Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 86 of 182
Found at i:25794371 original size:40 final size:39
Alignment explanation
Indices: 25794322--25794506 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
25794312 GCCACTAGCT
* * *
25794322 CAAACGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
*
25794362 AAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
*
25794401 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
* * *** *
25794441 CAAACGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCGCA
25794481 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
25794507 TATCATCCGA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 39 0.31
40 88 0.69
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:25794420 original size:79 final size:80
Alignment explanation
Indices: 25794315--25794509 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 80
25794305 GGATATAGCC
* * * * *
25794315 ACTAGCTCAAACGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCAAAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCAAAAACGCCTTCGGGACTT
* *
25794380 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * *
25794394 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCAAAAACGCCTTCGGGACTT
* *
25794459 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
25794474 ACTAGCACAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
25794510 CATCCGAACA
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 66 0.67
80 33 0.33
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCAAAAACGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:25799740 original size:110 final size:110
Alignment explanation
Indices: 25799547--25799744 Score: 333
Period size: 110 Copynumber: 1.8 Consensus size: 110
25799537 TGAGGCCGTT
* * *
25799547 TGGAGCATACTGACTTGTTTTCAATTTCAACATCAGGGGACACACGATCGTGTAACAAGACCATG
1 TGGAGCATACTGACTTGTTTTCAATTTCAACACCAAGGGACACACGACCGTGTAACAAGACCATG
25799612 TGTCACACACGGCTAAGACACACACTCGTGTGTGACTTGGCTGTG
66 TGTCACACACGGCTAAGACACACACTCGTGTGTGACTTGGCTGTG
* * *
25799657 TGGAGCATATTGACTTGTTTTTAATTTCAACACCAAGGGACACACGGCCGTGTAACAAGACCATG
1 TGGAGCATACTGACTTGTTTTCAATTTCAACACCAAGGGACACACGACCGTGTAACAAGACCATG
*
25799722 TGTCGCACACGGCTAAGACACAC
66 TGTCACACACGGCTAAGACACAC
25799745 GCGCTATTTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 81 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (110 bp):
TGGAGCATACTGACTTGTTTTCAATTTCAACACCAAGGGACACACGACCGTGTAACAAGACCATG
TGTCACACACGGCTAAGACACACACTCGTGTGTGACTTGGCTGTG
Found at i:25800675 original size:41 final size:40
Alignment explanation
Indices: 25800630--25800707 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
25800620 AGTGCCTTAC
*
25800630 ATAGCCAAAACTA-TCTCAATCTCACACACTAAGTGCCACAT
1 ATAGCCAAAACTATTC-CAA-ATCACACACTAAGTGCCACAT
* * *
25800671 ATAGCCGAAGCTATTCCAAATCGCACACTAAGTGCCA
1 ATAGCCAAAACTATTCCAAATCACACACTAAGTGCCA
25800708 TACATAGCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 16 0.50
41 14 0.44
42 2 0.06
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.21
Consensus pattern (40 bp):
ATAGCCAAAACTATTCCAAATCACACACTAAGTGCCACAT
Found at i:25804326 original size:40 final size:40
Alignment explanation
Indices: 25804297--25804571 Score: 383
Period size: 40 Copynumber: 6.6 Consensus size: 40
25804287 GCTACTCGCT
* *
25804297 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCA
*
25804337 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAACACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT--T-A---G-----TCACTAGCA
25804389 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
25804429 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
25804469 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
25804509 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
25804549 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
25804572 CGTTATCATC
Statistics
Matches: 217, Mismatches: 5, Indels: 26
0.88 0.02 0.10
Matches are distributed among these distances:
40 176 0.81
42 2 0.01
43 1 0.00
44 1 0.00
45 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
51 2 0.01
52 30 0.14
53 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:25804412 original size:52 final size:52
Alignment explanation
Indices: 25804334--25804432 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
25804324 ATAGTAGTTC
*
25804334 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAACACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAACACTA
*
25804386 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAA
25804433 TGCCTTCGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 42 0.95
53 2 0.05
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.19
Consensus pattern (52 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAACACTA
Found at i:25805031 original size:57 final size:57
Alignment explanation
Indices: 25804943--25805056 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
25804933 CCTTTATCGG
25804943 ATTTAGTTCCCCTTTGCTCTTGAGCTTAATTTAACAAATAAATTGATTTAATCATTT
1 ATTTAGTTCCCCTTTGCTCTTGAGCTTAATTTAACAAATAAATTGATTTAATCATTT
25805000 ATTTAGTTCCCCTTTGCTCTTGAGCTTAATTTAACAAATAAATTGATTTAATCATTT
1 ATTTAGTTCCCCTTTGCTCTTGAGCTTAATTTAACAAATAAATTGATTTAATCATTT
25805057 GAACATCAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.46
Consensus pattern (57 bp):
ATTTAGTTCCCCTTTGCTCTTGAGCTTAATTTAACAAATAAATTGATTTAATCATTT
Found at i:25811595 original size:41 final size:40
Alignment explanation
Indices: 25811522--25811656 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 40
25811512 CTAAGTGCTA
* * ** *
25811522 ATACATAGCTGAAGCCATTTTAAACTCACACACAATGTGCC
1 ATACATAGCCGAAGCTATTCCAAA-TCGCACACAATGTGCC
* * **
25811563 TTACATAGCCGAAGCTATCTCGATCTCGCACACTAA-GTGCC
1 ATACATAGCCGAAGCTAT-TCCAAATCGCACAC-AATGTGCC
* * *
25811604 ATATATAGCCGAAGCTATTCCAAATTGCACACTATGTGCC
1 ATACATAGCCGAAGCTATTCCAAATCGCACACAATGTGCC
*
25811644 ATACATAGTCGAA
1 ATACATAGCCGAA
25811657 TTTTTGTCAA
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
39 1 0.01
40 26 0.35
41 43 0.58
42 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
ATACATAGCCGAAGCTATTCCAAATCGCACACAATGTGCC
Found at i:25811644 original size:40 final size:41
Alignment explanation
Indices: 25811550--25811656 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
25811540 TTTAAACTCA
* * * **
25811550 CACACAATGTGCCTTACATAGCCGAAGCTATCTCGATCTCG
1 CACACTATGTGCCATACATAGCCGAAGCTATCTCCAAATCG
* * *
25811591 CACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAAATTG
1 CACACTATGTGCCATACATAGCCGAAGCTATCTCCAAATCG
*
25811631 CACACTATGTGCCATACATAGTCGAA
1 CACACTATGTGCCATACATAGCCGAA
25811657 TTTTTGTCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 28 0.51
41 27 0.49
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
CACACTATGTGCCATACATAGCCGAAGCTATCTCCAAATCG
Found at i:25813402 original size:18 final size:18
Alignment explanation
Indices: 25813360--25813402 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25813350 GCCCATTCCG
* *
25813360 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
25813378 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
25813396 AAGTATG
1 AAGTATG
25813403 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:25813909 original size:56 final size:55
Alignment explanation
Indices: 25813847--25814029 Score: 253
Period size: 56 Copynumber: 3.3 Consensus size: 55
25813837 GAGATTGGCG
* *
25813847 CTAAGTGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTT-AATTGTG-AGCACTAAGTGTGCGAGTTTGACTATGTAGCA
*
25813903 CTAAGTGTGCGAGTTTGACTATGT-AGCACTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTT-AAT-TGTGAGCACTAAGTGTGCGAGTTTGACTATGTAGCA
* * *
25813959 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAATTGTG-AGCACTAAGTGTGCGAGTTTGACTATGTAGCA
25814015 CTAAGTGTGCGAGTT
1 CTAAGTGTGCGAGTT
25814030 GATTATATAG
Statistics
Matches: 115, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
54 2 0.02
55 17 0.15
56 93 0.81
57 3 0.03
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (55 bp):
CTAAGTGTGCGAGTTTAATTGTGAGCACTAAGTGTGCGAGTTTGACTATGTAGCA
Found at i:25813929 original size:28 final size:28
Alignment explanation
Indices: 25813872--25814052 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
25813862 TAAATTGTGC
*
25813872 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
25813899 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
25813927 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
25813955 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
25813983 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
25814011 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
25814038 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25814053 GACTTAATAT
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 39 0.26
28 110 0.74
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:25823214 original size:28 final size:28
Alignment explanation
Indices: 25823132--25823365 Score: 346
Period size: 28 Copynumber: 8.4 Consensus size: 28
25823122 GAGATTGGCG
* * * *
25823132 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
25823161 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
25823188 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
25823216 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
25823244 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
25823272 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
25823300 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
25823328 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
25823355 CTGAGTGTGCG
1 CTAAGTGTGCG
25823366 GACTTAATAT
Statistics
Matches: 194, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
27 44 0.23
28 139 0.72
29 11 0.06
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:25827709 original size:26 final size:27
Alignment explanation
Indices: 25827644--25827770 Score: 116
Period size: 27 Copynumber: 4.7 Consensus size: 27
25827634 CCCTAATTGA
* *
25827644 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
25827671 TAAAATGATTGTTTTGCCCATATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
25827698 T-AAATGACTGTTTTTCCCTTATATAG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
25827724 -AAATAT-AGTTGTTTTGCCTTTATATGG
1 TAAA-ATGA-CTGTTTTGCCCTTATATGG
** *
25827751 TAAGGTGACTGTTATGCCCT
1 TAAAATGACTGTTTTGCCCT
25827771 ATGTGATGTA
Statistics
Matches: 78, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
26 24 0.31
27 51 0.65
28 3 0.04
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:25831493 original size:27 final size:27
Alignment explanation
Indices: 25831463--25831541 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
25831453 CCCTAATTGA
*
25831463 TAAAATAATTGTTTTGCCCTTATGTGG
1 TAAAATAACTGTTTTGCCCTTATGTGG
*
25831490 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATAACTGTTTTGCCCTTATGTGG
** **
25831517 TAAGGTGGCTGTTTTGCCC-TATGTG
1 TAAAATAACTGTTTTGCCCTTATGTG
25831542 ATGTATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 6 0.13
27 41 0.87
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (27 bp):
TAAAATAACTGTTTTGCCCTTATGTGG
Found at i:25840069 original size:34 final size:33
Alignment explanation
Indices: 25840026--25840097 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
25840016 CATTTCAGTA
* *
25840026 ACAGTTCAATTTCAGT-TAGGGCCTTAGCCCATT
1 ACAGTTCAATATCAATGT-GGGCCTTAGCCCATT
25840059 ACAGTATCAATATCAATGTGGGCCTTAGCCCATT
1 ACAGT-TCAATATCAATGTGGGCCTTAGCCCATT
25840093 ACAGT
1 ACAGT
25840098 GATAGTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 5 0.14
34 29 0.83
35 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (33 bp):
ACAGTTCAATATCAATGTGGGCCTTAGCCCATT
Found at i:25845200 original size:46 final size:46
Alignment explanation
Indices: 25845133--25845307 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
25845123 TGTAACCCGC
* * * *
25845133 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
25845179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
25845225 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
25845271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25845308 TGCTCAACCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25855699 original size:24 final size:25
Alignment explanation
Indices: 25855668--25855729 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
25855658 AACCGATTTC
*
25855668 GCACACATAGTGCTAAT-C-AAATT
1 GCACACATAGTGCTAATGCTAAACT
*
25855691 AGCACACATAGTGC-CATGCTAAACT
1 -GCACACATAGTGCTAATGCTAAACT
25855716 GCACACATAGTGCT
1 GCACACATAGTGCT
25855730 TTGGAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 27 0.82
25 4 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (25 bp):
GCACACATAGTGCTAATGCTAAACT
Found at i:25855816 original size:24 final size:24
Alignment explanation
Indices: 25855667--25855826 Score: 74
Period size: 24 Copynumber: 6.7 Consensus size: 24
25855657 CAACCGATTT
* * *
25855667 CGCACACATAGTGCTAATCAAATT
1 CGCACACATAGTGCCATTCAAATC
* *
25855691 AGCACACATAGTGCCATGCTAAA-C
1 CGCACACATAGTGCCATTC-AAATC
* * * *
25855715 TGCACACATAGTG-CTTTGGAAATT
1 CGCACACATAGTGCCATT-CAAATC
* * ** * *
25855739 CACTCATTTATTGACATTCAAA-C
1 CGCACACATAGTGCCATTCAAATC
* * * * *
25855762 CAGCATACATAGTGCCAATCGATTT
1 C-GCACACATAGTGCCATTCAAATC
*
25855787 CACACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
25855811 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
25855827 ATGTTGGCTC
Statistics
Matches: 92, Mismatches: 38, Indels: 12
0.65 0.27 0.08
Matches are distributed among these distances:
23 6 0.07
24 79 0.86
25 7 0.08
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:25861876 original size:33 final size:34
Alignment explanation
Indices: 25861826--25861918 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
25861816 TTTCATACTA
* *
25861826 TACTGATT-CTGTTATGGGCTTAGGCCC-CACTGC
1 TACTG-TTACTGTAATGGGCTAAGGCCCACACTGC
* * *
25861859 TACTGTTACTGTAATGGGCTCAGGCCCAGACTTC
1 TACTGTTACTGTAATGGGCTAAGGCCCACACTGC
* *
25861893 TATTGTTACTGTATTGGGCTAAGGCC
1 TACTGTTACTGTAATGGGCTAAGGCC
25861919 TAACTAATAC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.04
33 22 0.43
34 27 0.53
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (34 bp):
TACTGTTACTGTAATGGGCTAAGGCCCACACTGC
Found at i:25867125 original size:24 final size:24
Alignment explanation
Indices: 25866978--25867135 Score: 79
Period size: 24 Copynumber: 6.6 Consensus size: 24
25866968 ACCGATTTCC
* * *
25866978 CACACATAGTGCTAATCAAATTCG
1 CACACATAGTGCCATTCAAATCCG
* *
25867002 CACACATAATGCCATGCTAAA-CCG
1 CACACATAGTGCCATTC-AAATCCG
* * * *
25867026 CACACATAGTG-CTTTGGAAATTCA
1 CACACATAGTGCCATT-CAAATCCG
* ** * *
25867050 CTCATTTATTGACATTCAAA-CCAG
1 CACACATAGTGCCATTCAAATCC-G
* * * * * *
25867074 CATACATAGTGCCAATCGATTTCA
1 CACACATAGTGCCATTCAAATCCG
25867098 CACACATAGTGCCATTCAAATCCG
1 CACACATAGTGCCATTCAAATCCG
*
25867122 CACACTTAGTGCCA
1 CACACATAGTGCCA
25867136 ATGTTGGCTC
Statistics
Matches: 91, Mismatches: 37, Indels: 12
0.65 0.26 0.09
Matches are distributed among these distances:
23 6 0.07
24 78 0.86
25 7 0.08
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (24 bp):
CACACATAGTGCCATTCAAATCCG
Found at i:25870398 original size:15 final size:15
Alignment explanation
Indices: 25870378--25870407 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25870368 AAAATGTGAA
25870378 ATAAATGAAAATTAT
1 ATAAATGAAAATTAT
25870393 ATAAATGAAAATTAT
1 ATAAATGAAAATTAT
25870408 GGACTACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAAATGAAAATTAT
Found at i:25870912 original size:41 final size:42
Alignment explanation
Indices: 25870845--25870937 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 42
25870835 GCTATATATA
* * **
25870845 GCACTTAGTGTGTAAGACTGAGATAGCTTTGGCTATGT-AAG
1 GCACTTAGTGTGCAAGACTGAAATAGCTTCAGCTATGTGAAG
* **
25870886 GCACTTAGTGTGCGAGACT-ATAATAGCTTCAGCTATGTGTTG
1 GCACTTAGTGTGCAAGACTGA-AATAGCTTCAGCTATGTGAAG
25870928 GCACTTAGTG
1 GCACTTAGTG
25870938 CACGAGACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 31 0.72
42 11 0.26
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
GCACTTAGTGTGCAAGACTGAAATAGCTTCAGCTATGTGAAG
Found at i:25871929 original size:12 final size:12
Alignment explanation
Indices: 25871912--25871942 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
25871902 CAGTATGCTC
25871912 CACACGGCCTAG
1 CACACGGCCTAG
*
25871924 CACACGGCCTGG
1 CACACGGCCTAG
25871936 CACACGG
1 CACACGG
25871943 GTGTGTGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:25877485 original size:39 final size:38
Alignment explanation
Indices: 25877435--25877528 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 38
25877425 TAATTACTAT
* * **
25877435 AATTACCATAATTATAATAATGTTTTACCGAAAAATTAC
1 AATTACAATAATTATAATAATATTCGACCG-AAAATTAC
* * *
25877474 AATTACAATAATTATAATAATATTCGATCGTAAATTAT
1 AATTACAATAATTATAATAATATTCGACCGAAAATTAC
25877512 AATTACAAT-ATTATAAT
1 AATTACAATAATTATAAT
25877529 TATGATTTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 8 0.17
38 15 0.31
39 25 0.52
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (38 bp):
AATTACAATAATTATAATAATATTCGACCGAAAATTAC
Found at i:25877529 original size:20 final size:20
Alignment explanation
Indices: 25877468--25877531 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
25877458 TTTACCGAAA
*
25877468 AATTACAATTACAATAATTAT
1 AATTATAATTACAAT-ATTAT
* * **
25877489 AATAAT-ATT-CGATCGTA-
1 AATTATAATTACAATATTAT
25877506 AATTATAATTACAATATTAT
1 AATTATAATTACAATATTAT
25877526 AATTAT
1 AATTAT
25877532 GATTTCGATA
Statistics
Matches: 31, Mismatches: 9, Indels: 7
0.66 0.19 0.15
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 8 0.26
20 9 0.29
21 4 0.13
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
AATTATAATTACAATATTAT
Found at i:25884958 original size:40 final size:40
Alignment explanation
Indices: 25884511--25884946 Score: 775
Period size: 40 Copynumber: 10.9 Consensus size: 40
25884501 NNNNNNNNNN
* *
25884511 TGCTAGTGATGTATCTGGGCTAAGTCCCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
25884551 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
25884591 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
25884631 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
25884671 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
25884711 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
*
25884751 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
*
25884791 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
*
25884831 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
25884871 TGCTAGTGATGTATCCGGGCTAAGT-TCCGAAGAGCATTCG
1 TGCTAGTGATGTATCCGGGCTAAGTCT-CGAAGAGCATTCG
* * * *
25884911 TGCTGGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCA
25884947 ATCATGCTGG
Statistics
Matches: 386, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
40 385 1.00
41 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
Found at i:25892993 original size:29 final size:27
Alignment explanation
Indices: 25892891--25893002 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
25892881 ATACCCCTAC
* *
25892891 ATTCATGCATATAGCCCACTAGGTCCA
1 ATTCATTCATATAGCCCACTAGGCCCA
* * *
25892918 ATCTTATTCAAATGGCCCATCT-GGCCCA
1 AT-TCATTCATATAGCCCA-CTAGGCCCA
*
25892946 ATTCATATTCTTATAGCCCACTAGGCCCA
1 ATTC--ATTCATATAGCCCACTAGGCCCA
* *
25892975 ATTCACCTTCATATGGCCCATTAGGCCC
1 ATTCA--TTCATATAGCCCACTAGGCCC
25893003 CAATCATATT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
27 4 0.06
28 21 0.32
29 41 0.62
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (27 bp):
ATTCATTCATATAGCCCACTAGGCCCA
Found at i:25893010 original size:58 final size:57
Alignment explanation
Indices: 25892900--25893012 Score: 142
Period size: 58 Copynumber: 2.0 Consensus size: 57
25892890 CATTCATGCA
* *
25892900 TATAGCCCACTAGGTCCAATCTTATTCAAATGGCCCATCTGGCCCAATTCATATTCT
1 TATAGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAATTCATATTCT
*
25892957 TATAGCCCACTAGGCCCAAT-TCACCTTCATATGGCCCAT-TAGGCCCCAA-TCATATT
1 TATAGCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATCT-GG-CCCAATTCATATT
25893013 ATACTCATGC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
56 2 0.04
57 20 0.41
58 22 0.45
59 5 0.10
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (57 bp):
TATAGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAATTCATATTCT
Found at i:25895317 original size:7 final size:7
Alignment explanation
Indices: 25895305--25895354 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
25895295 TATGCATGCC
25895305 ATATGAT
1 ATATGAT
25895312 ATATGAT
1 ATATGAT
25895319 ATATGAT
1 ATATGAT
*
25895326 ATAAGTAT
1 ATATG-AT
*
25895334 GTATG-T
1 ATATGAT
*
25895340 ATATAAT
1 ATATGAT
25895347 -TATGAT
1 ATATGAT
25895353 AT
1 AT
25895355 GCATGTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
6 9 0.26
7 20 0.59
8 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (7 bp):
ATATGAT
Found at i:25895589 original size:5 final size:5
Alignment explanation
Indices: 25895579--25895650 Score: 54
Period size: 5 Copynumber: 14.4 Consensus size: 5
25895569 GGGGTAGGAC
* * * ** * *
25895579 ATGAT ATGAT ATGCT TTGTT ACAAT ATGAT ATGAT ATGAT ATGTT ACGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
* * *
25895629 ACGTT ATGAT ATGAT AAGAT AT
1 ATGAT ATGAT ATGAT ATGAT AT
25895651 ACTTTAATTT
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:25895613 original size:25 final size:25
Alignment explanation
Indices: 25895579--25895644 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
25895569 GGGGTAGGAC
* *
25895579 ATGATATGATATGCTTTGTTACAAT
1 ATGATATGATATGATATGTTACAAT
*
25895604 ATGATATGATATGATATGTTACGAT
1 ATGATATGATATGATATGTTACAAT
* *
25895629 ACGTTATGATATGATA
1 ATGATATGATATGATA
25895645 AGATATACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (25 bp):
ATGATATGATATGATATGTTACAAT
Found at i:25897224 original size:15 final size:15
Alignment explanation
Indices: 25897204--25897236 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
25897194 TTTCTTTAAG
25897204 CTTTTCTTTCTTTTC
1 CTTTTCTTTCTTTTC
25897219 CTTTTCTTTCTTTTC
1 CTTTTCTTTCTTTTC
25897234 CTT
1 CTT
25897237 CACAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTCTTTCTTTTC
Found at i:25897431 original size:11 final size:11
Alignment explanation
Indices: 25897415--25897441 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25897405 TTTTGCGCAT
25897415 TTAATTTTTAA
1 TTAATTTTTAA
25897426 TTAATTTTTAA
1 TTAATTTTTAA
25897437 TTAAT
1 TTAAT
25897442 GTATTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:25898095 original size:27 final size:26
Alignment explanation
Indices: 25898052--25898102 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
25898042 TTGCATGTGA
*
25898052 TTTTATATACTTAATTTTTTAATTAAT
1 TTTTATATAATTAA-TTTTTAATTAAT
25898079 TTTTATATAATGT-ATTTTTAATTA
1 TTTTATATAAT-TAATTTTTAATTA
25898103 TTGCAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 11 0.50
28 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTATATAATTAATTTTTAATTAAT
Found at i:25898833 original size:18 final size:18
Alignment explanation
Indices: 25898812--25898848 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25898802 TTGGTTTTTG
* *
25898812 AATTTGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
25898830 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
25898848 A
1 A
25898849 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:25899974 original size:15 final size:15
Alignment explanation
Indices: 25899954--25899982 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25899944 GAACCTTGAA
25899954 CCTTGAACCCCAAAC
1 CCTTGAACCCCAAAC
25899969 CCTTGAACCCCAAA
1 CCTTGAACCCCAAA
25899983 TCTCAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.45, G:0.07, T:0.14
Consensus pattern (15 bp):
CCTTGAACCCCAAAC
Found at i:25902205 original size:18 final size:19
Alignment explanation
Indices: 25902182--25902218 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25902172 GCAGGTGCAT
*
25902182 CTGGTGGT-GTTGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
25902200 CTGGTGGTCGTGGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
25902219 TCGTGGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.08, G:0.62, T:0.24
Consensus pattern (19 bp):
CTGGTGGTCGTGGGAGGGG
Found at i:25904699 original size:18 final size:19
Alignment explanation
Indices: 25904676--25904712 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25904666 GCAGGTGCAT
*
25904676 CTGGTGGT-GTTGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
25904694 CTGGTGGTCGTGGGAGGGG
1 CTGGTGGTCGTGGGAGGGG
25904713 TCGTGGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.05, C:0.08, G:0.62, T:0.24
Consensus pattern (19 bp):
CTGGTGGTCGTGGGAGGGG
Found at i:25921346 original size:60 final size:61
Alignment explanation
Indices: 25921246--25921380 Score: 186
Period size: 60 Copynumber: 2.2 Consensus size: 61
25921236 ACTTGTTGTC
*
25921246 TTTTTT-TTTTTTACATAAAAGAATAAAAATAAAATTGAAAATAGTTGCAAGT-ATTTTTTA
1 TTTTTTATTTTTTACATAAAAGAATAAAAATAAAATAGAAAATAGTTGCAAGTGA-TTTTTA
* * * *
25921306 TTTTTTATTTTTTACATCAAA-AATTAAAATAAAGTAGAAAATAGTTGCTAGTGATTTTTA
1 TTTTTTATTTTTTACATAAAAGAATAAAAATAAAATAGAAAATAGTTGCAAGTGATTTTTA
*
25921366 CTTTTTATTTTTTAC
1 TTTTTTATTTTTTAC
25921381 TAACAGATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 53 0.79
61 14 0.21
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (61 bp):
TTTTTTATTTTTTACATAAAAGAATAAAAATAAAATAGAAAATAGTTGCAAGTGATTTTTA
Found at i:25923353 original size:25 final size:25
Alignment explanation
Indices: 25923319--25923368 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
25923309 AGGGTTAAAC
* *
25923319 TAAAACTTGAGAGAGCTGAACTGAA
1 TAAAACTTGAAAGAGCTAAACTGAA
25923344 TAAAACTTGAAAGAGCTAAACTGAA
1 TAAAACTTGAAAGAGCTAAACTGAA
25923369 ACCCATTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (25 bp):
TAAAACTTGAAAGAGCTAAACTGAA
Found at i:25925736 original size:28 final size:28
Alignment explanation
Indices: 25925668--25925759 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
25925658 GATATGACAT
* *
25925668 TGTGCTAACTGAAATAAGACCATGGC-A
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
25925695 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
* *
25925720 TGTGCTAAGTAAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGGCAA
25925748 TGTGCTAAGTGA
1 TGTGCTAAGTGA
25925760 GAAATTTCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
24 20 0.36
25 2 0.04
27 1 0.02
28 33 0.59
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (28 bp):
TGTGCTAAGTGAAATAAGTCCATGGCAA
Found at i:25925838 original size:51 final size:51
Alignment explanation
Indices: 25925783--25925981 Score: 335
Period size: 51 Copynumber: 3.9 Consensus size: 51
25925773 TGAACCTTAG
25925783 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
25925834 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTCGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
25925885 GAATAAAATAGCTTTGGACACAAGTGTGGTACTAGGTGAATGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
25925936 GAATAAAATAGCTTTGGCCACAAGGGTGGTACTATGTAAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
25925982 CGTGTATCCA
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 137 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:25929578 original size:26 final size:26
Alignment explanation
Indices: 25929542--25929593 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25929532 TGAAGACTAC
25929542 TCGGTCGAAGCGTTCATCCTAGATGA
1 TCGGTCGAAGCGTTCATCCTAGATGA
25929568 TCGGTCGAAGCGTTCATCCTAGATGA
1 TCGGTCGAAGCGTTCATCCTAGATGA
25929594 ATCGAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (26 bp):
TCGGTCGAAGCGTTCATCCTAGATGA
Found at i:25930336 original size:24 final size:23
Alignment explanation
Indices: 25930309--25930358 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
25930299 TATTATTAAA
*
25930309 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
25930333 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
25930356 ATA
1 ATA
25930359 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:25932116 original size:15 final size:15
Alignment explanation
Indices: 25932096--25932124 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25932086 TTTAAGACAA
25932096 CATAAATACTTACAG
1 CATAAATACTTACAG
25932111 CATAAATACTTACA
1 CATAAATACTTACA
25932125 TTTTAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
CATAAATACTTACAG
Found at i:25935698 original size:17 final size:17
Alignment explanation
Indices: 25935674--25935721 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
25935664 GTGTTGAGAA
25935674 AATT-ATTTAATTGAGT
1 AATTAATTTAATTGAGT
* * *
25935690 AATTAATTTAGTTAATT
1 AATTAATTTAATTGAGT
*
25935707 AATTAAATTAATTGA
1 AATTAATTTAATTGA
25935722 TTAAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (17 bp):
AATTAATTTAATTGAGT
Found at i:25935724 original size:13 final size:13
Alignment explanation
Indices: 25935689--25935727 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
25935679 TTTAATTGAG
* *
25935689 TAATTAATTTAGT
1 TAATTAATTAAAT
25935702 TAATTAATTAAAT
1 TAATTAATTAAAT
*
25935715 TAATTGATTAAAT
1 TAATTAATTAAAT
25935728 AAATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (13 bp):
TAATTAATTAAAT
Found at i:25935724 original size:17 final size:17
Alignment explanation
Indices: 25935680--25935731 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
25935670 AGAAAATTAT
* *
25935680 TTAATTGAGTAATTAAT
1 TTAATTGATTAATTAAA
* *
25935697 TTAGTTAATTAATTAAA
1 TTAATTGATTAATTAAA
*
25935714 TTAATTGATTAAATAAA
1 TTAATTGATTAATTAAA
25935731 T
1 T
25935732 AATATTTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (17 bp):
TTAATTGATTAATTAAA
Found at i:25947285 original size:21 final size:22
Alignment explanation
Indices: 25947259--25947317 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
25947249 GTTTTAAGAA
*
25947259 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
25947280 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
25947302 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
25947318 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:25947332 original size:26 final size:24
Alignment explanation
Indices: 25947288--25947336 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
25947278 ATTTGTTTTA
*
25947288 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
25947312 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
25947337 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:25949926 original size:30 final size:34
Alignment explanation
Indices: 25949876--25949955 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 34
25949866 AGCAAGTTCC
* *
25949876 ATATACATGTAACAATCATTT-CATG-CTTCA-GT
1 ATATACAAGTAA-TATCATTTCCATGACTTCACGT
25949908 ATAT-CAAGTAATATCATTTCCATGTACTTCACGT
1 ATATACAAGTAATATCATTTCCATG-ACTTCACGT
*
25949942 ATATACGAGTAATA
1 ATATACAAGTAATA
25949956 GTTCGTTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 7 0.17
31 10 0.25
32 4 0.10
33 5 0.12
34 6 0.15
35 8 0.20
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (34 bp):
ATATACAAGTAATATCATTTCCATGACTTCACGT
Found at i:25951452 original size:93 final size:93
Alignment explanation
Indices: 25951345--25951515 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
25951335 GCCCCTAAGT
* *
25951345 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25951410 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
25951438 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25951503 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25951516 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25951512 original size:46 final size:46
Alignment explanation
Indices: 25951340--25951512 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
25951330 AACCCGCCCC
* * *
25951340 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
25951386 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
25951434 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25951479 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25951513 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25951969 original size:30 final size:30
Alignment explanation
Indices: 25951935--25951994 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25951925 ATTTAATACG
25951935 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
25951965 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
25951995 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:25959043 original size:93 final size:93
Alignment explanation
Indices: 25958936--25959106 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
25958926 GCCCCTAAGT
* *
25958936 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25959001 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25959029 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25959094 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25959107 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25959103 original size:46 final size:46
Alignment explanation
Indices: 25958931--25959103 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
25958921 AACCCGCCCC
* * *
25958931 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
25958977 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
25959025 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25959070 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25959104 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25959560 original size:30 final size:30
Alignment explanation
Indices: 25959526--25959585 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25959516 ATTTAATACG
25959526 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
25959556 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
25959586 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:25960524 original size:25 final size:24
Alignment explanation
Indices: 25960496--25960619 Score: 72
Period size: 25 Copynumber: 5.0 Consensus size: 24
25960486 GAAAGCCCTT
*
25960496 TGAGCCATATAACTGGAAGCTCATG
1 TGAGCCATATATC-GGAAGCTCATG
** *
25960521 TGAGCTTTACATCGAGAAGCTCATG
1 TGAGCCATATATCG-GAAGCTCATG
*
25960546 CGAGCCA-ATTATCGGGAAGCTCATG
1 TGAGCCATA-TATC-GGAAGCTCATG
* * *
25960571 AGAGCCAT-TAATCGGGAATCTCGTG
1 TGAGCCATAT-ATC-GGAAGCTCATG
* * *
25960596 AGAGCCAAATATCGGGATGCTCAT
1 TGAGCCATATATC-GGAAGCTCAT
25960620 AAGAGCTGTG
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
24 3 0.04
25 73 0.94
26 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (24 bp):
TGAGCCATATATCGGAAGCTCATG
Found at i:25960601 original size:50 final size:51
Alignment explanation
Indices: 25960510--25960625 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 51
25960500 CCATATAACT
* * * *
25960510 GGAAGCTCATGTGAG-CTTTACATCGAGAAGCTCATGCGAGCCAATTATCG
1 GGAAGCTCATGAGAGCCATTACATCGAGAAGCTCATGAGAGCCAAATATCG
* * *
25960560 GGAAGCTCATGAGAGCCATTA-ATCGGGAATCTCGTGAGAGCCAAATATCG
1 GGAAGCTCATGAGAGCCATTACATCGAGAAGCTCATGAGAGCCAAATATCG
* *
25960610 GGATGCTCATAAGAGC
1 GGAAGCTCATGAGAGC
25960626 TGTGGTGTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 52 0.93
51 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (51 bp):
GGAAGCTCATGAGAGCCATTACATCGAGAAGCTCATGAGAGCCAAATATCG
Found at i:25960624 original size:25 final size:25
Alignment explanation
Indices: 25960539--25960625 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
25960529 ACATCGAGAA
* *
25960539 GCTCATGCGAGCCAATTATCGGGAA
1 GCTCATGAGAGCCAATTATCGGGAT
25960564 GCTCATGAGAGCC-ATTAATCGGGAAT
1 GCTCATGAGAGCCAATT-ATCGGG-AT
* *
25960590 -CTCGTGAGAGCCAAATATCGGGAT
1 GCTCATGAGAGCCAATTATCGGGAT
*
25960614 GCTCATAAGAGC
1 GCTCATGAGAGC
25960626 TGTGGTGTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 5 0.10
25 44 0.85
26 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.21
Consensus pattern (25 bp):
GCTCATGAGAGCCAATTATCGGGAT
Found at i:25969606 original size:200 final size:200
Alignment explanation
Indices: 25969265--25969624 Score: 544
Period size: 200 Copynumber: 1.8 Consensus size: 200
25969255 TCGGAACTTT
* * *
25969265 GGTTTCGAGACCACAAATTCGAGATAGAAATAATGATTTTATGATTATTATGAGGTCCATGATAT
1 GGTTTCGAGACCACAAATCCAAGATAGAAATAATGATTTTATGATTATCATGAGGTCCATGATAT
* *
25969330 GTATGCATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
66 GAATACATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
* * *
25969395 GGGATCAAATTGAAT-AAGATGCAAAACTTGTGTTCTGTAACATCCCGAATTAAGGCCCAGTCAG
131 CGGACCAAATTGAATAAAG-TGAAAAACTTGTGTTCTGTAACATCCCGAATTAAGGCCCAGTCAG
25969459 AATAGA
195 AATAGA
* * ** *
25969465 GGTTTCGAGACCACAAATCCAAGATAGAAATAATTATTTTATGATTCTCATGAGGTTTATGTTAT
1 GGTTTCGAGACCACAAATCCAAGATAGAAATAATGATTTTATGATTATCATGAGGTCCATGATAT
* *
25969530 GAATACATGCTTGTGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGCA-TCTT
66 GAATACATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACT-TT
*
25969594 CCGGACCAAATTGAATAAAGTGAAAAACTTG
130 ACGGACCAAATTGAATAAAGTGAAAAACTTG
25969625 CATTCTAGAA
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
199 1 0.01
200 138 0.97
201 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (200 bp):
GGTTTCGAGACCACAAATCCAAGATAGAAATAATGATTTTATGATTATCATGAGGTCCATGATAT
GAATACATGCTTGCGTGAAAGTTTCATGAAGAAATTCTATGCATAAAATGTCTAATTGAACTTTA
CGGACCAAATTGAATAAAGTGAAAAACTTGTGTTCTGTAACATCCCGAATTAAGGCCCAGTCAGA
ATAGA
Found at i:25970810 original size:18 final size:18
Alignment explanation
Indices: 25970787--25970851 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
25970777 GATACGAGCA
25970787 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
25970805 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
25970823 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
* *
25970841 TTCGAGTTCGT
1 TCCGAGCTCGT
25970852 AATAGATGCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.15, C:0.22, G:0.37, T:0.26
Consensus pattern (18 bp):
TCCGAGCTCGTTGAGAGG
Found at i:25971966 original size:40 final size:41
Alignment explanation
Indices: 25971900--25971980 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 41
25971890 TGTTTGAATG
* * *
25971900 TATGGGTGACTATTGGTTTGGAAAATAGCCTTTAAATGGTC
1 TATGAGTGACTATTGGCTTGGAAAATAGCCCTTAAATGGTC
25971941 TATGAGTGACTATT-GCTTGGAAAATAGCCCTTAAATGGTC
1 TATGAGTGACTATTGGCTTGGAAAATAGCCCTTAAATGGTC
25971981 CACAAGGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 24 0.65
41 13 0.35
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (41 bp):
TATGAGTGACTATTGGCTTGGAAAATAGCCCTTAAATGGTC
Found at i:25974790 original size:9 final size:9
Alignment explanation
Indices: 25974767--25974825 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
25974757 ATAAATATAA
*
25974767 AATTAACCG
1 AATTAATCG
*
25974776 AGTTAATCG
1 AATTAATCG
25974785 AATTAATCG
1 AATTAATCG
25974794 AATT-ATCCG
1 AATTAAT-CG
**
25974803 AATTACCCG
1 AATTAATCG
25974812 AATTAATCG
1 AATTAATCG
25974821 AATTA
1 AATTA
25974826 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 2 0.05
9 39 0.95
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (9 bp):
AATTAATCG
Found at i:25974790 original size:18 final size:18
Alignment explanation
Indices: 25974767--25974825 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
25974757 ATAAATATAA
*
25974767 AATTAACCGAGTTAATCG
1 AATTAACCGAATTAATCG
*
25974785 AATTAATCGAATT-ATCCG
1 AATTAACCGAATTAAT-CG
*
25974803 AATTACCCGAATTAATCG
1 AATTAACCGAATTAATCG
25974821 AATTA
1 AATTA
25974826 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:25974798 original size:27 final size:27
Alignment explanation
Indices: 25974767--25974825 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
25974757 ATAAATATAA
* *
25974767 AATTAACCGAGTTAATCGAATTAATCG
1 AATTAACCGAATTAACCGAATTAATCG
* *
25974794 AATTATCCGAATTACCCGAATTAATCG
1 AATTAACCGAATTAACCGAATTAATCG
25974821 AATTA
1 AATTA
25974826 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTAATCG
Found at i:25974926 original size:13 final size:13
Alignment explanation
Indices: 25974910--25974934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25974900 AATTTTTATG
25974910 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
25974923 ATTGGGTTGGGT
1 ATTGGGTTGGGT
25974935 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:25974934 original size:18 final size:18
Alignment explanation
Indices: 25974911--25974948 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25974901 ATTTTTATGA
25974911 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
25974929 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
25974947 TT
1 TT
25974949 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:25977196 original size:46 final size:47
Alignment explanation
Indices: 25977123--25977399 Score: 201
Period size: 46 Copynumber: 5.9 Consensus size: 47
25977113 TGGTTATTAT
25977123 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGGCGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGGCGA
* * * *
25977170 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTTGAGAC-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGCATTGAGGCGA
* * *
25977215 TAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC--T-ACGAGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGAGGCGA
* * * * * *
25977259 TGTGTCAGTGTAAGACCATATCTGGGACATGGCATCGACATAGCTATGTGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CATTG--AGGCGA
* * * * **
25977310 GAGCAAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCATTGA-GGCGA
* * * *
25977359 TAGTCAGGGTAAGACCATGTTTGGGACATGGCATCGGCATT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCATT
25977400 CTACCCCATG
Statistics
Matches: 181, Mismatches: 35, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 14 0.08
45 19 0.10
46 60 0.33
47 13 0.07
48 1 0.01
49 35 0.19
50 33 0.18
51 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCATTGAGGCGA
Found at i:25979795 original size:43 final size:43
Alignment explanation
Indices: 25979720--25979843 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
25979710 TTTGAACTTA
* *
25979720 TTCACCGGCATT-TCA-CCTGTTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTAT-AGCCTGCTAGGCTCGAAGCCCGATATCAT
*
25979762 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCAT
* * *
25979805 CTCACTGGTATTATAGCCTGCTAGGC-CTGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCTC-GAAGCCCGATA
25979844 ATATTATTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
42 14 0.19
43 59 0.81
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCAT
Found at i:25984615 original size:16 final size:17
Alignment explanation
Indices: 25984583--25984616 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25984573 GTCAACGCCT
25984583 AGATCGAATCGAATGAG
1 AGATCGAATCGAATGAG
*
25984600 AGATGGAATC-AATGAG
1 AGATCGAATCGAATGAG
25984616 A
1 A
25984617 ACAGAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (17 bp):
AGATCGAATCGAATGAG
Found at i:25986396 original size:21 final size:21
Alignment explanation
Indices: 25986372--25986415 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
25986362 GTAAAAGTGG
*
25986372 CATAACCGTTGGATGTTGTGA
1 CATAACCATTGGATGTTGTGA
25986393 CATAACCATTGGATGTTGTGA
1 CATAACCATTGGATGTTGTGA
25986414 CA
1 CA
25986416 CACCCTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (21 bp):
CATAACCATTGGATGTTGTGA
Found at i:25988696 original size:27 final size:26
Alignment explanation
Indices: 25988648--25988699 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25988638 GCGAGGCTAC
*
25988648 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
25988674 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
25988700 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:26000429 original size:27 final size:27
Alignment explanation
Indices: 26000398--26000575 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
26000388 TAAATTGTAC
26000398 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
26000425 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26000451 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
26000479 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
26000507 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
26000534 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
26000561 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26000576 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:26000512 original size:82 final size:81
Alignment explanation
Indices: 26000399--26000554 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
26000389 AAATTGTACA
*
26000399 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
26000463 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
26000480 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
26000545 TGCGAGTTGA
65 TGCGAATTGA
26000555 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:26000566 original size:82 final size:81
Alignment explanation
Indices: 26000395--26000575 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
26000385 GATTAAATTG
*
26000395 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
26000460 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
26000476 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
26000540 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
26000558 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
26000576 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:26008344 original size:20 final size:20
Alignment explanation
Indices: 26008315--26008359 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
26008305 AGCACATGTA
* *
26008315 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAAAACTT
*
26008335 TTCATCAAATTTTAAAACTT
1 TTCATAAAATTTTAAAACTT
26008355 TTCAT
1 TTCAT
26008360 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:26015844 original size:31 final size:31
Alignment explanation
Indices: 26015806--26015868 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
26015796 CATTTTTCAT
*
26015806 ACCTTGATAAATTTTGAAATTAATCCCTCAA
1 ACCTTGATAAATTTTCAAATTAATCCCTCAA
*
26015837 ACCTTGATAACTTTTCAAATTAATCCCTCAA
1 ACCTTGATAAATTTTCAAATTAATCCCTCAA
26015868 A
1 A
26015869 TAGAGAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (31 bp):
ACCTTGATAAATTTTCAAATTAATCCCTCAA
Found at i:26019768 original size:44 final size:44
Alignment explanation
Indices: 26019694--26019812 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 44
26019684 ATGCCAATGC
26019694 CATGTCCTAGACATGGTCTTACACTAGCTT-ATCTCGTA-GCCGATG
1 CATGTCC-AGACAT-GTCTTACACTAGCTTAATCTCG-AGGCCGATG
*
26019739 CATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTC-CAGACATGTCTTACACTAGCTTA-ATCTCGAGGCCGATG
26019785 CATGTCCCAGACATGTCTTACACTAGCT
1 CATGT-CCAGACATGTCTTACACTAGCT
26019813 CACAATAACC
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
44 14 0.21
45 13 0.19
46 39 0.58
47 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
CATGTCCAGACATGTCTTACACTAGCTTAATCTCGAGGCCGATG
Found at i:26028067 original size:39 final size:40
Alignment explanation
Indices: 26028003--26028100 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 40
26027993 AATTCACTTT
* *
26028003 CAAGCATATATCATACA-AC-CTATATAATCACCTAACATA
1 CAAGCATATATCACA-ATACTCTATATAATCACATAACATA
* *
26028042 CAAGCATATATCACAATACTC-ATATAATCACATAACCTT
1 CAAGCATATATCACAATACTCTATATAATCACATAACATA
* * *
26028081 TAAGAATATGTCACAATACT
1 CAAGCATATATCACAATACT
26028101 TGAAAACATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.02
39 48 0.96
40 1 0.02
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (40 bp):
CAAGCATATATCACAATACTCTATATAATCACATAACATA
Found at i:26032832 original size:53 final size:54
Alignment explanation
Indices: 26032760--26033061 Score: 324
Period size: 55 Copynumber: 5.6 Consensus size: 54
26032750 TTACAATTTT
* * * *
26032760 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTAT-GAACTCACCATTGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGC
* * * *
26032813 CATGCCTTGGCATGGTCTTACATGAG-ATCTTTGCCTTATAGTAATTTATCAATGC
1 CATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTATAG-AACTTACCAATGC
* * * *
26032868 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTAT-GAACTCACCATTGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGC
* * * *
26032921 CATGCCTTGGCATGGTCTTACATGAG-ATCTTTGCCTTATAGTAATTTATCAATGC
1 CATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTATAG-AACTTACCAATGC
* * * * * *
26032976 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTTTCGAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGC
* *
26033030 CATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGCCTTGACATGGTCTTACATGGTATCCTT
26033062 AAACCTTAAT
Statistics
Matches: 202, Mismatches: 39, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
53 75 0.37
54 42 0.21
55 85 0.42
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGC
Found at i:26032899 original size:108 final size:108
Alignment explanation
Indices: 26032760--26033050 Score: 501
Period size: 108 Copynumber: 2.7 Consensus size: 108
26032750 TTACAATTTT
26032760 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCA
1 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCA
26032825 TGGTCTTACATGAGATCTTTGCCTTATAGTAATTTATCAATGC
66 TGGTCTTACATGAGATCTTTGCCTTATAGTAATTTATCAATGC
26032868 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCA
1 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCA
26032933 TGGTCTTACATGAGATCTTTGCCTTATAGTAATTTATCAATGC
66 TGGTCTTACATGAGATCTTTGCCTTATAGTAATTTATCAATGC
* ** * ** * *
26032976 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTTTCGAATGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTAT-GAACTCACCATTGCCATGCCTTGGC
26033041 ATGGTCTTAC
65 ATGGTCTTAC
26033051 TTGGTATCCT
Statistics
Matches: 174, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 143 0.82
109 31 0.18
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (108 bp):
CATGTCTTGACATGGTCTTACATGGTACCCTTGCCTTATGAACTCACCATTGCCATGCCTTGGCA
TGGTCTTACATGAGATCTTTGCCTTATAGTAATTTATCAATGC
Found at i:26040449 original size:53 final size:54
Alignment explanation
Indices: 26040369--26040575 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
26040359 TTTCCTTTTT
* * *
26040369 AACTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
26040422 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCCTTGCCTTATAG
** * * * ** * * *
26040476 TAGTTTATCAATGCCATGTCTTGATATGGTCTTACATAATTTCCTTACCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
26040531 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
26040576 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 39 0.32
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:26040510 original size:55 final size:54
Alignment explanation
Indices: 26040382--26040575 Score: 180
Period size: 55 Copynumber: 3.6 Consensus size: 54
26040372 TTACCATTGT
*
26040382 CATGTCTTGACATGGTCTTACAT-GGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATAGGTATCCTTGCCTTATGAACTCACCAATGC
* * * ** * *
26040435 CATGCCTTGGCATGGTCTTACATAGG-ATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATAGGTATCCTTGCCTTAT-G-AACTCACCAATGC
* * * * * *
26040490 CATGTCTTGATATGGTCTTACATA-ATTTCCTTACCTTGTAGAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATAGGTATCCTTGCCTTAT-GAACTCACCAATGC
* * *
26040544 CATGCCTTGGCATGGTCTTAC-TTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATAGGTATCCTT
26040576 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 34 0.31
54 37 0.33
55 40 0.36
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
CATGTCTTGACATGGTCTTACATAGGTATCCTTGCCTTATGAACTCACCAATGC
Found at i:26049616 original size:82 final size:83
Alignment explanation
Indices: 26049517--26049709 Score: 273
Period size: 82 Copynumber: 2.3 Consensus size: 83
26049507 TAAACCTAGG
* *
26049517 AAAAAGATTTATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTTGTCC-AAAAAAAA
1 AAAAAGA--TATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTCGACCAAAAAAAAA
*
26049581 AGTTGAAATACCAACTTGAA
64 AGTTGAAATACAAACTTGAA
* *
26049601 AAAAAGATATAGTTTAGGTACCATTTTGTGGTATAGTTTAGGTATCAGTCGACCAAAAAAAAAAG
1 AAAAAGATATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTCGACCAAAAAAAAAAG
* *
26049666 TTTAAATAGAAACTTGAA
66 TTGAAATACAAACTTGAA
* *
26049684 AAAAA-AAATAGTTTAAGTACCATTTT
1 AAAAAGATATAGTTTAGGTACCATTTT
26049710 ATGATTTAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
82 62 0.63
83 30 0.30
84 7 0.07
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (83 bp):
AAAAAGATATAGTTTAGGTACCATTTTGTGGTATAATTTAGGTATCACTCGACCAAAAAAAAAAG
TTGAAATACAAACTTGAA
Found at i:26050205 original size:31 final size:31
Alignment explanation
Indices: 26050169--26050233 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
26050159 TAAGATAGCC
26050169 CAAAAGAATCCTATTTTAATGAAGCAAGATA
1 CAAAAGAATCCTATTTTAATGAAGCAAGATA
26050200 CAAAAGAATCCTATTTTAATGAAGCAAGATA
1 CAAAAGAATCCTATTTTAATGAAGCAAGATA
26050231 CAA
1 CAA
26050234 GTTCTCTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (31 bp):
CAAAAGAATCCTATTTTAATGAAGCAAGATA
Found at i:26058466 original size:6 final size:6
Alignment explanation
Indices: 26058455--26058524 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 6
26058445 ATTTAACCAT
* * *
26058455 TTTTTA TTTTTA TTTTTA TTTTAATA TTTTTTG TTTTTA ATTTAA TTGTTTCA
1 TTTTTA TTTTTA TTTTTA TTTT--TA -TTTTTA TTTTTA TTTTTA TT-TTT-A
*
26058508 TTTTAA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTT
26058525 CTTCGTTCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
6 37 0.73
7 5 0.10
8 5 0.10
9 4 0.08
ACGTcount: A:0.20, C:0.01, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:26058485 original size:21 final size:21
Alignment explanation
Indices: 26058461--26058524 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
26058451 CCATTTTTTA
26058461 TTTTTATTTTTATTTTAATAT
1 TTTTTATTTTTATTTTAATAT
* *
26058482 TTTTTGTTTTTAATTTAAT-T
1 TTTTTATTTTTATTTTAATAT
* * *
26058502 GTTTCATTTTAATTTT--TAT
1 TTTTTATTTTTATTTTAATAT
26058521 TTTT
1 TTTT
26058525 CTTCGTTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 12 0.35
21 17 0.50
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTTATTTTAATAT
Found at i:26066886 original size:57 final size:58
Alignment explanation
Indices: 26066763--26066905 Score: 171
Period size: 57 Copynumber: 2.5 Consensus size: 58
26066753 CTCATTATAG
* * * * * *
26066763 AAAGGATTCAGCCCGGACAGGTAATCCTGATATAATCTCTCTCGAACATATGTTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAACATACGTTACAA
** * * * *
26066821 TTAGGATTTAGCCTGGACTGGTAATCCTAAT-TGAGCTCTTTTGAGCATACGTTACAA
1 AAAGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAACATACGTTACAA
26066878 AAAGGATTTAGCCTGGACTGGTAATCCT
1 AAAGGATTTAGCCTGGACTGGTAATCCT
26066906 GTAATACGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
57 46 0.65
58 25 0.35
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAACATACGTTACAA
Found at i:26068603 original size:39 final size:37
Alignment explanation
Indices: 26068549--26068641 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
26068539 ACTAGTTTGG
26068549 CACCCAGTGCCTCATCGGATAAATCCGAAGTAAAATTGA
1 CACCCAGTGCCTCATCGGATAAA-CCGAAG-AAAATTGA
* * * *
26068588 CACCCAGTGTCTCATCGGTTAAACCGAAGCAAATTGG
1 CACCCAGTGCCTCATCGGATAAACCGAAGAAAATTGA
*
26068625 CGCCCAGTGCCTCATCG
1 CACCCAGTGCCTCATCG
26068642 ACTCGAAGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
37 21 0.44
38 6 0.12
39 21 0.44
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGATAAACCGAAGAAAATTGA
Found at i:26068631 original size:37 final size:39
Alignment explanation
Indices: 26068545--26068641 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
26068535 ACACACTAGT
26068545 TTGGCACCCAGTGCCTCATCGGATAAATCCGAAGTAAAA
1 TTGGCACCCAGTGCCTCATCGGATAAATCCGAAGTAAAA
* * * *
26068584 TTGACACCCAGTGTCTCATCGGTTAAA-CCGAAG-CAAA
1 TTGGCACCCAGTGCCTCATCGGATAAATCCGAAGTAAAA
*
26068621 TTGGCGCCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
26068642 ACTCGAAGTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 21 0.41
38 6 0.12
39 24 0.47
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
TTGGCACCCAGTGCCTCATCGGATAAATCCGAAGTAAAA
Found at i:26069565 original size:29 final size:29
Alignment explanation
Indices: 26069523--26069581 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26069513 GAAACCATTA
26069523 AGTTGTCATCAGTCTTCTTTCTTTTCTTT
1 AGTTGTCATCAGTCTTCTTTCTTTTCTTT
26069552 AGTTGTCATCAGTCTTCTTTCTTTTCTTT
1 AGTTGTCATCAGTCTTCTTTCTTTTCTTT
26069581 A
1 A
26069582 TTTCTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.58
Consensus pattern (29 bp):
AGTTGTCATCAGTCTTCTTTCTTTTCTTT
Found at i:26072290 original size:16 final size:16
Alignment explanation
Indices: 26072269--26072308 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
26072259 TTCATGCTCG
26072269 AATTCAAATTTCGAAT
1 AATTCAAATTTCGAAT
26072285 AATTCAAATTTCGAAT
1 AATTCAAATTTCGAAT
*
26072301 AAATCAAA
1 AATTCAAA
26072309 ATGTCGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (16 bp):
AATTCAAATTTCGAAT
Found at i:26083206 original size:22 final size:22
Alignment explanation
Indices: 26083178--26083222 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
26083168 TATTTAACCC
26083178 AAATTAAATTAGATTA-AAATTA
1 AAATT-AATTAGATTATAAATTA
*
26083200 AAATTAATTATATTATAAATTA
1 AAATTAATTAGATTATAAATTA
26083222 A
1 A
26083223 TACATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:26086112 original size:44 final size:44
Alignment explanation
Indices: 26086044--26086130 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
26086034 GGTGATTTTA
26086044 ATGGCCTTTCTTGATGATTTTTGTACTTTTGGGGCCCTTGTAGG
1 ATGGCCTTTCTTGATGATTTTTGTACTTTTGGGGCCCTTGTAGG
*
26086088 ATGGTCTTTCTTGATGATTTTTGTACTTTTGGGGCCCTTGTAG
1 ATGGCCTTTCTTGATGATTTTTGTACTTTTGGGGCCCTTGTAG
26086131 CTTAAGCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.47
Consensus pattern (44 bp):
ATGGCCTTTCTTGATGATTTTTGTACTTTTGGGGCCCTTGTAGG
Found at i:26086888 original size:48 final size:48
Alignment explanation
Indices: 26086812--26087146 Score: 239
Period size: 48 Copynumber: 6.7 Consensus size: 48
26086802 TGATATGTGT
* * * *
26086812 GCTAATGTAAGACCATGTTTGGAACATGGCATCAGCAATGTAATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTAATGAGA
* * * * * *
26086860 GCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTG-ATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTA-ATGAGA
*
26086908 GCTAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATGAGCAATGTAATGAGA
1 GCTAGTGTAAGACCATGTCTGGG--A---CAT-GG---CA-T-CG-GCAATGTAATGAGA
* * * * * *
26086968 GCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTG-ATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTA-ATGAGA
*
26087016 GCTAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACAT-T-ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-ATGTAATGAGA
* * * ** *
26087064 GCTAGTGTAAGACCATGTCTGGGAAATGGCATTGGC-CTCAACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTA-ATGAGA
* * *
26087112 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
26087147 TAATTCACCC
Statistics
Matches: 225, Mismatches: 41, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
45 1 0.00
47 3 0.01
48 168 0.75
49 3 0.01
50 3 0.01
51 2 0.01
53 3 0.01
54 4 0.02
55 3 0.01
57 2 0.01
58 2 0.01
59 1 0.00
60 29 0.13
61 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTAATGAGA
Found at i:26086923 original size:96 final size:96
Alignment explanation
Indices: 26086802--26087144 Score: 375
Period size: 96 Copynumber: 3.4 Consensus size: 96
26086792 GACATTTGGG
* *
26086802 TGATATGTGTGCTAATGTAAGACCATGTTTGGAACATGGCATCAGCAATGTAATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAATGTAATGAGAGCCAGTG
26086867 TAAAACCATGTCTAGGACATGGCATCGGCAT
66 TAAAACCATGTCTAGGACATGGCATCGGCAT
* *
26086898 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATGAGCAATGTAA
1 TGATATGTGCGCTAGTGTAAGACCATGT-TTGGA-A---CAT-GG---C---ATCAGCAATGTAA
26086963 TGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCAT
54 TGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCAT
* * * * *
26087006 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACAT-T-ATGAGAGCTAG
1 TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATGGCATCAG-CA-ATGTAATGAGAGCCAG
* * * * *
26087069 TGTAAGACCATGTCTGGGAAATGGCATTGGCCT
64 TGTAAAACCATGTCTAGGACATGGCATCGGCAT
** * * *
26087102 CAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATGGCATC
26087145 GGTAATTCAC
Statistics
Matches: 209, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
96 102 0.49
97 7 0.03
98 3 0.01
99 1 0.00
101 3 0.01
102 4 0.02
103 2 0.01
105 1 0.00
106 1 0.00
107 2 0.01
108 83 0.40
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (96 bp):
TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAATGTAATGAGAGCCAGTG
TAAAACCATGTCTAGGACATGGCATCGGCAT
Found at i:26087034 original size:108 final size:108
Alignment explanation
Indices: 26086845--26087062 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
26086835 ACATGGCATC
26086845 AGCAATGTAATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGC
1 AGCAATGTAATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGC
26086910 TAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATG
66 TAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATG
26086953 AGCAATGTAATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGC
1 AGCAATGTAATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGC
26087018 TAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATG
66 TAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATG
26087061 AG
1 AG
26087063 AGCTAGTGTA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (108 bp):
AGCAATGTAATGAGAGCCAGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGC
TAGTGTAAGACCATGTCTGGGATATGGCATCGGTCACATTATG
Found at i:26096331 original size:129 final size:129
Alignment explanation
Indices: 26096101--26096620 Score: 970
Period size: 129 Copynumber: 4.0 Consensus size: 129
26096091 TAACAAGTAT
26096101 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
1 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
26096166 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
66 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
26096230 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
1 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
26096295 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
66 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
26096359 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
1 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
26096424 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
66 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
** *
26096488 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGATGAAAAGGTAAGCGCACCT
1 TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
* * *
26096553 ATCAAACAATAGTATAGTAATCGCAAGACCGGGATATCATA-CTCAAGGGAACCAAAAGTACTAG
66 ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCT-AAGGGAACCAAAAGTACTAA
26096617 TAAT
1 TAAT
26096621 AACTATCTTT
Statistics
Matches: 384, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
128 2 0.01
129 382 0.99
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.22
Consensus pattern (129 bp):
TAATTATTTATAATGGAGATCAAACCTAGACTAACTATTATCACGACAAAAAGGCAAGCGCACCT
ATCGAACAATAGTATAGTAATGGCAAGACCGGGATATCATACCTAAGGGAACCAAAAGTACTAA
Found at i:26097629 original size:21 final size:20
Alignment explanation
Indices: 26097605--26097647 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26097595 CCGTGTTGAT
26097605 TTCATACTTTGGCCCATTTTC
1 TTCAT-CTTTGGCCCATTTTC
* *
26097626 TTCATTTTTGGCCCCTTTTC
1 TTCATCTTTGGCCCATTTTC
26097646 TT
1 TT
26097648 GTTCCTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.09, C:0.28, G:0.09, T:0.53
Consensus pattern (20 bp):
TTCATCTTTGGCCCATTTTC
Found at i:26099729 original size:16 final size:16
Alignment explanation
Indices: 26099696--26099725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26099686 TTTGCTATTA
26099696 ATTTATTAGAATAAAT
1 ATTTATTAGAATAAAT
26099712 ATTTATTA-AATAAA
1 ATTTATTAGAATAAA
26099726 ATATGATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTTATTAGAATAAAT
Found at i:26120320 original size:23 final size:22
Alignment explanation
Indices: 26120290--26120336 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
26120280 TGTCGGTCTC
26120290 CTTTCTTTTCTTTCTTTATTTTT
1 CTTTCTTTTCTTTC-TTATTTTT
*
26120313 CTTTCTTTTCTTTCTTCTTTTT
1 CTTTCTTTTCTTTCTTATTTTT
26120335 CT
1 CT
26120337 ATTAATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (22 bp):
CTTTCTTTTCTTTCTTATTTTT
Found at i:26122264 original size:22 final size:22
Alignment explanation
Indices: 26122202--26122266 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
26122192 CTCCGATTAT
* *
26122202 TAGCACATTAGTGCTCTCCGTC
1 TAGCACATTAGTGCTCTCTGTA
**
26122224 TAGCACATTCTTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
26122246 TAGCACCTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
26122267 TCATTAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:26122806 original size:20 final size:20
Alignment explanation
Indices: 26122749--26122800 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
26122739 AACTCTATCC
* * *
26122749 ATTTTGGCTTTACTTAAACT
1 ATTTTGGTTTTACTTGAAGT
26122769 ATTTTGGTTTTACTTGAAGT
1 ATTTTGGTTTTACTTGAAGT
26122789 ATTTTGGTTTTA
1 ATTTTGGTTTTA
26122801 TATGAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (20 bp):
ATTTTGGTTTTACTTGAAGT
Found at i:26123037 original size:21 final size:21
Alignment explanation
Indices: 26122995--26123037 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
26122985 AATATGCCCA
*
26122995 AGGTATCAATACCAAGGGTAT
1 AGGTATCAATACCAAGGCTAT
*
26123016 AGGTATCGATACCTAA-GCTAT
1 AGGTATCAATACC-AAGGCTAT
26123037 A
1 A
26123038 AAATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGTATCAATACCAAGGCTAT
Found at i:26123556 original size:13 final size:13
Alignment explanation
Indices: 26123534--26123596 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 13
26123524 CCCGAAACCC
26123534 TTTT-TTTTCTAT
1 TTTTATTTTCTAT
26123546 TTTTATTTTCTGGAT
1 TTTTATTTTCT--AT
26123561 TTATATATTTT-TAT
1 TT-T-TATTTTCTAT
26123575 TTTTATTTTCT-T
1 TTTTATTTTCTAT
26123587 TATTTATTTT
1 T-TTTATTTT
26123597 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
12 12 0.27
13 16 0.36
14 4 0.09
15 4 0.09
16 2 0.05
17 6 0.14
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTATTTTCTAT
Found at i:26123581 original size:29 final size:28
Alignment explanation
Indices: 26123538--26123606 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
26123528 AAACCCTTTT
26123538 TTTTCTATTTTTATTTTCTGGATTTATATA
1 TTTT-TATTTTTATTTTCTGGATTTAT-TA
** *
26123568 TTTTTATTTTTATTTTCTTTATTTATTT
1 TTTTTATTTTTATTTTCTGGATTTATTA
26123596 TTTTTATTTTT
1 TTTTTATTTTT
26123607 TGAATTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 12 0.33
29 20 0.56
30 4 0.11
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTTATTTTTATTTTCTGGATTTATTA
Found at i:26123601 original size:13 final size:13
Alignment explanation
Indices: 26123560--26123604 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
26123550 ATTTTCTGGA
*
26123560 TTTATATATTTTT
1 TTTATTTATTTTT
* *
26123573 ATT-TTTATTTTC
1 TTTATTTATTTTT
26123585 TTTATTTATTTTT
1 TTTATTTATTTTT
26123598 TTTATTT
1 TTTATTT
26123605 TTTGAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTT
Found at i:26123613 original size:22 final size:22
Alignment explanation
Indices: 26123574--26123624 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
26123564 TATATTTTTA
* *
26123574 TTTTTATTTTCTTTATTTATTT
1 TTTTTATTTTCTTAATTTATAT
26123596 TTTTTATTTT-TTGAATTTATAT
1 TTTTTATTTTCTT-AATTTATAT
*
26123618 CTTTTAT
1 TTTTTAT
26123625 ATTATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTCTTAATTTATAT
Found at i:26123662 original size:19 final size:21
Alignment explanation
Indices: 26123619--26123666 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
26123609 AATTTATATC
26123619 TTTTATATTATTTTATTATACT
1 TTTTA-ATTATTTTATTATACT
*
26123641 TTTTAATTA-TTT-TTATAGT
1 TTTTAATTATTTTATTATACT
26123660 TTTTAAT
1 TTTTAAT
26123667 CTCATTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 13 0.52
20 3 0.12
21 4 0.16
22 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATTATTTTATTATACT
Found at i:26124693 original size:40 final size:40
Alignment explanation
Indices: 26124645--26124722 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
26124635 CCATCGATCT
**
26124645 CTTTCCCTCCTTCATTTGTCGACCCTCATCTCTATCTCTC
1 CTTTCCCTCCTTCATTTACCGACCCTCATCTCTATCTCTC
*
26124685 CTTTCCCTCCTTCATTTACCGACCCTCATCTCTCTCTC
1 CTTTCCCTCCTTCATTTACCGACCCTCATCTCTATCTC
26124723 AATTCTATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.10, C:0.45, G:0.04, T:0.41
Consensus pattern (40 bp):
CTTTCCCTCCTTCATTTACCGACCCTCATCTCTATCTCTC
Found at i:26126145 original size:34 final size:35
Alignment explanation
Indices: 26126061--26126159 Score: 114
Period size: 34 Copynumber: 2.9 Consensus size: 35
26126051 ATCCTTTGTT
26126061 TGCATACTG-TACTGAAATGGGCTAAGGCCCAGAC
1 TGCATACTGTTACTGAAATGGGCTAAGGCCCAGAC
* * * *
26126095 TGCCT-CTATGACTGAAATGGGCTCAGGCCCAGAC
1 TGCATACTGTTACTGAAATGGGCTAAGGCCCAGAC
* *
26126129 TG-ATACTGTTAATGAAAAGAGGCTAAGGCCC
1 TGCATACTGTTACTGAAATG-GGCTAAGGCCC
26126160 TAACTAGAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
33 3 0.06
34 39 0.75
35 10 0.19
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.21
Consensus pattern (35 bp):
TGCATACTGTTACTGAAATGGGCTAAGGCCCAGAC
Found at i:26130690 original size:38 final size:38
Alignment explanation
Indices: 26130629--26130704 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
26130619 GGAAAGAGCA
26130629 ACTATAGACTTTGGGAGAGGGCTACCCCTAACACCTTC
1 ACTATAGACTTTGGGAGAGGGCTACCCCTAACACCTTC
* *
26130667 ACTATGGACTTTGTGAGTA-GGCTACCCCTAACACCTTC
1 ACTATAGACTTTGGGAG-AGGGCTACCCCTAACACCTTC
26130705 TAAGAAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (38 bp):
ACTATAGACTTTGGGAGAGGGCTACCCCTAACACCTTC
Found at i:26133176 original size:16 final size:16
Alignment explanation
Indices: 26133157--26133187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26133147 ACAAAGGCTG
26133157 AAAAGTCGAAAAGCCA
1 AAAAGTCGAAAAGCCA
*
26133173 AAAAGTTGAAAAGCC
1 AAAAGTCGAAAAGCC
26133188 GAAATGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.19, T:0.10
Consensus pattern (16 bp):
AAAAGTCGAAAAGCCA
Found at i:26133910 original size:34 final size:34
Alignment explanation
Indices: 26133861--26133956 Score: 124
Period size: 34 Copynumber: 2.8 Consensus size: 34
26133851 CTTTGTTTGC
26133861 ATACTG-TACTGAAATGGGCTAAGGCCCAGACTG
1 ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
* *
26133894 CCT-CTGTTACTGAAATGGGCTTAGGCCCAGACTG
1 -ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
* *
26133928 ATACTGTTAATGAAAAGGGGCTAAGGCCC
1 ATACTGTTACTG-AAATGGGCTAAGGCCC
26133957 TAATTGGAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
33 4 0.08
34 35 0.66
35 14 0.26
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (34 bp):
ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
Found at i:26135814 original size:18 final size:18
Alignment explanation
Indices: 26135791--26135825 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
26135781 CTGTTTGAAG
26135791 GAGACTTTGAGAACAAAT
1 GAGACTTTGAGAACAAAT
26135809 GAGACTTTGAGAACAAA
1 GAGACTTTGAGAACAAA
26135826 GGAATGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (18 bp):
GAGACTTTGAGAACAAAT
Found at i:26140945 original size:42 final size:41
Alignment explanation
Indices: 26140882--26140996 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 41
26140872 GGTTACCGAG
* * *
26140882 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAAT-TGT
1 ATGTGATTA-GTGTAAAACCATGTCTGGGACATTCGAATAT-T
*
26140924 ATTGTGATTAGTGTAAAACCATGTCTGGGACATTCGCATCATT
1 A-TGTGATTAGTGTAAAACCATGTCTGGGACATTCGAAT-ATT
* *
26140967 ATATGATTTCGTGTAAAACCATGTCTGGGA
1 ATGTGA-TTAGTGTAAAACCATGTCTGGGA
26140997 TAGTGGCATC
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (41 bp):
ATGTGATTAGTGTAAAACCATGTCTGGGACATTCGAATATT
Found at i:26141025 original size:43 final size:43
Alignment explanation
Indices: 26140935--26141031 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 43
26140925 TTGTGATTAG
* *** *
26140935 TGTAAAACCATGTCTGGGACATTCGCATCATTATATGATTTCG
1 TGTAAAACCATGTCTGGGACAGTCGCATCATTATATGACGACA
* * * *
26140978 TGTAAAACCATGTCTGGGATAGTGGCATCGTTATGTGACGACA
1 TGTAAAACCATGTCTGGGACAGTCGCATCATTATATGACGACA
*
26141021 TGTAAGACCAT
1 TGTAAAACCAT
26141032 ATATAGGATA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAAACCATGTCTGGGACAGTCGCATCATTATATGACGACA
Found at i:26149955 original size:13 final size:13
Alignment explanation
Indices: 26149938--26149981 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
26149928 ATTTCAATTT
26149938 TATTTTAATAATAA
1 TATTTTAA-AATAA
26149952 -ATTTTAAAAATAA
1 TATTTT-AAAATAA
26149965 TATTTTAAAATAA
1 TATTTTAAAATAA
26149978 TATT
1 TATT
26149982 CTTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTAAAATAA
Done.