Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 155 of 187
Found at i:46596835 original size:29 final size:29
Alignment explanation
Indices: 46596774--46596835 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
46596764 TTGTTAACCG
* ** **
46596774 AAAAAAATTTCGGTTCGGTTAATTATTTT
1 AAAAAAAATTCGGTTCGGTTAACGATTAA
*
46596803 AAAAAAAATTCGGTTCGGTTAACGGTTAA
1 AAAAAAAATTCGGTTCGGTTAACGATTAA
46596832 AAAA
1 AAAA
46596836 TTTGGGAGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (29 bp):
AAAAAAAATTCGGTTCGGTTAACGATTAA
Found at i:46599197 original size:20 final size:21
Alignment explanation
Indices: 46599161--46599199 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46599151 TTATTTTATT
*
46599161 GAGTTATTTTCTTTAATTTAA
1 GAGTTATATTCTTTAATTTAA
46599182 GAGTTATATT-TTTAATTT
1 GAGTTATATTCTTTAATTT
46599200 CATGTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (21 bp):
GAGTTATATTCTTTAATTTAA
Found at i:46601631 original size:15 final size:15
Alignment explanation
Indices: 46601613--46601645 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46601603 TTTCATTTTT
46601613 TTTCTTTTTCTCTCC
1 TTTCTTTTTCTCTCC
*
46601628 TTTCTTTTTTTCTCC
1 TTTCTTTTTCTCTCC
46601643 TTT
1 TTT
46601646 GTCGTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTTTTCTCTCC
Found at i:46610878 original size:7 final size:7
Alignment explanation
Indices: 46610825--46610877 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
46610815 AAAGTATTTT
46610825 AAAATTA
1 AAAATTA
46610832 AAAATTA
1 AAAATTA
46610839 AAAATTA
1 AAAATTA
46610846 AAAATTA
1 AAAATTA
46610853 AAAATTA
1 AAAATTA
*
46610860 AAAAATA
1 AAAATTA
*
46610867 AAAAATA
1 AAAATTA
46610874 AAAA
1 AAAA
46610878 AAAATATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:46614094 original size:7 final size:7
Alignment explanation
Indices: 46614041--46614093 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
46614031 AAAGTATTTT
46614041 AAAATTA
1 AAAATTA
46614048 AAAATTA
1 AAAATTA
46614055 AAAATTA
1 AAAATTA
46614062 AAAATTA
1 AAAATTA
46614069 AAAATTA
1 AAAATTA
*
46614076 AAAAATA
1 AAAATTA
*
46614083 AAAAATA
1 AAAATTA
46614090 AAAA
1 AAAA
46614094 AAAATATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:46634986 original size:21 final size:21
Alignment explanation
Indices: 46634962--46635019 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
46634952 AATATAAAAG
46634962 TTAAATTTATTATTATATTTT
1 TTAAATTTATTATTATATTTT
46634983 TTAAA-TTATT-TATATATTTT
1 TTAAATTTATTAT-TATATTTT
*
46635003 TAAAATTTATATATTAT
1 TTAAATTTAT-TATTAT
46635020 TTCTTGTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 17 0.53
21 9 0.28
22 4 0.12
23 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAAATTTATTATTATATTTT
Found at i:46634998 original size:20 final size:20
Alignment explanation
Indices: 46634962--46635017 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
46634952 AATATAAAAG
46634962 TTAAATT-TATTATTATATTTT
1 TTAAATTAT-TTA-TATATTTT
46634983 TTAAATTATTTATATA-TTT
1 TTAAATTATTTATATATTTT
46635002 TTAAA--ATTTATATATT
1 TTAAATTATTTATATATT
46635018 ATTTCTTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 9 0.27
18 1 0.03
19 8 0.24
20 4 0.12
21 10 0.30
22 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAAATTATTTATATATTTT
Found at i:46635010 original size:17 final size:18
Alignment explanation
Indices: 46634974--46635017 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
46634964 AAATTTATTA
46634974 TTATAT-TTTTTAAATTAT
1 TTATATATTTTTAAA-TAT
46634992 TTATATATTTTTAAA-AT
1 TTATATATTTTTAAATAT
46635009 TTATATATT
1 TTATATATT
46635018 ATTTCTTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATATTTTTAAATAT
Found at i:46635412 original size:26 final size:24
Alignment explanation
Indices: 46635368--46635417 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
46635358 AATTTTTTTT
46635368 AAAAAAATATCATAATTGGGTGAC
1 AAAAAAATATCATAATTGGGTGAC
*
46635392 AAAAAAATGATCTATAGTTGGGTGAC
1 AAAAAAAT-ATC-ATAATTGGGTGAC
46635418 CTGTGGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 3 0.13
26 12 0.52
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (24 bp):
AAAAAAATATCATAATTGGGTGAC
Found at i:46643028 original size:21 final size:19
Alignment explanation
Indices: 46643002--46643041 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
46642992 GCAAAGCAAT
46643002 ATATCACTGAAAGGACAATAA
1 ATATCA-TGAAA-GACAATAA
*
46643023 ATATCATTAAAGACAATAA
1 ATATCATGAAAGACAATAA
46643042 TTAATAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (19 bp):
ATATCATGAAAGACAATAA
Found at i:46649221 original size:13 final size:13
Alignment explanation
Indices: 46649203--46649236 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
46649193 AATCGGCCCG
46649203 TAAATATTTTTAT
1 TAAATATTTTTAT
46649216 TAAATATTTTTAT
1 TAAATATTTTTAT
46649229 TAAATATT
1 TAAATATT
46649237 GACGATGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:46664536 original size:15 final size:16
Alignment explanation
Indices: 46664518--46664564 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
46664508 ATATTTTTTG
46664518 AATTTTTATATAT-TT
1 AATTTTTATATATATT
46664533 AATTATTTCATATATATT
1 AATT-TTT-ATATATATT
*
46664551 AAGGTTTTATATAT
1 AA-TTTTTATATAT
46664565 GATTTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 3 0.11
17 12 0.44
18 7 0.26
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (16 bp):
AATTTTTATATATATT
Found at i:46665399 original size:22 final size:21
Alignment explanation
Indices: 46665362--46665410 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
46665352 AAGTGAAACA
*
46665362 TTATAAAAACAA-TTTTAATT
1 TTATAAAAAAAATTTTTAATT
46665382 TTATAAAAAAATATTTTTTAATT
1 TTATAAAAAAA-A-TTTTTAATT
46665405 TT-TAAA
1 TTATAAA
46665411 TATTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 4 0.16
23 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATAAAAAAAATTTTTAATT
Found at i:46667317 original size:25 final size:26
Alignment explanation
Indices: 46667289--46667337 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
46667279 TTTTCCCCAA
*
46667289 TAATTTTAGAACTT-TTTTATTTTCT
1 TAATTTTAGAAATTATTTTATTTTCT
*
46667314 TAATTTTATAAATTATTTTATTTT
1 TAATTTTAGAAATTATTTTATTTT
46667338 TAGAACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (26 bp):
TAATTTTAGAAATTATTTTATTTTCT
Found at i:46672444 original size:670 final size:670
Alignment explanation
Indices: 46671164--46672504 Score: 2682
Period size: 670 Copynumber: 2.0 Consensus size: 670
46671154 CTTCGCTTGC
46671164 GAGAACTAGGACCCCGTGATTCATAAGAAGCAGCTCGATCACCAACCTCACTATCTGATGGTTGC
1 GAGAACTAGGACCCCGTGATTCATAAGAAGCAGCTCGATCACCAACCTCACTATCTGATGGTTGC
46671229 CCAATCATTAAATCCCGTCCCATATCTGCATCATTCATATTTCTGGATGTTGCGGCTCTACCCAA
66 CCAATCATTAAATCCCGTCCCATATCTGCATCATTCATATTTCTGGATGTTGCGGCTCTACCCAA
46671294 CTGACTAAAAGACAAACTCCCAGCCATTGTAAGATTCAATTCAACATCTGTTTTTTGCATCAAAT
131 CTGACTAAAAGACAAACTCCCAGCCATTGTAAGATTCAATTCAACATCTGTTTTTTGCATCAAAT
46671359 TTCTCTCATCAGTTGTTCCCACTTCATCACGGTCTTCAGTTGGTTCTTTCTCTGGATCATCAATG
196 TTCTCTCATCAGTTGTTCCCACTTCATCACGGTCTTCAGTTGGTTCTTTCTCTGGATCATCAATG
46671424 GCAACCCAACCACTAATTCCACTGGCTGCACTTACTCCACGAGTCAATCCCATTTTCTTGCTTGT
261 GCAACCCAACCACTAATTCCACTGGCTGCACTTACTCCACGAGTCAATCCCATTTTCTTGCTTGT
46671489 ATCAGGGATATCAATGTTGGGAGCAACACGAGCAGGTCGAGGAACAGTTAAGAAATCCAATATCC
326 ATCAGGGATATCAATGTTGGGAGCAACACGAGCAGGTCGAGGAACAGTTAAGAAATCCAATATCC
46671554 TGACAGTAGCACCACATAAGCTACAGTCTAACAAAGGTGACCTGTATTCAGATCTAGCCTCCACA
391 TGACAGTAGCACCACATAAGCTACAGTCTAACAAAGGTGACCTGTATTCAGATCTAGCCTCCACA
46671619 ACTATCAATTTATTTTTTCCAATATCCTTGCCAGAAGCAATGAGAGCATTTTTGCTTGGTCCAGG
456 ACTATCAATTTATTTTTTCCAATATCCTTGCCAGAAGCAATGAGAGCATTTTTGCTTGGTCCAGG
46671684 ATCCTGCGAACGATGGACCTGAGTCGTGTTAGGGCCAAAAGAACATCCATTTCTAGCTGATTGAG
521 ATCCTGCGAACGATGGACCTGAGTCGTGTTAGGGCCAAAAGAACATCCATTTCTAGCTGATTGAG
46671749 CCGAATGCTCTTCACAGTCTTGAACATTTAGAAGCCATCTTGGTTCCCATCCACACAAGCTAATG
586 CCGAATGCTCTTCACAGTCTTGAACATTTAGAAGCCATCTTGGTTCCCATCCACACAAGCTAATG
46671814 AGCTTCTGTGACTGCAAAAA
651 AGCTTCTGTGACTGCAAAAA
46671834 GAGAACTAGGACCCCGTGATTCATAAGAAGCAGCTCGATCACCAACCTCACTATCTGATGGTTGC
1 GAGAACTAGGACCCCGTGATTCATAAGAAGCAGCTCGATCACCAACCTCACTATCTGATGGTTGC
46671899 CCAATCATTAAATCCCGTCCCATATCTGCATCATTCATATTTCTGGATGTTGCGGCTCTACCCAA
66 CCAATCATTAAATCCCGTCCCATATCTGCATCATTCATATTTCTGGATGTTGCGGCTCTACCCAA
46671964 CTGACTAAAAGACAAACTCCCAGCCATTGTAAGATTCAATTCAACATCTGTTTTTTGCATCAAAT
131 CTGACTAAAAGACAAACTCCCAGCCATTGTAAGATTCAATTCAACATCTGTTTTTTGCATCAAAT
46672029 TTCTCTCATCAGTTGTTCCCACTTCATCACGGTCTTCAGTTGGTTCTTTCTCTGGATCATCAATG
196 TTCTCTCATCAGTTGTTCCCACTTCATCACGGTCTTCAGTTGGTTCTTTCTCTGGATCATCAATG
46672094 GCAACCCAACCACTAATTCCACTGGCTGCACTTACTCCACGAGTCAATCCCATTTTCTTGCTTGT
261 GCAACCCAACCACTAATTCCACTGGCTGCACTTACTCCACGAGTCAATCCCATTTTCTTGCTTGT
46672159 ATCAGGGATATCAATGTTGGGAGCAACACGAGCAGGTCGAGGAACAGTTAAGAAATCCAATATCC
326 ATCAGGGATATCAATGTTGGGAGCAACACGAGCAGGTCGAGGAACAGTTAAGAAATCCAATATCC
46672224 TGACAGTAGCACCACATAAGCTACAGTCTAACAAAGGTGACCTGTATTCAGATCTAGCCTCCACA
391 TGACAGTAGCACCACATAAGCTACAGTCTAACAAAGGTGACCTGTATTCAGATCTAGCCTCCACA
46672289 ACTATCAATTTATTTTTTCCAATATCCTTGCCAGAAGCAATGAGAGCATTTTTGCTTGGTCCAGG
456 ACTATCAATTTATTTTTTCCAATATCCTTGCCAGAAGCAATGAGAGCATTTTTGCTTGGTCCAGG
46672354 ATCCTGCGAACGATGGACCTGAGTCGTGTTAGGGCCAAAAGAACATCCATTTCTAGCTGATTGAG
521 ATCCTGCGAACGATGGACCTGAGTCGTGTTAGGGCCAAAAGAACATCCATTTCTAGCTGATTGAG
46672419 CCGAATGCTCTTCACAGTCTTGAACATTTAGAAGCCATCTTGGTTCCCATCCACACAAGCTAATG
586 CCGAATGCTCTTCACAGTCTTGAACATTTAGAAGCCATCTTGGTTCCCATCCACACAAGCTAATG
46672484 AGCTTCTGTGACTGCAAAAA
651 AGCTTCTGTGACTGCAAAAA
46672504 G
1 G
46672505 GTAAAGCACA
Statistics
Matches: 671, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
670 671 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (670 bp):
GAGAACTAGGACCCCGTGATTCATAAGAAGCAGCTCGATCACCAACCTCACTATCTGATGGTTGC
CCAATCATTAAATCCCGTCCCATATCTGCATCATTCATATTTCTGGATGTTGCGGCTCTACCCAA
CTGACTAAAAGACAAACTCCCAGCCATTGTAAGATTCAATTCAACATCTGTTTTTTGCATCAAAT
TTCTCTCATCAGTTGTTCCCACTTCATCACGGTCTTCAGTTGGTTCTTTCTCTGGATCATCAATG
GCAACCCAACCACTAATTCCACTGGCTGCACTTACTCCACGAGTCAATCCCATTTTCTTGCTTGT
ATCAGGGATATCAATGTTGGGAGCAACACGAGCAGGTCGAGGAACAGTTAAGAAATCCAATATCC
TGACAGTAGCACCACATAAGCTACAGTCTAACAAAGGTGACCTGTATTCAGATCTAGCCTCCACA
ACTATCAATTTATTTTTTCCAATATCCTTGCCAGAAGCAATGAGAGCATTTTTGCTTGGTCCAGG
ATCCTGCGAACGATGGACCTGAGTCGTGTTAGGGCCAAAAGAACATCCATTTCTAGCTGATTGAG
CCGAATGCTCTTCACAGTCTTGAACATTTAGAAGCCATCTTGGTTCCCATCCACACAAGCTAATG
AGCTTCTGTGACTGCAAAAA
Found at i:46678786 original size:10 final size:10
Alignment explanation
Indices: 46678771--46678802 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
46678761 AAGACAAAAT
46678771 CATTAAACAG
1 CATTAAACAG
46678781 CATTAAACAG
1 CATTAAACAG
*
46678791 CATTAATCAG
1 CATTAAACAG
46678801 CA
1 CA
46678803 GTATGACAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.22
Consensus pattern (10 bp):
CATTAAACAG
Found at i:46683197 original size:12 final size:12
Alignment explanation
Indices: 46683180--46683204 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46683170 TGCAAGGGAG
46683180 ATTGACTTAGAA
1 ATTGACTTAGAA
46683192 ATTGACTTAGAA
1 ATTGACTTAGAA
46683204 A
1 A
46683205 ATAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTGACTTAGAA
Found at i:46683434 original size:9 final size:9
Alignment explanation
Indices: 46683420--46683473 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
46683410 AGTTTAGGTT
46683420 TTTTTTATA
1 TTTTTTATA
*
46683429 TTTTTTAAAA
1 TTTTTT-ATA
46683439 TTTTTATATA
1 TTTTT-TATA
*
46683449 TTTTTTAAA
1 TTTTTTATA
*
46683458 CTTTTTATAA
1 TTTTTTAT-A
46683468 TTTTTT
1 TTTTTT
46683474 GGGTTATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
9 15 0.42
10 20 0.56
11 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTATA
Found at i:46683442 original size:18 final size:19
Alignment explanation
Indices: 46683420--46683473 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
46683410 AGTTTAGGTT
46683420 TTTTTTATATTTTTTAAAA
1 TTTTTTATATTTTTTAAAA
46683439 TTTTTATATATTTTTT-AAA
1 TTTTT-TATATTTTTTAAAA
*
46683458 CTTTTTATAATTTTTT
1 TTTTTTAT-ATTTTTT
46683474 GGGTTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 3 0.09
19 19 0.59
20 10 0.31
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATATTTTTTAAAA
Found at i:46683442 original size:20 final size:20
Alignment explanation
Indices: 46683419--46683473 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
46683409 GAGTTTAGGT
*
46683419 TTTTTTTATATTTTTTAAAA
1 TTTTTATATATTTTTTAAAA
*
46683439 TTTTTATATATTTTTTAAAC
1 TTTTTATATATTTTTTAAAA
46683459 TTTTTATA-ATTTTTT
1 TTTTTATATATTTTTT
46683474 GGGTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATATATTTTTTAAAA
Found at i:46688394 original size:13 final size:13
Alignment explanation
Indices: 46688376--46688416 Score: 66
Period size: 12 Copynumber: 3.2 Consensus size: 13
46688366 CATACAAATT
46688376 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
46688389 AGAAAGAAAAAGAA
1 AGAAAG-AAAAGAA
46688403 AG-AAGAAAAGAA
1 AGAAAGAAAAGAA
46688415 AG
1 AG
46688417 TCACGCACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.33
13 9 0.33
14 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:46688406 original size:18 final size:19
Alignment explanation
Indices: 46688378--46688415 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
46688368 TACAAATTAG
46688378 AAAGAAAAGAA-AGAAAGAA
1 AAAGAAAAGAAGA-AAAGAA
46688397 AAAG-AAAGAAGAAAAGAA
1 AAAGAAAAGAAGAAAAGAA
46688415 A
1 A
46688416 GTCACGCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAGAAAAGAA
Found at i:46688854 original size:24 final size:24
Alignment explanation
Indices: 46688825--46688872 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
46688815 ACAAATATTG
46688825 AGTAAAAATTTAAATATTCAATAT
1 AGTAAAAATTTAAATATTCAATAT
46688849 AGTAAAAATTTAAATATTCAATAT
1 AGTAAAAATTTAAATATTCAATAT
46688873 TCAATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
AGTAAAAATTTAAATATTCAATAT
Found at i:46710361 original size:105 final size:107
Alignment explanation
Indices: 46710174--46710382 Score: 316
Period size: 105 Copynumber: 2.0 Consensus size: 107
46710164 ACTTATGAAA
*
46710174 TATCCTTTTAAAATTCCAAAATGAGGCAATATTTTACGTTTTGGAAATTCGAGAAAACGTGCCCT
1 TATCCTTTCAAAATTCCAAAATGAGGCAATATTTTACGTTTTGGAAATTCGAGAAAACGTGCCCT
* * *
46710239 AACGTGCTGGGTTTCGATTTCTCGTTTGACCAAATAGCCGAG
66 AACGTGCCGGGTCTCGATTTCTCGTTCGACCAAATAGCCGAG
* * * *
46710281 TATCCTTTCGAAATTTCAAAGA-GAGGCAATA-TTTGCG-TTTGGAAATTCGAGAGAACGTGCCC
1 TATCCTTTCAAAATTCCAAA-ATGAGGCAATATTTTACGTTTTGGAAATTCGAGAAAACGTGCCC
46710343 TAACGTGCCGGGTCTCGATTTCTCGTTCGACCAAATAGCC
65 TAACGTGCCGGGTCTCGATTTCTCGTTCGACCAAATAGCC
46710383 AAATATCTTC
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
105 61 0.66
106 5 0.05
107 26 0.28
108 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (107 bp):
TATCCTTTCAAAATTCCAAAATGAGGCAATATTTTACGTTTTGGAAATTCGAGAAAACGTGCCCT
AACGTGCCGGGTCTCGATTTCTCGTTCGACCAAATAGCCGAG
Found at i:46713209 original size:9 final size:8
Alignment explanation
Indices: 46713184--46713214 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
46713174 TTTTGTTTTA
46713184 TTTTATAT
1 TTTTATAT
46713192 TTTTATAT
1 TTTTATAT
46713200 TTTTACTAT
1 TTTTA-TAT
46713209 TTTTAT
1 TTTTAT
46713215 TTATCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATAT
Found at i:46713291 original size:13 final size:14
Alignment explanation
Indices: 46713274--46713308 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
46713264 AATTATCTTC
46713274 ATTTTTTATCATAT
1 ATTTTTTATCATAT
46713288 -TTTTTTA-CATAT
1 ATTTTTTATCATAT
46713300 ATTTTTTAT
1 ATTTTTTAT
46713309 ATTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTTATCATAT
Found at i:46713448 original size:24 final size:23
Alignment explanation
Indices: 46713415--46713459 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
46713405 CTAGTTTTTA
46713415 TTTGTTTATTTACTTATTATTGG
1 TTTGTTTATTTACTTATTATTGG
**
46713438 TTTGTCTTATTTTTTTATTATT
1 TTTGT-TTATTTACTTATTATT
46713460 TATCTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.71
Consensus pattern (23 bp):
TTTGTTTATTTACTTATTATTGG
Found at i:46716814 original size:79 final size:81
Alignment explanation
Indices: 46716712--46716896 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
46716702 GCTCCTCGTT
* *
46716712 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46716775 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
46716792 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
46716856 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
46716872 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46716897 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:46716896 original size:40 final size:40
Alignment explanation
Indices: 46716712--46716896 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
46716702 GCTCCTCGTT
* *
46716712 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
46716752 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46716792 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
46716831 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
46716872 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46716897 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46724795 original size:79 final size:82
Alignment explanation
Indices: 46724684--46724868 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
46724674 GCTACTCGTT
* *
46724684 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46724747 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
46724764 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46724827 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46724844 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46724869 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46724868 original size:40 final size:40
Alignment explanation
Indices: 46724665--46724868 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
46724655 CGGAATTTAA
** *
46724665 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46724705 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46724745 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46724784 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46724824 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46724864 CCGGA
1 CCGGA
46724869 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46728979 original size:6 final size:6
Alignment explanation
Indices: 46728968--46729039 Score: 74
Period size: 6 Copynumber: 12.0 Consensus size: 6
46728958 TTCAATTAAA
* * * *
46728968 AAAAAG AAAAAG AAATAG AAAAAG AAAAGG AAAAAG AAATAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* *
46729016 AAGCAA- AAGAAG AAAAAG AAAAAG
1 AA-AAAG AAAAAG AAAAAG AAAAAG
46729040 GAGAGGCCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
5 2 0.04
6 50 0.93
7 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:46729000 original size:24 final size:23
Alignment explanation
Indices: 46728965--46729039 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 23
46728955 TGCTTCAATT
46728965 AAAA-AAAAGAAAAAGAAATAGA
1 AAAAGAAAAGAAAAAGAAATAGA
46728987 AAAAGAAAAGGAAAAAGAAATAGA
1 AAAAGAAAA-GAAAAAGAAATAGA
* * *
46729011 AGAAGAAGCAA-AAGAAGAAAAAGA
1 AAAAGAA--AAGAAAAAGAAATAGA
46729035 AAAAG
1 AAAAG
46729040 GAGAGGCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.09
23 4 0.09
24 35 0.78
26 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAGAAAAAGAAATAGA
Found at i:46729028 original size:15 final size:15
Alignment explanation
Indices: 46728968--46729039 Score: 69
Period size: 15 Copynumber: 4.8 Consensus size: 15
46728958 TTCAATTAAA
46728968 AAAAAGAAAAAGAAATAG
1 AAAAAGAAAAAG--A-AG
46728986 AAAAAG-AAAAG--G
1 AAAAAGAAAAAGAAG
*
46728998 AAAAAGAAATAGAAG
1 AAAAAGAAAAAGAAG
* *
46729013 AAGAAGCAAAAGAAG
1 AAAAAGAAAAAGAAG
46729028 AAAAAGAAAAAG
1 AAAAAGAAAAAG
46729040 GAGAGGCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 23 0.51
17 5 0.11
18 6 0.13
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAGAAG
Found at i:46730132 original size:143 final size:142
Alignment explanation
Indices: 46729929--46730395 Score: 612
Period size: 143 Copynumber: 3.3 Consensus size: 142
46729919 ATTATGGCGA
*
46729929 ATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTGC
* * ** *
46729994 AGTGGAGTAGACTGAAGATTGCAAATCTTATTTCCCT-GACGTTGTAATGGAACAGATTAAAGCT
66 AGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTAG-CGTTGTAGTGGAACAGATTAAAGCT
* *
46730058 ACTAATTATAAAAG
130 ACAAATTAT-GAAG
* * * * *
46730072 ATTTTATCTTCCTGAAGTCGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCCTTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTGC
* * * * *
46730137 AACAGAGCAGACTGAAGACAACTAATCTTATTTCCCTAGCGTTGTAGTAGAACAGATTAAAGCTA
66 AGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTAGCGTTGTAGTGGAACAGATTAAAGCTA
**
46730202 CAAATTATGGTGG
131 CAAATTAT-GAAG
* * *
46730215 ATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGTCACCAACCTTATCTCCCTGAAGTTAC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTGC
* * ** *
46730280 AGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAATAGATTAAAGCTA
66 AGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTAGCGTTGTAGTGGAACAGATTAAAGCTA
**
46730345 CAAATTATGGCG
131 CAAATTATGAAG
*
46730357 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 -ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG
46730396 AAGTCGAACC
Statistics
Matches: 280, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
142 2 0.01
143 277 0.99
144 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (142 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTGC
AGCGGAGCAGACTGAAGACAGCAAATCTTATTTCCCTAGCGTTGTAGTGGAACAGATTAAAGCTA
CAAATTATGAAG
Found at i:46730382 original size:54 final size:54
Alignment explanation
Indices: 46730324--46730483 Score: 142
Period size: 54 Copynumber: 3.1 Consensus size: 54
46730314 CCTAGCGTTA
*
46730324 CAGTGGAATAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTG
1 CAGTGGAATAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTG
* * * * * * **
46730378 CAGTGGAGTAGATT---G--A-AGA--A-GTCGAACCTTATTTCCTTGGCGTTG
1 CAGTGGAATAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTG
* *
46730423 CAGTGGAACAGATTAAAACTACAAATTATGGC-AGATCTTATCTTCTTGAAGTTG
1 CAGTGGAATAGATTAAAGCTACAAATTATGGCGA-ATCTTATCTTCTTGAAGTTG
46730477 CAGTGGA
1 CAGTGGA
46730484 GCAGATTGAA
Statistics
Matches: 77, Mismatches: 19, Indels: 20
0.66 0.16 0.17
Matches are distributed among these distances:
45 30 0.39
46 1 0.01
48 2 0.03
49 1 0.01
50 1 0.01
51 3 0.04
53 2 0.03
54 37 0.48
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (54 bp):
CAGTGGAATAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCTTGAAGTTG
Found at i:46730436 original size:99 final size:98
Alignment explanation
Indices: 46730261--46730529 Score: 326
Period size: 99 Copynumber: 2.7 Consensus size: 98
46730251 AGTCACCAAC
* * * * * * * * *
46730261 CTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGA-AGCGAACCTTATTTCCTTGGCGTTGCA
* *
46730326 GTGGAATAGATTAAAGCTACAAATTATGGC-GAAT
65 GTGGAACAGATTAAAACTACAAATTATGGCAG-AT
*
46730360 CTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGAAGTCGAACCTTATTTCCTTGGCGTTGCA
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAAG-CGAACCTTATTTCCTTGGCGTTGCA
46730425 GTGGAACAGATTAAAACTACAAATTATGGCAGAT
65 GTGGAACAGATTAAAACTACAAATTATGGCAGAT
* * * * * **
46730459 CTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCA-CCAGCCTTATCTCCTTGAAGTTGCAG
1 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAAGCGAACCTTATTTCCTTGGCGTTGCAG
46730523 TGGAACA
66 TGGAACA
46730530 AACTGAATAC
Statistics
Matches: 148, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
97 28 0.19
98 2 0.01
99 117 0.79
100 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (98 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAAGCGAACCTTATTTCCTTGGCGTTGCAG
TGGAACAGATTAAAACTACAAATTATGGCAGAT
Found at i:46730622 original size:241 final size:242
Alignment explanation
Indices: 46730163--46730636 Score: 697
Period size: 241 Copynumber: 2.0 Consensus size: 242
46730153 GACAACTAAT
* * **
46730163 CTTATTTCCCTAGCGTTGTAGTAGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCTT
1 CTTATTTCCCTAGCGTTGCAGTAGAACAGATTAAAACTACAAATTATGGCAGATCTTATCTTCTT
*
46730228 GAAGTTGCAGTGGAGCAGATTGAAGTCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAGACT
66 GAAGTTGCAGTGGAGCAGATTGAAGTCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAAACT
* * * *
46730293 GAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAATAGATTAAAGCTACAAATTATGGCGA
131 GAAGACAACAAATCTTATTTCCCTAGCGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGA
*
46730358 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGAAGTCGAAC
196 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAAGTCGAAC
* * *
46730405 CTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAACTACAAATTATGGCAGATCTTATCTTCTT
1 CTTATTTCCCTAGCGTTGCAGTAGAACAGATTAAAACTACAAATTATGGCAGATCTTATCTTCTT
* * * *
46730470 GAAGTTGCAGTGGAGCAGATTGAAG-CACCAGCCTTATCTCCTTGAAGTTGCAGTGGAA-CAAAC
66 GAAGTTGCAGTGGAGCAGATTGAAGTCACCAACCTTATCTCCCTGAAGTTACAG-CGAAGCAAAC
* * *
46730533 TGAATACAACAAATCTTATTTCTCTGGCG-TAGCAATGGAACAGATTAAAGCTACAAATTATGGC
130 TGAAGACAACAAATCTTATTTCCCTAGCGTTA-CAATGGAACAGATTAAAGCTACAAATTATGGC
46730597 -AGATCTTATC-TCTCTGAAGTTGCAGTGGAGCAGATTGAAG
194 GA-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAG
46730637 CCACCAGCCT
Statistics
Matches: 208, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
240 5 0.02
241 117 0.56
242 86 0.41
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (242 bp):
CTTATTTCCCTAGCGTTGCAGTAGAACAGATTAAAACTACAAATTATGGCAGATCTTATCTTCTT
GAAGTTGCAGTGGAGCAGATTGAAGTCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAAACT
GAAGACAACAAATCTTATTTCCCTAGCGTTACAATGGAACAGATTAAAGCTACAAATTATGGCGA
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAAGTCGAAC
Found at i:46730664 original size:44 final size:45
Alignment explanation
Indices: 46730601--46730726 Score: 128
Period size: 44 Copynumber: 2.8 Consensus size: 45
46730591 TATGGCAGAT
* *
46730601 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAAC
* * * ** * *
46730645 CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAAC
* * **
46730690 CTTATTTCCCTGAAGTTGCAGTTGAATAGATTGAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
46730727 TATAAATTGT
Statistics
Matches: 64, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 33 0.52
45 31 0.48
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAAC
Found at i:46730689 original size:384 final size:382
Alignment explanation
Indices: 46729975--46730762 Score: 1082
Period size: 384 Copynumber: 2.1 Consensus size: 382
46729965 AGCCACCAAC
* * * *
46729975 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATTGCAAATCTTATTTCCCTGACGTTGTA
1 CTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGAGTGCAAACCTTATTTCCCTGACGTTGCA
* * *
46730040 ATGGAACAGATTAAAGCTACTAATTATAAAAGATTTTATCTTCCTGAAGTCGCAGTGGAACAGAT
66 ATGGAACAGATTAAAACTACAAATTATAAAAGATCTTATCTTCCTGAAGTCGCAGTGGAACAGAT
* * *
46730105 TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAACAGAGCAGACTGAAGACAACTAATCTTATTT
131 TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAACAGAACAAACTGAAGACAACAAATCTTATTT
* * * **
46730170 CCCTAGCGTTGTAGTAGAACAGATTAAAGCTACAAATTATGGTGGATCTTATCTTCTTGAAGTTG
196 CCCTAGCGTAGCAATAGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCTTGAAGTTG
*
46730235 CAGTGGAGCAGATTGAAGTCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAAGACA
261 CAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAAGACA
* *
46730300 GCGAATCTTATTTCCCT-AGCGTTACAGTGGAATAGATTAAAGCTACAAATTATGGCGAAT
326 GCGAATCTTATTTCCCTGA-AGTTACAGTGGAATAGATTAAAGCTACAAA-T-TGGAG-AT
* * * *
46730360 CTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGAAGT-CGAACCTTATTTCCTTGGCGTTGC
1 CTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAG-AGTGCAAACCTTATTTCCCTGACGTTGC
* *** * * *
46730424 AGTGGAACAGATTAAAACTACAAATTATGGCAGATCTTATCTTCTTGAAGTTGCAGTGGAGCAGA
65 AATGGAACAGATTAAAACTACAAATTATAAAAGATCTTATCTTCCTGAAGTCGCAGTGGAACAGA
*** *
46730489 TTGAAG-CACCAGCCTTATCTCCTTGAAGTTGCAGTGGAACAAACTGAATACAACAAATCTTATT
130 TTGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAACAGAACAAACTGAAGACAACAAATCTTATT
* * *
46730553 TCTCTGGCGTAGCAATGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC-TCTCTGAAGT
195 TCCCTAGCGTAGCAATAGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCT-TGAAGT
* *
46730617 TGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGA
259 TGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAAGA
* * * * * *
46730682 TAGCGAATCTTATTTCCCTGAAGTTGCAGTTGAATAGATTGAAGCTATAAATTGTAGAT
324 CAGCGAATCTTATTTCCCTGAAGTTACAGTGGAATAGATTAAAGCTACAAATTGGAGAT
46730741 CTTATC-TCTCTGAAGTTGCAGT
1 CTTATCTTC-CTGAAGTTGCAGT
46730763 AAAGCAGATC
Statistics
Matches: 355, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
380 2 0.01
381 21 0.06
382 3 0.01
383 4 0.01
384 208 0.59
385 115 0.32
386 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (382 bp):
CTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGAGTGCAAACCTTATTTCCCTGACGTTGCA
ATGGAACAGATTAAAACTACAAATTATAAAAGATCTTATCTTCCTGAAGTCGCAGTGGAACAGAT
TGAAGCCACCAGCCTTATCTCCTTGAAGTTGCAACAGAACAAACTGAAGACAACAAATCTTATTT
CCCTAGCGTAGCAATAGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTTCTTGAAGTTG
CAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTTACAGCGAAGCAGACTGAAGACA
GCGAATCTTATTTCCCTGAAGTTACAGTGGAATAGATTAAAGCTACAAATTGGAGAT
Found at i:46730727 original size:143 final size:141
Alignment explanation
Indices: 46730360--46730771 Score: 501
Period size: 142 Copynumber: 2.9 Consensus size: 141
46730350 TATGGCGAAT
* * * * * * *
46730360 CTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGAAGTCGAACCTTATTTCCTTGGCGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGAAG-CGAATCTTATTTCCCTGGCGTTGCA
*
46730425 GTGGAACAGATTAAAACTACAAATTATGGCAGATCTTATCT-TCTTGAAGTTGCAGTGGAGCAGA
65 GTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGA
46730489 TTGAAGCACCAGC
129 TTGAAGCACCAGC
* * * * * * * *
46730502 CTTATCTCCTTGAAGTTGCAGTGGAA-CAAACTGAATACAACAAATCTTATTTCTCTGGCGTAGC
1 CTTATCTCCCTGAAGTTGCAG-CGAAGCAGACTGAAGA-AGCGAATCTTATTTCCCTGGCGTTGC
*
46730566 AATGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA
64 AGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA
46730631 TTGAAGCCACCAGC
129 TTGAAG-CACCAGC
**
46730645 CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGA-AGCGAATCTTATTTCCCTGGCGTTGCA
* * * * * **
46730710 GTTGAATAGATTGAAGCTATAAA-T-T-GTAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGAT
65 GTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
46730772 CATATCAAAC
Statistics
Matches: 230, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
140 34 0.15
141 1 0.00
142 115 0.50
143 80 0.35
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (141 bp):
CTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGAAGCGAATCTTATTTCCCTGGCGTTGCAG
TGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT
GAAGCACCAGC
Found at i:46741820 original size:21 final size:21
Alignment explanation
Indices: 46741796--46741835 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46741786 ATAAATTTAG
*
46741796 TTCAATTTAATACAATTCATA
1 TTCAATTCAATACAATTCATA
*
46741817 TTCAATTCAATCCAATTCA
1 TTCAATTCAATACAATTCA
46741836 CATCTTAGGC
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:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
TTCAATTCAATACAATTCATA
Found at i:46743024 original size:7 final size:7
Alignment explanation
Indices: 46743012--46743049 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
46743002 TACTTCTTTG
46743012 TTTTATT
1 TTTTATT
46743019 TTTTATT
1 TTTTATT
46743026 TTTTATT
1 TTTTATT
46743033 TTATT-TT
1 TT-TTATT
46743040 ATTTTATT
1 -TTTTATT
46743048 TT
1 TT
46743050 ATTTTAGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:46743027 original size:5 final size:5
Alignment explanation
Indices: 46743012--46743069 Score: 66
Period size: 5 Copynumber: 11.8 Consensus size: 5
46743002 TACTTCTTTG
** *
46743012 TTTTA TTTT- TTATT- TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA GCTTC
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
46743061 TTTTA TTTT
1 TTTTA TTTT
46743070 TCTTATGTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
4 4 0.09
5 41 0.91
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:46745655 original size:41 final size:41
Alignment explanation
Indices: 46745610--46745765 Score: 122
Period size: 41 Copynumber: 3.8 Consensus size: 41
46745600 AGAACAGGCT
* *
46745610 TTGAGCGTACTAGGCTTCT-TGCTAGTCTATTGTATCAGACC
1 TTGAGCCTACTAGGCTT-TGTGCCAGTCTATTGTATCAGACC
* * *
46745651 TTGAGCCTAGTAGGCTTTGTGCCAGTGTATTGTATCAGGCC
1 TTGAGCCTACTAGGCTTTGTGCCAGTCTATTGTATCAGACC
* * * * * *
46745692 TTAAGCCTAGC-AAGCTTCGTGCCGGTGTGTTGTATCA-AGCC
1 TTGAGCCTA-CTAGGCTTTGTGCCAGTCTATTGTATCAGA-CC
* * *
46745733 TTGAGCCTAGC-AGGCTTCGTGCCCGTGTATTGT
1 TTGAGCCTA-CTAGGCTTTGTGCCAGTCTATTGT
46745766 TTTAGGTAGT
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 95 0.99
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.33
Consensus pattern (41 bp):
TTGAGCCTACTAGGCTTTGTGCCAGTCTATTGTATCAGACC
Found at i:46746043 original size:18 final size:17
Alignment explanation
Indices: 46746010--46746044 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
46746000 GAGAAAAATG
46746010 TGTAATGAATATATATA
1 TGTAATGAATATATATA
*
46746027 TGTAATGGATGATATATA
1 TGTAATGAAT-ATATATA
46746045 AACCCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (17 bp):
TGTAATGAATATATATA
Found at i:46747277 original size:76 final size:76
Alignment explanation
Indices: 46747151--46747296 Score: 265
Period size: 76 Copynumber: 1.9 Consensus size: 76
46747141 TAGCCATGTA
*
46747151 ACTAAACTTCAAATAACCACATGGCGTGAGTTATGTCACACGGCCGTGTGACCCCTGTTTTCAAA
1 ACTAAACTTCAAATAACCACATGGCGTGAGTTATGTCACACGGCCGTGTGACCCCTATTTTCAAA
46747216 ATTTTCGTGCG
66 ATTTTCGTGCG
* *
46747227 ACTAAACTTCAAATACCCACATGGCTTGAGTTATGTCACACGGCCGTGTGACCCCTATTTTCAAA
1 ACTAAACTTCAAATAACCACATGGCGTGAGTTATGTCACACGGCCGTGTGACCCCTATTTTCAAA
46747292 ATTTT
66 ATTTT
46747297 TAAATTTTAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (76 bp):
ACTAAACTTCAAATAACCACATGGCGTGAGTTATGTCACACGGCCGTGTGACCCCTATTTTCAAA
ATTTTCGTGCG
Found at i:46749405 original size:68 final size:67
Alignment explanation
Indices: 46749269--46749455 Score: 216
Period size: 68 Copynumber: 2.7 Consensus size: 67
46749259 GCTCGAAAAA
* **
46749269 GGTTTATTGTGTAA-AACCATAGCTCAACTATGATAAAAAAATAGAGTCTGCCAAGACCATAAAC
1 GGTTTATTGTGTAAGAA-CATAGCTCGACTATG-GCAAAAAATAGAGTCTGCCAAGACCATAAAC
46749333 ATGG
64 ATGG
* *
46749337 GGTTGTATTGTGTAAGAACATAGCTCGACTATGGCAACAAATAGAGT-TCGCCAGGACCATAAAC
1 GGTT-TATTGTGTAAGAACATAGCTCGACTATGGCAAAAAATAGAGTCT-GCCAAGACCATAAAC
46749401 ATGG
64 ATGG
* * * ** *
46749405 GGTTATATTATGTAAGACCATAACTCGACTATGGCATGAAATAAAGTCTGC
1 GGTT-TATTGTGTAAGAACATAGCTCGACTATGGCAAAAAATAGAGTCTGC
46749456 TAGGATAGTG
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
67 1 0.01
68 75 0.73
69 25 0.24
70 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (67 bp):
GGTTTATTGTGTAAGAACATAGCTCGACTATGGCAAAAAATAGAGTCTGCCAAGACCATAAACAT
GG
Found at i:46751013 original size:29 final size:29
Alignment explanation
Indices: 46750971--46751032 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
46750961 GATTAGTTCC
46750971 TTAAGTTAGAATAAAATTAATGTGAATTA
1 TTAAGTTAGAATAAAATTAATGTGAATTA
*
46751000 TTAAGTTAGTATAAAATTAATGTGAATTA
1 TTAAGTTAGAATAAAATTAATGTGAATTA
46751029 TTAA
1 TTAA
46751033 AATTTGAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (29 bp):
TTAAGTTAGAATAAAATTAATGTGAATTA
Found at i:46754329 original size:28 final size:28
Alignment explanation
Indices: 46754289--46754345 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
46754279 TTACCTCGAC
46754289 TAAGTTCAGAAAGGAAAGTTGCACTCTT
1 TAAGTTCAGAAAGGAAAGTTGCACTCTT
46754317 TAAGTTCAGAAAGGAAAGTTGCACTCTT
1 TAAGTTCAGAAAGGAAAGTTGCACTCTT
46754345 T
1 T
46754346 CGTGTATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (28 bp):
TAAGTTCAGAAAGGAAAGTTGCACTCTT
Found at i:46756986 original size:22 final size:22
Alignment explanation
Indices: 46756958--46757005 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
46756948 TAGGAACTCG
46756958 AGAAAGCGTATGATCTCCTCAA
1 AGAAAGCGTATGATCTCCTCAA
46756980 AGAAAGCGTATGATCTCCTCAA
1 AGAAAGCGTATGATCTCCTCAA
46757002 AGAA
1 AGAA
46757006 TCTAACCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (22 bp):
AGAAAGCGTATGATCTCCTCAA
Found at i:46762819 original size:17 final size:17
Alignment explanation
Indices: 46762794--46762836 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
46762784 AAAAGAAAAA
46762794 AAATAAAAATACAAATAC
1 AAAT-AAAATACAAATAC
46762812 AAATAAAATACAAATAC
1 AAATAAAATACAAATAC
46762829 AAATAAAA
1 AAATAAAA
46762837 AAACACATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAATACAAATAC
Found at i:46764767 original size:21 final size:20
Alignment explanation
Indices: 46764743--46764796 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
46764733 ATATTTTCCA
*
46764743 AAATTTATTTTTCTTTAAAAT
1 AAATTTATTTTT-TTCAAAAT
* *
46764764 AAATTTGTTTTGTTTCACAAT
1 AAATTTATTTT-TTTCAAAAT
*
46764785 AAATTGATTTTT
1 AAATTTATTTTT
46764797 ATGACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (20 bp):
AAATTTATTTTTTTCAAAAT
Found at i:46765652 original size:21 final size:22
Alignment explanation
Indices: 46765619--46765703 Score: 120
Period size: 21 Copynumber: 4.0 Consensus size: 22
46765609 CAAAACAGCC
46765619 GTTTCTCCCCTCATTTTTGCTG
1 GTTTCTCCCCTCATTTTTGCTG
* *
46765641 GTTTCT-CCCTCATTCTTGCTA
1 GTTTCTCCCCTCATTTTTGCTG
*
46765662 GTTTCT-CCCTCGTTTTTGCTG
1 GTTTCTCCCCTCATTTTTGCTG
*
46765683 GTTTCTCCCCTCTTTTTTGCT
1 GTTTCTCCCCTCATTTTTGCT
46765704 TTGTTCTTGG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 37 0.66
22 19 0.34
ACGTcount: A:0.04, C:0.32, G:0.13, T:0.52
Consensus pattern (22 bp):
GTTTCTCCCCTCATTTTTGCTG
Found at i:46770130 original size:21 final size:21
Alignment explanation
Indices: 46770106--46770158 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
46770096 CATTGTTTCT
*
46770106 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
* *
46770127 AATCTCACCGCTACAGTAACT
1 AATCTCACTGCTACAGTAACC
46770148 AATCTCACTGC
1 AATCTCACTGC
46770159 CACCGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:46770283 original size:20 final size:20
Alignment explanation
Indices: 46770258--46770297 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46770248 ACAGCCCTAT
*
46770258 TCCAAACGGGTTTATTCAAG
1 TCCAAACGGGTTTAATCAAG
46770278 TCCAAACGGGTTTAATCAAG
1 TCCAAACGGGTTTAATCAAG
46770298 GCAAAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
TCCAAACGGGTTTAATCAAG
Found at i:46773208 original size:16 final size:16
Alignment explanation
Indices: 46773184--46773230 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
46773174 TGTTATTAAA
*
46773184 TTATATAATTTTATTT
1 TTATATAATTATATTT
*
46773200 TTATTTAATTATA-TT
1 TTATATAATTATATTT
*
46773215 TAATAATAATTATATT
1 TTAT-ATAATTATATT
46773231 AAAACATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 5 0.20
16 19 0.76
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATAATTATATTT
Found at i:46781574 original size:25 final size:25
Alignment explanation
Indices: 46781528--46781617 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 25
46781518 GTAGGACGTA
46781528 ATATGATATG-TCAT-GTTGTGATTCG
1 ATATGATATGCT-ATGGTT-TGATTCG
46781553 ATATGATATGCTATGGTTTGATTC-
1 ATATGATATGCTATGGTTTGATTCG
* * *
46781577 ATTATGAAATGCTATGATTCGATAT-G
1 A-TATGATATGCTATGGTTTGAT-TCG
46781603 ATATGATATGCTATG
1 ATATGATATGCTATG
46781618 ATACGATAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.02
25 49 0.88
26 6 0.11
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (25 bp):
ATATGATATGCTATGGTTTGATTCG
Found at i:46781612 original size:20 final size:20
Alignment explanation
Indices: 46781557--46781612 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
46781547 GATTCGATAT
* * *
46781557 GATATGCTATGGTTTGATTC
1 GATATGATATGATATGATTC
* *
46781577 -ATTATGAAATGCTATGATTC
1 GA-TATGATATGATATGATTC
46781597 GATATGATATGATATG
1 GATATGATATGATATG
46781613 CTATGATACG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (20 bp):
GATATGATATGATATGATTC
Found at i:46781618 original size:25 final size:25
Alignment explanation
Indices: 46781552--46781630 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
46781542 GTTGTGATTC
* *
46781552 GATATGATATGCTATGGTTTGAT-T
1 GATATGATATGCTATGATTCGATAT
* *
46781576 CATTATGAAATGCTATGATTCGATAT
1 GA-TATGATATGCTATGATTCGATAT
* *
46781602 GATATGATATGCTATGATACGATAA
1 GATATGATATGCTATGATTCGATAT
46781627 GATA
1 GATA
46781631 CGCTTCGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
24 1 0.02
25 42 0.93
26 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (25 bp):
GATATGATATGCTATGATTCGATAT
Found at i:46786084 original size:23 final size:26
Alignment explanation
Indices: 46786058--46786109 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
46786048 AATATAATAA
46786058 TATTCA-TTTTAA-ATTTT-TTATAT
1 TATTCATTTTTAATATTTTCTTATAT
* *
46786081 TATTTATTTTTAATATTTTCTTATTT
1 TATTCATTTTTAATATTTTCTTATAT
46786107 TAT
1 TAT
46786110 AATTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 6 0.25
25 5 0.21
26 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTCATTTTTAATATTTTCTTATAT
Found at i:46786091 original size:16 final size:17
Alignment explanation
Indices: 46786070--46786116 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
46786060 TTCATTTTAA
*
46786070 ATTTTTTATATTAT-TT
1 ATTTTTAATATTATCTT
*
46786086 ATTTTTAATATTTTCTT
1 ATTTTTAATATTATCTT
46786103 ATTTTATAAT-TTAT
1 ATTTT-TAATATTAT
46786117 AAAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 12 0.46
17 10 0.38
18 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTAATATTATCTT
Found at i:46786165 original size:16 final size:16
Alignment explanation
Indices: 46786146--46786194 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
46786136 AAACAATTAC
*
46786146 AATAACTAACATTTTA
1 AATAAATAACATTTTA
* *
46786162 AATAAATAAAATTTAA
1 AATAAATAACATTTTA
*
46786178 AAT-ATTAACATTTTA
1 AATAAATAACATTTTA
46786193 AA
1 AA
46786195 AATCTTAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAATAACATTTTA
Found at i:46794988 original size:23 final size:23
Alignment explanation
Indices: 46794962--46795055 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
46794952 AAGTTAGAAG
46794962 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
46794985 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
46795008 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
46795031 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
46795054 AG
1 AG
46795056 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:46799151 original size:31 final size:31
Alignment explanation
Indices: 46799116--46799177 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
46799106 TTTAACAGTC
** *
46799116 TAATGACTTCAATAAAATTTTTTGAATAGTT
1 TAATGACTTCAATAAAAGCTTTCGAATAGTT
* *
46799147 TAATGATTTCAATGAAAGCTTTCGAATAGTT
1 TAATGACTTCAATAAAAGCTTTCGAATAGTT
46799178 CAATAGCCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (31 bp):
TAATGACTTCAATAAAAGCTTTCGAATAGTT
Found at i:46802699 original size:27 final size:27
Alignment explanation
Indices: 46802648--46802700 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
46802638 TAGTATAATA
*
46802648 TAATTATTTTATTTATTTATTTATATG
1 TAATTATTTTATTTATTTATGTATATG
46802675 TAATTA-TTT-TTTATCTATATGTATAT
1 TAATTATTTTATTTAT-T-TATGTATAT
46802701 ATTTGTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (27 bp):
TAATTATTTTATTTATTTATGTATATG
Found at i:46802704 original size:21 final size:22
Alignment explanation
Indices: 46802656--46802697 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
46802646 TATAATTATT
*
46802656 TTATTTATTTATTTATATGTAA
1 TTATTTATTTATCTATATGTAA
46802678 TTATTT-TTTATCTATATGTA
1 TTATTTATTTATCTATATGTA
46802698 TATATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTTATTTATCTATATGTAA
Found at i:46805251 original size:12 final size:12
Alignment explanation
Indices: 46805230--46805259 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46805220 GCTTTACACC
46805230 ATTCAAACCACA
1 ATTCAAACCACA
*
46805242 ATTCATACCACA
1 ATTCAAACCACA
46805254 ATTCAA
1 ATTCAA
46805260 TTCACATGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (12 bp):
ATTCAAACCACA
Found at i:46805401 original size:20 final size:20
Alignment explanation
Indices: 46805376--46805418 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
46805366 ATATACAATG
*
46805376 TTATTATACTAAACCAGACT
1 TTATTATACTAAAACAGACT
46805396 TTATTATACTAAAACAGACT
1 TTATTATACTAAAACAGACT
46805416 TTA
1 TTA
46805419 ACTAGCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTATACTAAAACAGACT
Found at i:46807952 original size:23 final size:21
Alignment explanation
Indices: 46807910--46807950 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46807900 TTTTTAAAAA
46807910 ATATATGTATATATATTTTTC
1 ATATATGTATATATATTTTTC
*
46807931 ATATATGCATATATATTTTT
1 ATATATGTATATATATTTTT
46807951 TTGTAGTATA
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:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATATGTATATATATTTTTC
Found at i:46807987 original size:15 final size:15
Alignment explanation
Indices: 46807964--46808006 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
46807954 TAGTATAATA
*
46807964 TAATTATTTTTTATT
1 TAATTATTTTTTATG
* *
46807979 TATTTA-TTTATATG
1 TAATTATTTTTTATG
46807993 TAATTATTTTTTAT
1 TAATTATTTTTTAT
46808007 CTATATGTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TAATTATTTTTTATG
Found at i:46808019 original size:29 final size:29
Alignment explanation
Indices: 46807956--46808020 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
46807946 TTTTTTTGTA
* *
46807956 GTATA-ATATAATTATTTTTTATTTATTT
1 GTATATATATAATTATTTTTTATCTATAT
* * *
46807984 ATTTATATGTAATTATTTTTTATCTATAT
1 GTATATATATAATTATTTTTTATCTATAT
46808013 GTATATAT
1 GTATATAT
46808021 TTGTTTTAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
GTATATATATAATTATTTTTTATCTATAT
Found at i:46808022 original size:21 final size:22
Alignment explanation
Indices: 46807974--46808015 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
46807964 TAATTATTTT
*
46807974 TTATTTATTTATTTATATGTAA
1 TTATTTATTTATCTATATGTAA
46807996 TTATTT-TTTATCTATATGTA
1 TTATTTATTTATCTATATGTA
46808016 TATATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTTATTTATCTATATGTAA
Found at i:46818310 original size:97 final size:97
Alignment explanation
Indices: 46818144--46818338 Score: 354
Period size: 97 Copynumber: 2.0 Consensus size: 97
46818134 AAACTTACAA
*
46818144 GGATTGGCATGAGAAGTTACCATTCGCTCTTTTGGCTTACCGAACATCTGTTAGGACTTCTACTG
1 GGATTGGCATGAGAAGTTACCATTCGCTCTTTTGGCTTACCGAACATCTGTTAGGACTTCGACTG
*
46818209 GGGCAACACCTTTTTCTTTGGTTTATGGAATG
66 GGGCAACACCTTTTTCGTTGGTTTATGGAATG
*
46818241 GGATTGGCATGAGAAGTTACCATTCGCTCTTTTGGCTTACCGAACATCTGTTAGGACTTCGATTG
1 GGATTGGCATGAGAAGTTACCATTCGCTCTTTTGGCTTACCGAACATCTGTTAGGACTTCGACTG
*
46818306 GGGCAACACCTTTTTCGTTGGTTTATGGTATG
66 GGGCAACACCTTTTTCGTTGGTTTATGGAATG
46818338 G
1 G
46818339 AGGCAGTTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (97 bp):
GGATTGGCATGAGAAGTTACCATTCGCTCTTTTGGCTTACCGAACATCTGTTAGGACTTCGACTG
GGGCAACACCTTTTTCGTTGGTTTATGGAATG
Found at i:46820108 original size:45 final size:45
Alignment explanation
Indices: 46820001--46820596 Score: 313
Period size: 44 Copynumber: 13.6 Consensus size: 45
46819991 TCGCATCTAG
* ** *
46820001 TCTTATCTCCCTGAAGTTGCACTGGAGCAGACT-AAGTAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATGGCAAA
*
46820046 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCAAA
* * * *
46820091 TCTTATCTCCCTGAAGTTGGAATGGAGCAGA-TTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGC-A-AA
* * * * *
46820135 TCCTATCTTCCTGAAGTTGCAGTGGAGTAGA-TTAAAACCTTGG---A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA---TGGCAAA
* * * ** *
46820179 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCG--CAT--TTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATGGCAAA
* ** *
46820219 TCTTATCTCCCTGAAGTTGCACTGGAGCAGACT-AAGTAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATGGCAAA
*
46820264 TCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCAAA
* * * ** *
46820309 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGAC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* * * * * *** *
46820353 TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
* * * * *
46820397 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCG--CAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATGGCAAA
*
46820437 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TGGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-GGCAAA
46820481 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCAAA
* * * * * *
46820526 TCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGCT-G-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCA-AA
* * *
46820570 TCCTATCTTCCTAAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
46820597 TGGATTAAAA
Statistics
Matches: 429, Mismatches: 78, Indels: 89
0.72 0.13 0.15
Matches are distributed among these distances:
39 1 0.00
40 42 0.10
41 15 0.03
42 6 0.01
43 26 0.06
44 168 0.39
45 154 0.36
46 16 0.04
49 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
Found at i:46820186 original size:44 final size:44
Alignment explanation
Indices: 46819871--46820644 Score: 228
Period size: 44 Copynumber: 17.8 Consensus size: 44
46819861 GAAGATGGAA
* * * * *
46819871 AATCTTATCTCCCTGAAATTGCAGAGGAGCAGATTAAAGCCGAC
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * ** * * *
46819915 AATCATATCTCCCTGAAGTTGCAGTAAAACGGATTAAAACC-TT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * * *** *
46819958 AGATCTTATC-TCTCTGAAGTTACAG-AGAGTAGA-TCGCATC--T
1 A-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * * * *
46819999 AGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAA-AGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA--AACCG-AT
* * * * * **
46820044 AGTCTTATCCTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCG-AT
* * * *
46820089 AATCTTATCTCCCTGAAGTTGGAATGGAGCAGATTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * *
46820133 AATCCTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAACC-TT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * ** ***
46820176 GGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATTT
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * * * *
46820217 AGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAA-AGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA--AACCG-AT
* * * * * **
46820262 AGTCTTATCCTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCG-AT
* * * *
46820307 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * * *
46820351 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACC--T
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* *** *
46820393 CAGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC--T
1 -A-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * * ****
46820435 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTGGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCG-AT
* * * * **
46820479 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCG-AT
* * * * * *
46820524 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGCTGAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* * ** *
46820568 AATCCTATCTTCCTAAAGTTGCAGTGGAGTGGATTAAAACC-TT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
* *
46820611 GGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGAT
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
46820645 CGCATTTAGT
Statistics
Matches: 539, Mismatches: 145, Indels: 93
0.69 0.19 0.12
Matches are distributed among these distances:
40 55 0.10
41 28 0.05
42 11 0.02
43 37 0.07
44 259 0.48
45 139 0.26
46 10 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAT
Found at i:46820238 original size:218 final size:218
Alignment explanation
Indices: 46819860--46820689 Score: 1288
Period size: 218 Copynumber: 3.8 Consensus size: 218
46819850 AGCATATCAG
* *
46819860 TGAAGATGGAAAATCTTATCTCCCTGAAA-TTGCAGA-GGAGCAGATTAAAGCCGACAATCATAT
1 TGAAGATGGCAAATCTTATCTCCCT-AAAGTTGCA-ATGGAGCAGATTAAAGCCGACAATCCTAT
** * * *
46819923 CTCCCTGAAGTTGCAGTAAAACGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGT
64 CTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGC
46819988 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATC
129 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATC
*
46820053 CTCCTAAAGTTGCAGTGAGGCAGAC
194 CTCCTGAAGTTGCAGTGAGGCAGAC
* * *
46820078 TGAAGATGGCAAATCTTATCTCCCTGAAGTTGGAATGGAGCAGATTAAAGCCGATAATCCTATCT
1 TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCGACAATCCTATCT
* ** *
46820143 TCCTGAAGTTGCAGTGGAGTAGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
66 CCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
*
46820208 ATCGCATTTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
131 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
*
46820273 CCTGAAGTTACAGTGAGGCAGAC
196 CCTGAAGTTGCAGTGAGGCAGAC
*
46820296 TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCT
1 TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCGACAATCCTATCT
* *
46820361 CCCTGAAGTTACAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
66 CCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
* **
46820426 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT-GGGCAAGTCTTATCCT
131 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
46820490 CCTGAAGTTGCAGTGAGGCAGAC
196 CCTGAAGTTGCAGTGAGGCAGAC
* * * * *
46820513 TGAAGATGGCAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGCTGATAATCCTATCT
1 TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCGACAATCCTATCT
* * * *
46820578 TCCTAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
66 CCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
* * * *
46820643 ATCGCATTTAGTCTTATCTTCCTGAAGTTACACCAGGAGCAGACTAA
131 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCA-CTGGAGCAGACTAA
46820690 ATCAAGTTGA
Statistics
Matches: 562, Mismatches: 47, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
217 188 0.33
218 374 0.67
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (218 bp):
TGAAGATGGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCGACAATCCTATCT
CCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
ATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
CCTGAAGTTGCAGTGAGGCAGAC
Found at i:46820589 original size:173 final size:173
Alignment explanation
Indices: 46820262--46820591 Score: 379
Period size: 173 Copynumber: 1.9 Consensus size: 173
46820252 AAGTAAAGCA
46820262 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
1 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
* * * *
46820327 GCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACC
66 GCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACC
* * *
46820392 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 TCAAATCCTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
* * *
46820435 AGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TGGGCAAGTCTTATC-CTCCTGA
1 AGTCTTATCCT-CCTGAAGTTACAGTGAG-GCAGACTGAAGAT-GGCAAATCTTATCTC-CCTAA
* * * * *
46820495 AGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATT
62 AGTTGCAGTGGA-GCAGACTAAAGACGAC-AATCCTATCTCCCTAAAGTTACAGTGGAGCAGATT
* *
46820559 -AAAGCTGATAATCCTATCT-TCCTAAAGTTGCAG
125 AAAACCTCA-AATCCTATCTCT-CTAAAGTTGCAG
46820592 TGGAGTGGAT
Statistics
Matches: 132, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
171 4 0.03
172 49 0.37
173 79 0.60
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (173 bp):
AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
GCAGTGGAGCAGACTAAAGACGACAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACC
TCAAATCCTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
Found at i:46820671 original size:435 final size:437
Alignment explanation
Indices: 46819860--46820689 Score: 1405
Period size: 435 Copynumber: 1.9 Consensus size: 437
46819850 AGCATATCAG
46819860 TGAAGATGGAAAATCTTATCTCCCTGAAATTGCAGAGGAGCAGATTAAAGCCGACAATCATATCT
1 TGAAGATGGAAAATCTTATCTCCCTGAAATTGCAGAGGAGCAGATTAAAGCCGACAATCATATCT
* * *
46819925 CCCTGAAGTTGCAGTAAAACGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTACAGAGAGTAG
66 CCCTGAAGTTACAGTAAAACGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAG
46819990 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
131 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
* **
46820055 CCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGGAATGGAGCA
196 CCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTACAATGGAGCA
*
46820120 GATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAACCTTGGATCTTAT
261 GATTAAAGCCGATAATCCTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAACCTTGGATCTTAT
* *
46820185 CTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTGCA-CTGGAGCAG
326 CTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTACACCAGGAGCAG
46820249 ACTAAGTAAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGAC
391 ACTAAGTAAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGAC
* * *
46820296 TGAAGATGGCAAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATC
1 TGAAGATGGAAAATCTTATCTCCCTGAAA-TTGCAGAGGAGCAGATTAAAGCCGACAATCATATC
** * *
46820360 TCCCTGAAGTTACAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCA
65 TCCCTGAAGTTACAGTAAAACGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCA
* **
46820425 GATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT-GGGCAAGTCTTATCC
130 GATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCC
* * *
46820489 TCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTACAGTGGAGT
195 TCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTACAATGGAGC
* *
46820554 AGATTAAAGCTGATAATCCTATCTTCCTAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTA
260 AGATTAAAGCCGATAATCCTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAACCTTGGATCTTA
*
46820619 TCTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTTCCTGAAGTTACACCAGGAGCA
325 TCTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTACACCAGGAGCA
46820684 GACTAA
390 GACTAA
46820690 ATCAAGTTGA
Statistics
Matches: 367, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
435 191 0.52
436 176 0.48
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (437 bp):
TGAAGATGGAAAATCTTATCTCCCTGAAATTGCAGAGGAGCAGATTAAAGCCGACAATCATATCT
CCCTGAAGTTACAGTAAAACGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTACAGAGAGCAG
ATCGCATCTAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAGTAAAGCAAGTCTTATCCT
CCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTACAATGGAGCA
GATTAAAGCCGATAATCCTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAACCTTGGATCTTAT
CTCTCTGAAGTTGCAGAGAGCAGATCGCATTTAGTCTTATCTCCCTGAAGTTACACCAGGAGCAG
ACTAAGTAAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGAC
Found at i:46822137 original size:21 final size:21
Alignment explanation
Indices: 46822111--46822151 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46822101 TTTTTAAAAA
*
46822111 ATATATGTATATATATTTTTC
1 ATATATGCATATATATTTTTC
*
46822132 ATATATGCATATTTATTTTT
1 ATATATGCATATATATTTTT
46822152 TTTGTAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
ATATATGCATATATATTTTTC
Found at i:46822189 original size:15 final size:15
Alignment explanation
Indices: 46822166--46822208 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
46822156 TAGTATAATA
*
46822166 TAATTATTTTTTATT
1 TAATTATTTTTTATG
* *
46822181 TATTTA-TTTATATG
1 TAATTATTTTTTATG
46822195 TAATTATTTTTTAT
1 TAATTATTTTTTAT
46822209 CTATATGTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TAATTATTTTTTATG
Found at i:46822221 original size:29 final size:29
Alignment explanation
Indices: 46822158--46822222 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
46822148 TTTTTTTGTA
* *
46822158 GTATA-ATATAATTATTTTTTATTTATTT
1 GTATATATATAATTATTTTTTATCTATAT
* * *
46822186 ATTTATATGTAATTATTTTTTATCTATAT
1 GTATATATATAATTATTTTTTATCTATAT
46822215 GTATATAT
1 GTATATAT
46822223 TTGTTTTAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
GTATATATATAATTATTTTTTATCTATAT
Found at i:46822224 original size:21 final size:22
Alignment explanation
Indices: 46822176--46822217 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
46822166 TAATTATTTT
*
46822176 TTATTTATTTATTTATATGTAA
1 TTATTTATTTATCTATATGTAA
46822198 TTATTT-TTTATCTATATGTA
1 TTATTTATTTATCTATATGTA
46822218 TATATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTTATTTATCTATATGTAA
Found at i:46824768 original size:12 final size:12
Alignment explanation
Indices: 46824747--46824776 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46824737 GCTTTACACC
46824747 ATTCAAACCACA
1 ATTCAAACCACA
*
46824759 ATTCATACCACA
1 ATTCAAACCACA
46824771 ATTCAA
1 ATTCAA
46824777 TTCACATGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (12 bp):
ATTCAAACCACA
Found at i:46824918 original size:20 final size:20
Alignment explanation
Indices: 46824893--46824935 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
46824883 ATATACAATG
*
46824893 TTATTATACTAAACCAGACT
1 TTATTATACTAAAACAGACT
46824913 TTATTATACTAAAACAGACT
1 TTATTATACTAAAACAGACT
46824933 TTA
1 TTA
46824936 ACTAGCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTATACTAAAACAGACT
Found at i:46827335 original size:31 final size:31
Alignment explanation
Indices: 46827273--46827336 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
46827263 AAAAAAATAG
* * * *
46827273 AAGTTCAAGCCTCAATGTGGGAAAAGTTGTT
1 AAGTTCAAACCCCAATATGGGAAAAGCTGTT
46827304 AAGTTCAAACCCCAATATGGGAATAA-CTGTT
1 AAGTTCAAACCCCAATATGGGAA-AAGCTGTT
46827335 AA
1 AA
46827337 ATTTACGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (31 bp):
AAGTTCAAACCCCAATATGGGAAAAGCTGTT
Found at i:46828260 original size:15 final size:15
Alignment explanation
Indices: 46828240--46828275 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
46828230 CCCGTTTTTA
46828240 AGTGGTGTTGAAAAT
1 AGTGGTGTTGAAAAT
46828255 AGTGGTGTTGAAAAT
1 AGTGGTGTTGAAAAT
46828270 AGTGGT
1 AGTGGT
46828276 TTCGGGGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (15 bp):
AGTGGTGTTGAAAAT
Found at i:46831582 original size:17 final size:18
Alignment explanation
Indices: 46831560--46831600 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
46831550 TATTCCTTTA
46831560 TAAA-TTATTCAACCTCC
1 TAAATTTATTCAACCTCC
46831577 TAAATTGTTATTCAACCTCC
1 TAAA-T-TTATTCAACCTCC
46831597 TAAA
1 TAAA
46831601 CTGAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
20 17 0.81
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (18 bp):
TAAATTTATTCAACCTCC
Found at i:46838957 original size:37 final size:37
Alignment explanation
Indices: 46838900--46839051 Score: 157
Period size: 37 Copynumber: 3.9 Consensus size: 37
46838890 TATGATCACT
*
46838900 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCAAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAC
*
46838935 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCC-AC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAC
*
46838971 TTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A--AC
*
46839017 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
46839052 GAAGCTATTA
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
35 6 0.06
36 6 0.06
37 51 0.52
41 1 0.01
42 1 0.01
46 34 0.34
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAC
Found at i:46839035 original size:46 final size:46
Alignment explanation
Indices: 46838968--46839138 Score: 225
Period size: 46 Copynumber: 3.6 Consensus size: 46
46838958 TAAGTGTAGC
* * **
46838968 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
46839014 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
46839060 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
46839112 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46839139 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
46 67 0.60
48 1 0.01
50 1 0.01
52 42 0.38
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:46839087 original size:52 final size:52
Alignment explanation
Indices: 46839011--46839124 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 52
46839001 TAGCTAAAGC
* *
46839011 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
46839064 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTT-CACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
46839116 TATCACTTT
1 TATCACTTT
46839125 GTCACTTGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 46 0.81
53 11 0.19
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
TATCACTTTCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:46849130 original size:14 final size:14
Alignment explanation
Indices: 46849113--46849144 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
46849103 AAGAAGAAGC
*
46849113 AAAAAGCGCAAAAA
1 AAAAACCGCAAAAA
46849127 AAAAACCGCAAAAA
1 AAAAACCGCAAAAA
46849141 AAAA
1 AAAA
46849145 GTTGCCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.16, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAACCGCAAAAA
Found at i:46857879 original size:40 final size:40
Alignment explanation
Indices: 46857758--46857889 Score: 101
Period size: 40 Copynumber: 3.4 Consensus size: 40
46857748 CTTTAAGTCC
* * * *
46857758 ATGAGACACTAGGTGTCAATTTATTACTT-TAGATTAATTTT
1 ATGAGACACTGGGTGTCAATTTATTACTTCGA-ATT-ATCTG
** * ** *
46857799 ATGAGGTACTGGGTGCCAA--T-TTACTTCGGTTTAGCTG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCTG
*
46857836 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCTG
**
46857876 ATGAGGTACTGGGT
1 ATGAGACACTGGGT
46857890 ACCAATCTGG
Statistics
Matches: 68, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
37 18 0.26
38 8 0.12
39 2 0.03
40 25 0.37
41 15 0.22
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCTG
Found at i:46858083 original size:21 final size:22
Alignment explanation
Indices: 46858059--46858101 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46858049 AAGCTATTTG
*
46858059 ATAGCAAGT-ATGAGACTTGAA
1 ATAGCAAGTGATGAGAATTGAA
46858080 ATAGCAAGTGATGAGAATTGAA
1 ATAGCAAGTGATGAGAATTGAA
46858102 TATGTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (22 bp):
ATAGCAAGTGATGAGAATTGAA
Found at i:46858120 original size:14 final size:16
Alignment explanation
Indices: 46858101--46858132 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46858091 TGAGAATTGA
46858101 ATATG-TTATGAA-TG
1 ATATGTTTATGAAGTG
46858115 ATATGTTTATGAAGTG
1 ATATGTTTATGAAGTG
46858131 AT
1 AT
46858133 GAATTGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
ATATGTTTATGAAGTG
Found at i:46858880 original size:28 final size:28
Alignment explanation
Indices: 46858840--46858921 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
46858830 ACAGGCAGAG
46858840 ACACGGGTGTGTGTCTTAGCCGTGTGTC
1 ACACGGGTGTGTGTCTTAGCCGTGTGTC
46858868 ACACGGGTGTGTGTCTTAGCCGTGTGTC
1 ACACGGGTGTGTGTCTTAGCCGTGTGTC
* ** * *
46858896 GCACGGGCATGTGACTTGGCCGTGTG
1 ACACGGGTGTGTGTCTTAGCCGTGTG
46858922 ACCTCTGCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.11, C:0.22, G:0.38, T:0.29
Consensus pattern (28 bp):
ACACGGGTGTGTGTCTTAGCCGTGTGTC
Found at i:46864916 original size:15 final size:15
Alignment explanation
Indices: 46864893--46864923 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46864883 CTAAATTATG
*
46864893 AAAATTTTGAAATTT
1 AAAAATTTGAAATTT
46864908 AAAAATTTGAAATTT
1 AAAAATTTGAAATTT
46864923 A
1 A
46864924 GGGACTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
AAAAATTTGAAATTT
Found at i:46876745 original size:3 final size:3
Alignment explanation
Indices: 46876731--46876773 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
46876721 CTCTTAGCTT
*
46876731 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
46876774 AGGGTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:46892403 original size:17 final size:17
Alignment explanation
Indices: 46892364--46892403 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46892354 GCAGGAGTGT
*
46892364 TCGCC-AAATAAGGATC
1 TCGCCAAAATAAGGAAC
*
46892380 TCACCAAAATAAGGAAC
1 TCGCCAAAATAAGGAAC
46892397 TCGCCAA
1 TCGCCAA
46892404 CTGCGAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.42, C:0.28, G:0.15, T:0.15
Consensus pattern (17 bp):
TCGCCAAAATAAGGAAC
Found at i:46894204 original size:14 final size:14
Alignment explanation
Indices: 46894185--46894211 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46894175 GCCTGGGCGA
46894185 AAATTAATTATTTT
1 AAATTAATTATTTT
46894199 AAATTAATTATTT
1 AAATTAATTATTT
46894212 GAATAATATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATTAATTATTTT
Found at i:46894351 original size:9 final size:9
Alignment explanation
Indices: 46894326--46894403 Score: 63
Period size: 9 Copynumber: 8.3 Consensus size: 9
46894316 TTTTTAAAAA
46894326 TTATAA-TT
1 TTATAATTT
46894334 TTA-ACATTT
1 TTATA-ATTT
46894343 TTATAATTT
1 TTATAATTT
46894352 TTA-AATTCT
1 TTATAATT-T
46894361 TTATTAATTTT
1 TTA-TAA-TTT
*
46894372 TTTTAATTT
1 TTATAATTT
46894381 TTAATAAATTT
1 TT-AT-AATTT
*
46894392 TGATAATTT
1 TTATAATTT
46894401 TTA
1 TTA
46894404 GTTTGTTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
7 1 0.02
8 8 0.14
9 28 0.49
10 7 0.12
11 11 0.19
12 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:46894379 original size:21 final size:20
Alignment explanation
Indices: 46894332--46894392 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
46894322 AAAATTATAA
46894332 TTTTAACATTTTT-AT-AA-T
1 TTTTAA-ATTTTTAATAAATT
* *
46894350 TTTTAAATTCTTTATTAATTT
1 TTTTAAATT-TTTAATAAATT
*
46894371 TTTTTAATTTTTAATAAATT
1 TTTTAAATTTTTAATAAATT
46894391 TT
1 TT
46894393 GATAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 1 0.03
20 12 0.35
21 9 0.26
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAAATTTTTAATAAATT
Found at i:46894383 original size:20 final size:20
Alignment explanation
Indices: 46894349--46894403 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
46894339 ATTTTTATAA
* * *
46894349 TTTTTAAATTCTTTATTAATT
1 TTTTTTAATT-TTTAATAAAT
46894370 TTTTTTAATTTTTAATAAAT
1 TTTTTTAATTTTTAATAAAT
**
46894390 TTTGATAATTTTTA
1 TTTTTTAATTTTTA
46894404 GTTTGTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTAATTTTTAATAAAT
Found at i:46914929 original size:92 final size:91
Alignment explanation
Indices: 46914767--46914942 Score: 318
Period size: 92 Copynumber: 1.9 Consensus size: 91
46914757 TATGTAGAGG
*
46914767 GATATGGTTGATCAGTATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTG
1 GATAAGGTTGATCAGTATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTG
46914832 ATTGAGTGAGACTAGAAATNCTAGATC
66 ATTGAGTGAGACTAGAAAT-CTAGATC
46914859 GATAAGGTTGATC-GATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTT
1 GATAAGGTTGATCAG-TATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTT
46914923 GATTGAGTGAGACTAGAAAT
65 GATTGAGTGAGACTAGAAAT
46914943 GCATGGCCAT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
91 1 0.01
92 81 0.99
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (91 bp):
GATAAGGTTGATCAGTATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTG
ATTGAGTGAGACTAGAAATCTAGATC
Found at i:46916085 original size:23 final size:24
Alignment explanation
Indices: 46916055--46916099 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
46916045 CAATCAGGAA
46916055 AATTAAC-TCAT-TTCAGGGTTTGT
1 AATTAACTTCATATT-AGGGTTTGT
46916078 AATTAACTTCATATTAGGGTTT
1 AATTAACTTCATATTAGGGTTT
46916100 TATGGTGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 11 0.55
25 2 0.10
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (24 bp):
AATTAACTTCATATTAGGGTTTGT
Found at i:46929292 original size:21 final size:21
Alignment explanation
Indices: 46929266--46929329 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
46929256 CGAACACGCT
46929266 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
* *
46929287 AACAGAAGCTCACAAGAGCTT
1 AACAGAAGCTCAAAAGAGCTG
*
46929308 AATAGAAGCTCACAAA-AGCTG
1 AACAGAAGCTCA-AAAGAGCTG
46929329 A
1 A
46929330 TGCACCCGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 35 0.95
22 2 0.05
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:46938227 original size:33 final size:34
Alignment explanation
Indices: 46938190--46938286 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
46938180 CCTCTTTAAA
* *
46938190 AGCTTTTACCCCTTCAACATCA-CCTTCCCCAGT
1 AGCTTCTACCCCTTCAACATCACCCTTCCCCAGC
* *
46938223 AGCTTCTACACCTTCAACATCACCCTT-TCCAGC
1 AGCTTCTACCCCTTCAACATCACCCTTCCCCAGC
* *
46938256 AGCTTCTACCCATTCAACATCATCC-TCCCCA
1 AGCTTCTACCCCTTCAACATCACCCTTCCCCA
46938287 TCAAATTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.02
33 49 0.91
34 4 0.07
ACGTcount: A:0.24, C:0.43, G:0.05, T:0.28
Consensus pattern (34 bp):
AGCTTCTACCCCTTCAACATCACCCTTCCCCAGC
Found at i:46938266 original size:66 final size:66
Alignment explanation
Indices: 46938156--46938286 Score: 160
Period size: 66 Copynumber: 2.0 Consensus size: 66
46938146 CCCTCTCTAT
* * *
46938156 TAGCTTCTACCCTTTAAACATCACCCTCTTTAAAAGCTTTTACCCCTTCAACATCA-CCTTCCCC
1 TAGCTTCTACCCTTTAAACATCACCCTCTTCAAAAGCTTCTACCCATTCAACATCATCC-TCCCC
46938220 AG
65 AG
* **
46938222 TAGCTTCTACACC-TTCAACATCACCCT-TTCCAGCAGCTTCTACCCATTCAACATCATCCTCCC
1 TAGCTTCTAC-CCTTTAAACATCACCCTCTT-CAAAAGCTTCTACCCATTCAACATCATCCTCCC
46938285 CA
64 CA
46938287 TCAAATTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
65 2 0.04
66 50 0.89
67 4 0.07
ACGTcount: A:0.25, C:0.40, G:0.05, T:0.30
Consensus pattern (66 bp):
TAGCTTCTACCCTTTAAACATCACCCTCTTCAAAAGCTTCTACCCATTCAACATCATCCTCCCCA
G
Found at i:46960483 original size:6 final size:6
Alignment explanation
Indices: 46960472--46960498 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46960462 GCATGTCTCT
46960472 TCCAAA TCCAAA TCCAAA TCCAAA TCC
1 TCCAAA TCCAAA TCCAAA TCCAAA TCC
46960499 CAATGTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCAAA
Found at i:46962602 original size:20 final size:23
Alignment explanation
Indices: 46962579--46962625 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
46962569 AAGCTATCGG
46962579 AAAACTA-CAAA-ATTATAAAA-
1 AAAACTATCAAAGATTATAAAAT
*
46962599 AAAACTATTAAAGATTATAAAAT
1 AAAACTATCAAAGATTATAAAAT
46962622 AAAA
1 AAAA
46962626 AGAGTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 9 0.39
23 4 0.17
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAACTATCAAAGATTATAAAAT
Found at i:46964659 original size:6 final size:6
Alignment explanation
Indices: 46964649--46964710 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
46964639 AAAGAAAAAC
*
46964649 AAATAA CAATAA AAAT-A AAATAA AAATAA AAAT-- AAATAA AACATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATAA
*
46964695 AACT-- AAATAA AAATAA
1 AAATAA AAATAA AAATAA
46964711 CTAATCGACG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
4 7 0.15
5 5 0.11
6 28 0.61
7 6 0.13
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:46964662 original size:23 final size:23
Alignment explanation
Indices: 46964649--46964710 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
46964639 AAAGAAAAAC
*
46964649 AAATAACAATAAAAATAAAATAA
1 AAATAAAAATAAAAATAAAATAA
*
46964672 AAATAAAAATAAATAA-AACATAA
1 AAATAAAAATAAA-AATAAAATAA
*
46964695 AACT--AAATAAAAATAA
1 AAATAAAAATAAAAATAA
46964711 CTAATCGACG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 9 0.26
23 21 0.62
24 2 0.06
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (23 bp):
AAATAAAAATAAAAATAAAATAA
Found at i:46964669 original size:17 final size:16
Alignment explanation
Indices: 46964637--46964710 Score: 94
Period size: 17 Copynumber: 4.5 Consensus size: 16
46964627 TATAAATCCA
* *
46964637 AAAAAGAAAAACAAAT
1 AAAAATAAAAATAAAT
*
46964653 AACAATAAAAATAAAAT
1 AAAAATAAAAAT-AAAT
46964670 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
*
46964686 AAAACATAAAACTAAAT
1 AAAA-ATAAAAATAAAT
46964703 AAAAATAA
1 AAAAATAA
46964711 CTAATCGACG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
16 21 0.41
17 30 0.59
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.15
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:46964680 original size:33 final size:33
Alignment explanation
Indices: 46964637--46964710 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
46964627 TATAAATCCA
* *
46964637 AAAAAGAAAAACAAATAACA-ATAAAAATAAAAT
1 AAAAATAAAAACAAATAAAACATAAAAAT-AAAT
* *
46964670 AAAAATAAAAATAAATAAAACATAAAACTAAAT
1 AAAAATAAAAACAAATAAAACATAAAAATAAAT
46964703 AAAAATAA
1 AAAAATAA
46964711 CTAATCGACG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
33 29 0.81
34 7 0.19
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.15
Consensus pattern (33 bp):
AAAAATAAAAACAAATAAAACATAAAAATAAAT
Found at i:46964702 original size:27 final size:26
Alignment explanation
Indices: 46964656--46964710 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 26
46964646 AACAAATAAC
46964656 AATAAAAATAAAATAAAAATAAAAATA
1 AATAAAAATAAAAT-AAAATAAAAATA
46964683 AATAAAACATAAAACT-AAATAAAAATA
1 AATAAAA-ATAAAA-TAAAATAAAAATA
46964710 A
1 A
46964711 CTAATCGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 19 0.73
28 6 0.23
29 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (26 bp):
AATAAAAATAAAATAAAATAAAAATA
Found at i:46969748 original size:18 final size:18
Alignment explanation
Indices: 46969725--46969798 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
46969715 GAAATGGAAA
46969725 AGATGAGAAATGATTATG
1 AGATGAGAAATGATTATG
46969743 AGATGAGAAAAT-ATTGAAATG
1 AGATGAG-AAATGATT---ATG
46969764 AGAAATATGAGAAATGATTATG
1 AG----ATGAGAAATGATTATG
*
46969786 AGATGAGATATGA
1 AGATGAGAAATGA
46969799 AATATGAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 18
0.71 0.02 0.28
Matches are distributed among these distances:
18 20 0.43
19 4 0.09
21 5 0.11
22 5 0.11
24 4 0.09
25 8 0.17
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
AGATGAGAAATGATTATG
Found at i:46969774 original size:43 final size:43
Alignment explanation
Indices: 46969710--46969793 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
46969700 TATGTGATTG
46969710 ATATCGAAATGGAAAAGATGAGAAATGATTATGAGATGAGAAA
1 ATATCGAAATGGAAAAGATGAGAAATGATTATGAGATGAGAAA
* *
46969753 ATATTGAAAT-GAGAAATATGAGAAATGATTATGAGATGAGA
1 ATATCGAAATGGA-AAAGATGAGAAATGATTATGAGATGAGA
46969794 TATGAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.50, C:0.01, G:0.25, T:0.24
Consensus pattern (43 bp):
ATATCGAAATGGAAAAGATGAGAAATGATTATGAGATGAGAAA
Found at i:46970811 original size:30 final size:30
Alignment explanation
Indices: 46970777--46970843 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
46970767 GTGTCTCAAT
*
46970777 CGTGTGAGGCACACGACTTGGCCACACGGG
1 CGTGTGAGGCACACGACTTGGCCACACGAG
*
46970807 CGTGTGAGGCACACGGCTTGGCCACACGAG
1 CGTGTGAGGCACACGACTTGGCCACACGAG
*
46970837 TGTGTGA
1 CGTGTGA
46970844 CCCCTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.27, G:0.37, T:0.16
Consensus pattern (30 bp):
CGTGTGAGGCACACGACTTGGCCACACGAG
Found at i:46972031 original size:15 final size:15
Alignment explanation
Indices: 46971994--46972032 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
46971984 ATATATATAC
*
46971994 ATGTAGTGAAAAAAG
1 ATGTATTGAAAAAAG
*
46972009 AT-TATTGAAATAAG
1 ATGTATTGAAAAAAG
46972023 ATGTATTGAA
1 ATGTATTGAA
46972033 TTGTTGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (15 bp):
ATGTATTGAAAAAAG
Found at i:46972119 original size:28 final size:28
Alignment explanation
Indices: 46972087--46972155 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
46972077 TAATGAGATT
* * *
46972087 AGCACTCAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* *
46972115 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
46972143 AGCACTAAGTGTG
1 AGCACTAAGTGTG
46972156 AGAACTTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Done.