAGTAGATCATAA--C-A-AA-CCCTATCTCCCTAAAGTTGCAGTGGAGCAAATT
60 AGTTGCAGTGGAGCAGATTA-AAGCCAACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* ** *
7234933 CAAG-CCACAAA
124 GAAGAAAACAAG
* ** * *
7234944 CCTTATC-CTCCTGAAG-TGCAGTGGAGCAGGTTGAAG-T--TAAGTCTTAT-TCCCTGAAGTTG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTG
*
7235003 CAGTGGAGTAGATTAAAG
65 CAGTGGAGCAGATTAAAG
7235021 ATAGCGAGTC
Statistics
Matches: 593, Mismatches: 120, Indels: 92
0.74 0.15 0.11
Matches are distributed among these distances:
124 2 0.00
125 23 0.04
126 8 0.01
132 3 0.01
133 184 0.31
134 68 0.11
135 53 0.09
136 51 0.09
137 69 0.12
138 11 0.02
139 64 0.11
140 55 0.09
141 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (135 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAGCCAACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
ACAAG
Found at i:7236421 original size:26 final size:26
Alignment explanation
Indices: 7236390--7236489 Score: 96
Period size: 26 Copynumber: 3.8 Consensus size: 26
7236380 TATCATTCTC
7236390 TATTTTAAATTTTTATATATATTATT
1 TATTTTAAATTTTTATATATATTATT
* * *
7236416 TATTTTAAGCTGTTT-TACATATTATT
1 TATTTTAA-ATTTTTATATATATTATT
*
7236442 TA-TTTAAATTTCTTTTATATATTATT
1 TATTTTAAATTT-TTATATATATTATT
** * *
7236468 TATCGTAAACTATTATATATAT
1 TATTTTAAATTTTTATATATAT
7236490 CTTTCAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
24 2 0.03
25 7 0.12
26 41 0.69
27 9 0.15
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (26 bp):
TATTTTAAATTTTTATATATATTATT
Found at i:7236550 original size:8 final size:8
Alignment explanation
Indices: 7236533--7236582 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
7236523 ATTTAATATG
7236533 TTAT-TTT
1 TTATATTT
7236540 TTATATTT
1 TTATATTT
7236548 TTATATTT
1 TTATATTT
*
7236556 TAAATTATTT
1 T-TA-TATTT
7236566 TTAGT-TTT
1 TTA-TATTT
7236574 TTATATTT
1 TTATATTT
7236582 T
1 T
7236583 GTTTATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
7 5 0.14
8 22 0.61
9 3 0.08
10 6 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:7238951 original size:22 final size:22
Alignment explanation
Indices: 7238923--7238968 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
7238913 GGCTCTTTAC
7238923 AAGCACGTGCTCCACTCCTCAA
1 AAGCACGTGCTCCACTCCTCAA
** *
7238945 AAGCACGTTTTCCATTCCTCAA
1 AAGCACGTGCTCCACTCCTCAA
7238967 AA
1 AA
7238969 ACAAGTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (22 bp):
AAGCACGTGCTCCACTCCTCAA
Found at i:7238976 original size:22 final size:22
Alignment explanation
Indices: 7238933--7238976 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7238923 AAGCACGTGC
* *
7238933 TCCACTCCTCAAAAGCACGTTT
1 TCCACTCCTCAAAAACAAGTTT
*
7238955 TCCATTCCTCAAAAACAAGTTT
1 TCCACTCCTCAAAAACAAGTTT
7238977 ACATCACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.30
Consensus pattern (22 bp):
TCCACTCCTCAAAAACAAGTTT
Found at i:7239204 original size:46 final size:46
Alignment explanation
Indices: 7238955--7239204 Score: 120
Period size: 46 Copynumber: 5.5 Consensus size: 46
7238945 AAGCACGTTT
* * * * * * * *
7238955 TCCATTCCTCAAAAACAAGTTTACATCACTTTTGACAAACACACGC
1 TCCACTCCTCAAAAGCACGTTTACATGAATCTTCACAAACACATGC
* ** *
7239001 TCCACTCCTTAAAAGCACGTTTAC--GCAACTCTTTTCAAGCACATGC
1 TCCACTCCTCAAAAGCACGTTTACATG-AA-TCTTCACAAACACATGC
* * * * *
7239047 TCCATTCCTCGAAAGCATGTTTACATG-A-C-TCGCAAACACGTGC
1 TCCACTCCTCAAAAGCACGTTTACATGAATCTTCACAAACACATGC
* * * * ** ** *
7239090 AT-CGCTCCTCGAAAAG-ACGTTTACAAGACTTTTCACTGACATGTAC
1 -TCCACTCCTC-AAAAGCACGTTTACATGAATCTTCACAAACACATGC
* ** ** *
7239136 TTCACT-CTTGAAAGCATATTTACATGAATCTTCACAAACACATTC
1 TCCACTCCTCAAAAGCACGTTTACATGAATCTTCACAAACACATGC
7239181 TCCACTCCTCAAAAGCACGTTTAC
1 TCCACTCCTCAAAAGCACGTTTAC
7239205 GTGATTCATC
Statistics
Matches: 143, Mismatches: 49, Indels: 24
0.66 0.23 0.11
Matches are distributed among these distances:
43 25 0.17
44 10 0.07
45 29 0.20
46 78 0.55
48 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.28
Consensus pattern (46 bp):
TCCACTCCTCAAAAGCACGTTTACATGAATCTTCACAAACACATGC
Done.