Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008950.1 Hibiscus syriacus cultivar Beakdansim tig00112276_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 471712
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:5597 original size:23 final size:23
Alignment explanation
Indices: 5579--5637 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
5569 CTCGTATAAA
5579 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
5602 TACACCGAA-TGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
5624 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
5638 ATATAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.25, C:0.32, G:0.24, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:6392 original size:65 final size:66
Alignment explanation
Indices: 6249--6397 Score: 228
Period size: 66 Copynumber: 2.3 Consensus size: 66
6239 TTTTTCTCAT
* * * *
6249 GGGGGAATCGGTTCCCCCCCTGGGGTATCGGTTCCCCTCTAGCATTCTGGAATTTTATATCCGTT
1 GGGGGTATCGGTT-CCCCCCTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTT
6314 GA
65 GA
*
6316 GGGGGTATCGGTTCCCCCCTGGGGTATCGATTCCCCTCTAGTATTCTGGAAATTCATAT-CGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTG
6380 A
66 A
*
6381 TGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
6398 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
65 22 0.29
66 42 0.55
67 12 0.16
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.32
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGTATCGATTCCCCTCTAGCATTCTGGAAATTCATATCCGTTG
A
Found at i:7192 original size:23 final size:20
Alignment explanation
Indices: 7161--7217 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
7151 CTATGAGATT
*
7161 TATCTCGAATGACCACTATGAAA
1 TATCCCGAATGACCAC--TG-AA
* * *
7184 TATCCCGAAGGATCACTGTA
1 TATCCCGAATGACCACTGAA
7204 TATCCCGAATGACC
1 TATCCCGAATGACC
7218 GCGTAGACCC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 13 0.46
21 2 0.07
23 13 0.46
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (20 bp):
TATCCCGAATGACCACTGAA
Found at i:30401 original size:16 final size:17
Alignment explanation
Indices: 30377--30409 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30367 TCTCTTTAAA
*
30377 GTTTTGGAT-AAAATGG
1 GTTTCGGATCAAAATGG
30393 GTTTCGGATCAAAATGG
1 GTTTCGGATCAAAATGG
30410 TGTAGCTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (17 bp):
GTTTCGGATCAAAATGG
Found at i:40739 original size:21 final size:22
Alignment explanation
Indices: 40710--40751 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
40700 TGATACAAGT
*
40710 TATGCGACA-TAAGCTACGTGA
1 TATGCGACAGTAAACTACGTGA
*
40731 TATGTGACAGTAAACTACGTG
1 TATGCGACAGTAAACTACGTG
40752 TTTATATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
TATGCGACAGTAAACTACGTGA
Found at i:46207 original size:29 final size:30
Alignment explanation
Indices: 46170--46229 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
46160 TTTTAAAAAG
*
46170 AAAAAATATGAAACTCCAAAATG-AAAGGA
1 AAAAAATATGAAAATCCAAAATGAAAAGGA
*
46199 AAAAAATATGAAAATCCAGAATGAAAAGGA
1 AAAAAATATGAAAATCCAAAATGAAAAGGA
46229 A
1 A
46230 TTATCAGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.63, C:0.08, G:0.15, T:0.13
Consensus pattern (30 bp):
AAAAAATATGAAAATCCAAAATGAAAAGGA
Found at i:60479 original size:3 final size:3
Alignment explanation
Indices: 60471--60540 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
60461 ATATAATATG
*
60471 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* *
60516 TAG TTA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
60541 TTTATAACCC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 52 0.90
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:60863 original size:56 final size:54
Alignment explanation
Indices: 60735--61149 Score: 322
Period size: 56 Copynumber: 7.5 Consensus size: 54
60725 TCCCTATTAC
* * ** * * *
60735 TTCATGGAGTATAGAACTCAAACAATCTTCTTTCAACGGGTTTGC-TCC-CTATCAC
1 TTCAGGGAGTATAGAACTCGAA-AATCTTCTGCCAACGGG-TTCCTTCCTCTTTC-T
* * * * *
60790 TTCAGGGAGTATAGAACTCGAATAATCTTCTGCCTATGAGTTCTTTTCCTCTTTGT
1 TTCAGGGAGTATAGAACTCGAA-AATCTTCTGCCAACGGGTTC-CTTCCTCTTTCT
* * * * * *
60846 TTCAAGGAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTCCCTATTGC-
1 TTCAGGGAGTATAGAACTCGAA-AATCTTCTGCCAACGGGTTC-CTTCCTCTTTCT
*
60901 TTCAGGGAGTATAGAACTCGAGAAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGA-AAATCTTCTGCCAACGGGTTC-CTTCCTCTTTCT
* * * *
60957 TTCAAGGAGTATAGAGCTCAAATAATCTTCTGCAAACGGGTTCGC-TCCATCTTTCT
1 TTCAGGGAGTATAGAACTCGAA-AATCTTCTGCCAACGGGTTC-CTTCC-TCTTTCT
* * ** *
61013 TTCAGGGAGTATAGAACTC-AAACATCTTCTTCCTATAGGTTCACTCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAAA-ATCTTCTGCCAACGGGTTC-CTTCCTCTTTCT
* * * * * **
61068 TT-AGGGAGTATGGAACTCGAACATCTTCTTCCCACGGATTCGCCCCCTCTTTCT
1 TTCAGGGAGTATAGAACTCGAAAATCTTCTGCCAACGGGTTC-CTTCCTCTTTCT
*
61122 TT-AGGGAGTATAGAACTCGAACATCTTC
1 TTCAGGGAGTATAGAACTCGAAAATCTTC
61150 AACAATCATG
Statistics
Matches: 297, Mismatches: 53, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
54 71 0.24
55 111 0.37
56 112 0.38
57 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (54 bp):
TTCAGGGAGTATAGAACTCGAAAATCTTCTGCCAACGGGTTCCTTCCTCTTTCT
Found at i:60934 original size:111 final size:110
Alignment explanation
Indices: 60735--61149 Score: 453
Period size: 111 Copynumber: 3.8 Consensus size: 110
60725 TCCCTATTAC
* * * **
60735 TTCATGGAGTATAGAACTCAAACAATCTTCTTTC-AACGGGTTTGCTCCCTATCACTTCAGGGAG
1 TTCAAGGAGTATAGAACTCAAATAATCTTC-TTCAAACGGGTTCGCTCCCTATTTCTTCAGGGAG
** * *
60799 TATAGAACTCGAATAATCTTCTGCCTATGAGTTCTTTTCCTCTTTGT
65 TATAGAACTCGAA-AATCTTCTGCCTATGAGTTCACTCCCTCTTTCT
* * *
60846 TTCAAGGAGTATAGAACTCGAATAATCTTCTACAAACGGGTTCGCTCCCTATTGCTTCAGGGAGT
1 TTCAAGGAGTATAGAACTCAAATAATCTTCTTCAAACGGGTTCGCTCCCTATTTCTTCAGGGAGT
* * * *
60911 ATAGAACTCGAGAAATCTTCTGCCAACGGGTTCGCTCCCTCTTTCT
66 ATAGAACTCGA-AAATCTTCTGCCTATGAGTTCACTCCCTCTTTCT
* * * *
60957 TTCAAGGAGTATAGAGCTCAAATAATCTTCTGCAAACGGGTTCGCTCCATCTTTCTTTCAGGGAG
1 TTCAAGGAGTATAGAACTCAAATAATCTTCTTCAAACGGGTTCGCTCCCTATTTC-TTCAGGGAG
*
61022 TATAGAACTC-AAACATCTTCTTCCTAT-AGGTTCACTCCCTCTTTCT
65 TATAGAACTCGAAA-ATCTTCTGCCTATGA-GTTCACTCCCTCTTTCT
* * * * ** * * * *
61068 TT-AGGGAGTATGGAACTCGAA-CATCTTCTTCCCACGGATTCGCCCCCTCTTTCTTTAGGGAGT
1 TTCAAGGAGTATAGAACTCAAATAATCTTCTTCAAACGGGTTCGCTCCCTATTTCTTCAGGGAGT
*
61131 ATAGAACTCGAACATCTTC
66 ATAGAACTCGAAAATCTTC
61150 AACAATCATG
Statistics
Matches: 260, Mismatches: 38, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
108 24 0.09
109 27 0.10
110 19 0.07
111 170 0.65
112 20 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
TTCAAGGAGTATAGAACTCAAATAATCTTCTTCAAACGGGTTCGCTCCCTATTTCTTCAGGGAGT
ATAGAACTCGAAAATCTTCTGCCTATGAGTTCACTCCCTCTTTCT
Found at i:61084 original size:54 final size:54
Alignment explanation
Indices: 60718--61149 Score: 375
Period size: 55 Copynumber: 7.9 Consensus size: 54
60708 TCGACTAGCT
* * * * **
60718 GGTTCGCTCCCTATTACTTCATGGAGTATAGAACTCAAACAATCTTCTTTCAACG
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAAC-ATCTTCTGCCAACG
* * ** * * *
60773 GGTTTGCTCCCTATCACTTCAGGGAGTATAGAACTCGAATA-ATCTTCTGCCTATG
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTC-AA-ACATCTTCTGCCAACG
* ** * * * * *
60828 AGTTCTTTTCCTCTTTGTTTCAAGGAGTATAGAACTCGAATA-ATCTTCTACAAACG
1 GGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTC-AA-ACATCTTCTGCCAACG
* * *
60884 GGTTCGCTCCCTATTGCTTCAGGGAGTATAGAACTCGAGAA-ATCTTCTGCCAACG
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTC-A-AACATCTTCTGCCAACG
* * * *
60939 GGTTCGCTCCCTCTTTCTTTCAAGGAGTATAGAGCTCAAATAATCTTCTGCAAACG
1 GGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCAAA-CATCTTCTGCCAACG
* * * **
60995 GGTTCGCTCCATCTTTCTTTCAGGGAGTATAGAACTCAAACATCTTCTTCCTATA
1 GGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTCAAACATCTTCTGCCAACG
* * * * *
61050 GGTTCACTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACATCTTCTTCCCACG
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAACATCTTCTGCCAACG
* * *
61104 GATTCGCCCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTC
1 GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAACATCTTC
61150 AACAATCATG
Statistics
Matches: 311, Mismatches: 59, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
54 73 0.23
55 128 0.41
56 109 0.35
57 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (54 bp):
GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCAAACATCTTCTGCCAACG
Found at i:61223 original size:55 final size:55
Alignment explanation
Indices: 61127--61477 Score: 591
Period size: 55 Copynumber: 6.4 Consensus size: 55
61117 TTTCTTTAGG
*
61127 GAGTAT-AGAACTCGAAC-ATCTTCAACAATCATGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * * *
61181 GAATATAAGACTTGAACAATCTTTAACAATTGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* *
61236 GAGTATAAGACTTGAACAATCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
*
61291 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT-CTTCATA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
*
61345 GAGTATAAGACTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
61400 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
61455 GAGTATAAGACTCGAACAATCTT
1 GAGTATAAGACTCGAACAATCTT
61478 GATGCTTCAA
Statistics
Matches: 279, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
54 64 0.23
55 215 0.77
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (55 bp):
GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
Found at i:61398 original size:164 final size:165
Alignment explanation
Indices: 61127--61477 Score: 600
Period size: 164 Copynumber: 2.1 Consensus size: 165
61117 TTTCTTTAGG
61127 GAGTAT-AGAACTCGAAC-ATCTTCAACAATCATGTCTGCTCCCTATTCCTTCAGAGAATATAAG
1 GAGTATAAG-ACTCGAACAATCTTCAACAATCATGTCTGCTCCCTATTCCTTCAGAGAATATAAG
* * * *
61190 ACTTGAACAATCTTTAACAATTGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTTGAACAA
65 ACTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAA
61255 TCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGA
130 TCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGA
* * *
61291 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT-CTTCATAGAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCATGTCTGCTCCCTATTCCTTCAGAGAATATAAGA
61355 CTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
66 CTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
*
61420 CTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
131 CTTCAACAATCGTGTATGCTCCCTATTCCTTCAGA
61455 GAGTATAAGACTCGAACAATCTT
1 GAGTATAAGACTCGAACAATCTT
61478 GATGCTTCAA
Statistics
Matches: 177, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
164 147 0.83
165 30 0.17
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (165 bp):
GAGTATAAGACTCGAACAATCTTCAACAATCATGTCTGCTCCCTATTCCTTCAGAGAATATAAGA
CTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
CTTCAACAATCGTGTATGCTCCCTATTCCTTCAGA
Found at i:61402 original size:109 final size:110
Alignment explanation
Indices: 61127--61477 Score: 584
Period size: 109 Copynumber: 3.2 Consensus size: 110
61117 TTTCTTTAGG
*
61127 GAGTAT-AGAACTCGAAC-ATCTTCAACAATCA-TGTCTGCTCCCTATTCCTTCAGAGAATATAA
1 GAGTATAAG-ACTCGAACAATCTTCAACAAT-AGTGTCTGCTCCCTATTCCTTCAGAGAGTATAA
* * *
61189 GACTTGAACAATCTTTAACAATTGTGTCTGCTCCCTATTCCTTCAGA
64 GACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * *
61236 GAGTATAAGACTTGAACAATCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGAGAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
*
61301 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT-CTTCATA
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
61345 GAGTATAAGACTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
61410 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
61455 GAGTATAAGACTCGAACAATCTT
1 GAGTATAAGACTCGAACAATCTT
61478 GATGCTTCAA
Statistics
Matches: 226, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
109 118 0.52
110 108 0.48
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (110 bp):
GAGTATAAGACTCGAACAATCTTCAACAATAGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
Found at i:62538 original size:10 final size:10
Alignment explanation
Indices: 62525--62559 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
62515 CTTTTATTCG
62525 TTTTTTTCATT
1 TTTTTTTCA-T
62536 TTTTTTTCAT
1 TTTTTTTCAT
62546 TTTTTTTCAT
1 TTTTTTTCAT
62556 TTTT
1 TTTT
62560 ATATTCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:62539 original size:11 final size:11
Alignment explanation
Indices: 62525--62559 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
62515 CTTTTATTCG
62525 TTTTTTTCATT
1 TTTTTTTCATT
62536 TTTTTTTCA-T
1 TTTTTTTCATT
62546 TTTTTTTCATT
1 TTTTTTTCATT
62557 TTT
1 TTT
62560 ATATTCAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:62540 original size:21 final size:22
Alignment explanation
Indices: 62516--62566 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
62506 TGAACCCCCC
62516 TTTTATTC-GTTTTTTTCATTT
1 TTTTATTCAGTTTTTTTCATTT
*
62537 TTTT-TTCATTTTTTTTCATTT
1 TTTTATTCAGTTTTTTTCATTT
*
62558 TTATATTCA
1 TTTTATTCA
62567 AGCAAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.73
22 4 0.15
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTATTCAGTTTTTTTCATTT
Found at i:67179 original size:96 final size:96
Alignment explanation
Indices: 67006--67195 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
66996 TCTTACCTAT
* * *
67006 AATGTGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGATTGTATCTATCT
1 AATGCGAAGTGGTATTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTGTATCTATCT
* *
67071 CTTGAGTCAACATCTTGGCCTTTGCACCTCC
66 CTTGAGTCAACATATTGGCCTCTGCACCTCC
* *
67102 AATGCGAAGTGGTATTTATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTGTATCTATCT
1 AATGCGAAGTGGTATTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTGTATCTATCT
*
67167 CTTGAGTTAACATATTGGCCTCTGCACCT
66 CTTGAGTCAACATATTGGCCTCTGCACCT
67196 TTAAAAGAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (96 bp):
AATGCGAAGTGGTATTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTGTATCTATCT
CTTGAGTCAACATATTGGCCTCTGCACCTCC
Found at i:68207 original size:18 final size:19
Alignment explanation
Indices: 68174--68209 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
68164 ATCAAATTAC
68174 AAATTAAAATACAAACAAA
1 AAATTAAAATACAAACAAA
*
68193 AAATTTAAA-ACAAACAA
1 AAATTAAAATACAAACAA
68210 GGGATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATTAAAATACAAACAAA
Found at i:70875 original size:3 final size:3
Alignment explanation
Indices: 70867--70924 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
70857 TATGTAACAT
* * *
70867 TAA TAA TAA TAA TAA TAA TAA TATA TTA TAA T-A TAA TAG TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
70912 TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TA
70925 TTTATAACCC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:70926 original size:33 final size:32
Alignment explanation
Indices: 70850--70931 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
70840 GAGCCTGTAA
70850 AATATAATATGTA-ACATTAATAATAATAATAAT
1 AATATAATAT-TATA-ATTAATAATAATAATAAT
* *
70883 AATA-ATATATTATAATATAATAGTTATAATAAT
1 AATATA-ATATTATAAT-TAATAATAATAATAAT
70916 AATATAATATTTATAA
1 AATATAATA-TTATAA
70932 CCCTGACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
32 5 0.12
33 30 0.71
34 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (32 bp):
AATATAATATTATAATTAATAATAATAATAAT
Found at i:71654 original size:18 final size:18
Alignment explanation
Indices: 71631--71666 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
71621 ACTAAATATT
71631 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
71649 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
71667 AAAATCCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:73879 original size:8 final size:8
Alignment explanation
Indices: 73866--73904 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
73856 TTTCATTTCT
73866 TTATTCCA
1 TTATTCCA
*
73874 TTATTCCT
1 TTATTCCA
73882 TTATTCCA
1 TTATTCCA
73890 TTATTCCA
1 TTATTCCA
73898 TTATTCC
1 TTATTCC
73905 TTCAAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.54
Consensus pattern (8 bp):
TTATTCCA
Found at i:77012 original size:18 final size:18
Alignment explanation
Indices: 76989--77024 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76979 ACTGAATATT
* *
76989 TGTCCCTAATGACCACTA
1 TGTCCCGAAGGACCACTA
77007 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
77025 AAAATCCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:79136 original size:34 final size:32
Alignment explanation
Indices: 79097--79166 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
79087 TTTTGTAAAG
*
79097 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
79131 GGGAAAGGTTCTAGTTTATCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
79163 GGGA
1 GGGA
79167 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:80050 original size:19 final size:20
Alignment explanation
Indices: 80026--80073 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
80016 AACGATTTTC
*
80026 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
80045 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
80065 TTTTGAAAA
1 TTTTGAAAA
80074 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:81425 original size:30 final size:30
Alignment explanation
Indices: 81354--81413 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
81344 ACAGTTTAAG
81354 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
81384 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
81414 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:82031 original size:34 final size:32
Alignment explanation
Indices: 81992--82061 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
81982 TTTTGTAAAG
* *
81992 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAACTTAGCCCG-G-AAAAACTA
*
82026 GGGAAAGGTTCTAATTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAACTTAGCCCGGAAAAACTA
82058 GGGA
1 GGGA
82062 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAACTTAGCCCGGAAAAACTA
Found at i:82612 original size:48 final size:48
Alignment explanation
Indices: 82537--82632 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
82527 AAGGAGCTAA
* *
82537 TGATCATGAAACAAATAGTGAAGGAGTTATTCTAGTAGGGTCAAGTTC
1 TGATCATGAAAAAAATAGTGAAGGAGTTATTCAAGTAGGGTCAAGTTC
* *
82585 TGATCATGAAAAAAATAGTGAATGAGTTATTCAAGTAGGGTTAAGTTC
1 TGATCATGAAAAAAATAGTGAAGGAGTTATTCAAGTAGGGTCAAGTTC
82633 CACTATTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (48 bp):
TGATCATGAAAAAAATAGTGAAGGAGTTATTCAAGTAGGGTCAAGTTC
Found at i:89712 original size:19 final size:19
Alignment explanation
Indices: 89688--89728 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
89678 GAAAATACTC
89688 AAAAAAAAGTCACATGAGA
1 AAAAAAAAGTCACATGAGA
89707 AAAAAAAAGTCACATGAGA
1 AAAAAAAAGTCACATGAGA
89726 AAA
1 AAA
89729 TTGATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.66, C:0.10, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAAAAAAGTCACATGAGA
Found at i:95364 original size:15 final size:14
Alignment explanation
Indices: 95342--95384 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
95332 AAATTTTTCG
95342 AGTTGAGTTTATAA
1 AGTTGAGTTTATAA
* *
95356 AGTTTGAGTTATGTCA
1 AG-TTGAGTT-TATAA
95372 AGTTGAGTTTATA
1 AGTTGAGTTTATA
95385 TTTAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.17
15 14 0.61
16 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.44
Consensus pattern (14 bp):
AGTTGAGTTTATAA
Found at i:96270 original size:61 final size:61
Alignment explanation
Indices: 96175--96300 Score: 207
Period size: 61 Copynumber: 2.1 Consensus size: 61
96165 GCTTTTTCAA
* *
96175 GCAAACATTAACACTCTCATCATATAAAACCCAATAAACCAATCATATCACTATGGTGAAT
1 GCAAACATTAACACTCTCATCACATAAAACCCAATAAACCAATCATATCAATATGGTGAAT
* * *
96236 GCAAACATTAATATTCTCATCACATAAAACCCAATAAACCAATCATATCAATATGGTGTAT
1 GCAAACATTAACACTCTCATCACATAAAACCCAATAAACCAATCATATCAATATGGTGAAT
96297 GCAA
1 GCAA
96301 TGAAAGAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.25
Consensus pattern (61 bp):
GCAAACATTAACACTCTCATCACATAAAACCCAATAAACCAATCATATCAATATGGTGAAT
Found at i:98422 original size:17 final size:17
Alignment explanation
Indices: 98372--98423 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
98362 AATAGTTTTG
98372 TAATACTGAAATTTAAA
1 TAATACTGAAATTTAAA
** *
98389 TAAT--TTTAATTT-TA
1 TAATACTGAAATTTAAA
98403 TAATACTGAAATTTAAA
1 TAATACTGAAATTTAAA
98420 TAAT
1 TAAT
98424 CCATACAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.23
16 6 0.23
17 9 0.35
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (17 bp):
TAATACTGAAATTTAAA
Found at i:98475 original size:22 final size:22
Alignment explanation
Indices: 98447--98811 Score: 368
Period size: 22 Copynumber: 16.6 Consensus size: 22
98437 ATAATAATTT
98447 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCTATA
*
98469 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCTATA
98491 TTTTAAAATAAATCAAT-TCATA
1 TTTTAAAATAAATCAATCT-ATA
** *
98513 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCTATA
* *
98535 TTTCAAAATAAATCAATTTATA
1 TTTTAAAATAAATCAATCTATA
*
98557 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCTATA
** *
98579 TTTTAAAATAAAT-TTTTTCATA
1 TTTTAAAATAAATCAATCT-ATA
*
98601 TTTTAAAATAAATTAAT-TCATA
1 TTTTAAAATAAATCAATCT-ATA
** *
98623 TTTTAAAATAAAT-TTTTTCATA
1 TTTTAAAATAAATCAATCT-ATA
** *
98645 TTTTAAAATAAA-CTTTTTTATA
1 TTTTAAAATAAATC-AATCTATA
*
98667 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCTATA
* * *
98689 TTCTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCTATA
** *
98711 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCTATA
*
98733 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCTATA
*
98755 TTTTAAAATAAATTAAT-TCATA
1 TTTTAAAATAAATCAATCT-ATA
98777 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCTATA
98799 TTTTAAAATAAAT
1 TTTTAAAATAAAT
98812 TTTAAAATAG
Statistics
Matches: 294, Mismatches: 35, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.03
22 268 0.91
23 16 0.05
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCTATA
Found at i:98517 original size:66 final size:65
Alignment explanation
Indices: 98447--98811 Score: 496
Period size: 66 Copynumber: 5.5 Consensus size: 65
98437 ATAATAATTT
** *
98447 TTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCAT
1 TTTTAAAATAAAT-TTTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCAT
98512 A
65 A
* * ** * *
98513 TTTTAAAATAAAATTTTCCATATTTCAAAATAAATCAATTTATATTTTAAAATAAATCAATCCAT
1 TTTTAAAAT-AAATTTTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCAT
98578 A
65 A
* * * **
98579 TTTTAAAATAAATTTTTTCATATTTTAAAATAAATTAATTCATATTTTAAAATAAATTTTTTCAT
1 TTTTAAAATAAATTTTCT-ATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCAT
98644 A
65 A
* * *
98645 TTTTAAAATAAACTTTTTTATATTTTAAAATAAATCAATCCATATTCTAAAATAAATTAATCCAT
1 TTTTAAAATAAA-TTTTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCAT
98710 A
65 A
*
98711 TTTTAAAATAAAATTTTCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCAT
1 TTTTAAAAT-AAATTTTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCAT
98776 A
65 A
**
98777 TTTTAAAATAAATCAATCTATATTTTAAAATAAAT
1 TTTTAAAATAAAT-TTTCTATATTTTAAAATAAAT
98812 TTTAAAATAG
Statistics
Matches: 265, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
65 11 0.04
66 241 0.91
67 13 0.05
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (65 bp):
TTTTAAAATAAATTTTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATTCATA
Found at i:98812 original size:44 final size:44
Alignment explanation
Indices: 98447--98812 Score: 454
Period size: 44 Copynumber: 8.3 Consensus size: 44
98437 ATAATAATTT
*
98447 TTTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATTAATTC-ATATTTTAAAATAAATCAATCCATA
* **
98491 TTTTAAAATAAATCAATTCATATTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAATAAATTAATTCATATTTTAAAAT-AAATCAATCCATA
* * *
98535 TTTCAAAATAAATCAATTTATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATTAATTCATATTTTAAAATAAATCAATCCATA
** * *
98579 TTTTAAAATAAATTTTTTCATATTTTAAAATAAATTAATTCATA
1 TTTTAAAATAAATTAATTCATATTTTAAAATAAATCAATCCATA
** ** **
98623 TTTTAAAATAAATTTTTTCATATTTTAAAATAAA-CTTTTTTATA
1 TTTTAAAATAAATTAATTCATATTTTAAAATAAATC-AATCCATA
* * * *
98667 TTTTAAAATAAATCAATCCATATTCTAAAATAAATTAATCCATA
1 TTTTAAAATAAATTAATTCATATTTTAAAATAAATCAATCCATA
98711 TTTTAAAATAAAATT--TTCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAAT-AAATTAATT-CATATTTTAAAATAAATCAATCCATA
*
98755 TTTTAAAATAAATTAATTCATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATTAATTCATATTTTAAAATAAATCAATCCATA
98799 TTTTAAAATAAATT
1 TTTTAAAATAAATT
98813 TTAAAATAGA
Statistics
Matches: 281, Mismatches: 32, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
43 10 0.04
44 259 0.92
45 12 0.04
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (44 bp):
TTTTAAAATAAATTAATTCATATTTTAAAATAAATCAATCCATA
Found at i:107781 original size:18 final size:17
Alignment explanation
Indices: 107748--107781 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
107738 AAATTATTAA
107748 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
107765 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
107782 AAACAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:115442 original size:21 final size:19
Alignment explanation
Indices: 115404--115449 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
115394 TAATATCTGA
115404 AAATAAAAAAATACATAAT
1 AAATAAAAAAATACATAAT
* *
115423 TAATAAAGAAGAATATATAAT
1 AAATAAA-AA-AATACATAAT
115444 AAATAA
1 AAATAA
115450 TATTATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 14 0.64
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATAAAAAAATACATAAT
Found at i:116127 original size:2 final size:2
Alignment explanation
Indices: 116122--116152 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116112 AATTTATTTA
116122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116153 ATTTAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118748 original size:90 final size:89
Alignment explanation
Indices: 118592--118768 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 89
118582 CCTAACACAC
*
118592 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATA
* *
118657 TTTAATTAATTAGAATTGAATAAT
66 TTTAATTAATTAAAATTAAATAAT
*
118681 CCTTTTATATCCAAGTTACCCTAATCATATTAGTGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAG-GATTTTATTATTTCAAATTAATTAAATCTAT
118746 ATTTAATTAATTAAAATTAAATA
65 ATTTAATTAATTAAAATTAAATA
118769 TTTGGGATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 32 0.39
90 51 0.61
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTAAAATTAAATAAT
Found at i:130138 original size:106 final size:105
Alignment explanation
Indices: 129947--130898 Score: 1258
Period size: 106 Copynumber: 9.1 Consensus size: 105
129937 CATTGTTCCA
* ***
129947 AGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAAATTGGAAATTGTTTGTTGACAA
* * * *
130011 CCAATC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTG
64 CC-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
130053 AGTCTAATATCATTCGTTGTGAAGTTGAAATTGACTCT-AGAATTGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGG-AAATTGTTTGTTGACAA
130117 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
130159 AGTCCAATATCCTTCGTTGCGAAGTTGAAATTGG----G-AA---G---TTGTTTATTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACC
130213 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
130253 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAAC
*
130318 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
130359 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTGTTGACAAC
130423 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
130464 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAATTTTTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAAC
*
130529 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
130570 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTCTGAAATT-ATTGTTGACAAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAAC
130634 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
130675 AGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAA--ATTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT-TGGAAATTGTTTGTTGACAAC
* *
130738 CAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
130779 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTTGTTGACAATC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACC
* * * * * *
130844 AACCGCCCCTTCGTCATGAAGTTGAGCTTGTGTTGTCTTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
* *
130885 A-TTCAAGATCCTTC
1 AGTCCAATATCCTTC
130899 ATTGAGAAAT
Statistics
Matches: 760, Mismatches: 61, Indels: 51
0.87 0.07 0.06
Matches are distributed among these distances:
94 88 0.12
98 2 0.00
99 2 0.00
101 2 0.00
103 5 0.01
104 91 0.12
105 250 0.33
106 319 0.42
107 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:130460 original size:211 final size:211
Alignment explanation
Indices: 130184--130898 Score: 1123
Period size: 211 Copynumber: 3.4 Consensus size: 211
130174 GTTGCGAAGT
* *
130184 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
130249 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGA
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGA
*
130314 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGT
130 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
130379 GAAGTTGAAATTGGCTC
195 GAAGTTGAAATTGGCTC
*
130396 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
130461 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAATTTTTTTATTGAC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGAC
*
130526 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGCTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
130591 AAGTTGAAATTGGCTC
196 AAGTTGAAATTGGCTC
** *
130607 TGAAATTCTGAAAT-TATTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATGT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * ** *
130671 CTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATCGGGAA--AATTTGTTGA
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGA
* * *
130734 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGT
130 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
130799 GAAGTTGAAATTGGCTC
195 GAAGTTGAAATTGGCTC
* * * * * * * *
130816 TGAAATTGGGAAGTGTTTGTTGACAATCAACCGCCCCTTCGTCATGAAGTTGAGCTTGTGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
130881 TTGGA-TTCAAGATCCTTC
66 -TGGAGTCCAATATCCTTC
130899 ATTGAGAAAT
Statistics
Matches: 467, Mismatches: 33, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
209 148 0.32
210 6 0.01
211 302 0.65
212 11 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (211 bp):
TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGAC
AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
AAGTTGAAATTGGCTC
Found at i:130915 original size:105 final size:105
Alignment explanation
Indices: 130184--130898 Score: 1076
Period size: 105 Copynumber: 6.8 Consensus size: 105
130174 GTTGCGAAGT
* *
130184 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
130249 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * *
130290 TGAAATTGGGAATTTTTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
130355 CTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
130396 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
130461 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * *
130501 TAAAATTGGGAATTTTTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
130566 CAGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
** *
130607 TGAAATTCTGAAAT-TATTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATGT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
130671 CTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * *
130712 TGAAATCGGGAAA-ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
*
130776 TGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * * * * * *
130816 TGAAATTGGGAAGTGTTTGTTGACAATCAACCGCCCCTTCGTCATGAAGTTGAGCTTGTGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
130881 TTGGA-TTCAAGATCCTTC
66 -TGGAGTCCAATATCCTTC
130899 ATTGAGAAAT
Statistics
Matches: 559, Mismatches: 45, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
104 96 0.17
105 247 0.44
106 216 0.39
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
Found at i:134875 original size:24 final size:24
Alignment explanation
Indices: 134843--134889 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
134833 AGAAACTGTT
134843 GCTGGAGCCGGAGCTGGTACCGAC
1 GCTGGAGCCGGAGCTGGTACCGAC
* *
134867 GCTGGAGCCGGGGCTGGTGCCGA
1 GCTGGAGCCGGAGCTGGTACCGA
134890 TGATGGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.28, G:0.47, T:0.13
Consensus pattern (24 bp):
GCTGGAGCCGGAGCTGGTACCGAC
Found at i:146186 original size:181 final size:181
Alignment explanation
Indices: 145882--146248 Score: 725
Period size: 181 Copynumber: 2.0 Consensus size: 181
145872 ATGATAAGTG
145882 CCAATTCAGTTTTTCATGCTCACTAAGAACATTGAGTTTGATGTTCATTTTGTTCGAGAAATGGT
1 CCAATTCAGTTTTTCATGCTCACTAAGAACATTGAGTTTGATGTTCATTTTGTTCGAGAAATGGT
145947 TGTCGATGAGTCGGTTTGTGTTAATTGTGTTCTTGGTTGATTTCAACTCATAGATGGCTTTATCA
66 TGTCGATGAGTCGGTTTGTGTTAATTGTGTTCTTGGTTGATTTCAACTCATAGATGGCTTTATCA
146012 AACCACTTTGTAAATCTTATTTTCCCACGTTTCATCACTAACTTAGCATTA
131 AACCACTTTGTAAATCTTATTTTCCCACGTTTCATCACTAACTTAGCATTA
146063 CCAATTCAGTTTTTCATGCTCACTAAGAACATTGAGTTTGATGTTCATTTTGTTCGAGAAATGGT
1 CCAATTCAGTTTTTCATGCTCACTAAGAACATTGAGTTTGATGTTCATTTTGTTCGAGAAATGGT
146128 TGTCGATGAGTCGGTTTGTGTTAATTGTGTTCTTGGTTGATTTCAACTCATAGATGGCTTTATCA
66 TGTCGATGAGTCGGTTTGTGTTAATTGTGTTCTTGGTTGATTTCAACTCATAGATGGCTTTATCA
146193 AACCACTTTGTAAATCTTATTTTCCCACGTTTCATCACTAACTTAGCATTA
131 AACCACTTTGTAAATCTTATTTTCCCACGTTTCATCACTAACTTAGCATTA
*
146244 ACAAT
1 CCAAT
146249 AGTGTTGATT
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 185 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (181 bp):
CCAATTCAGTTTTTCATGCTCACTAAGAACATTGAGTTTGATGTTCATTTTGTTCGAGAAATGGT
TGTCGATGAGTCGGTTTGTGTTAATTGTGTTCTTGGTTGATTTCAACTCATAGATGGCTTTATCA
AACCACTTTGTAAATCTTATTTTCCCACGTTTCATCACTAACTTAGCATTA
Found at i:151109 original size:28 final size:28
Alignment explanation
Indices: 151078--151249 Score: 87
Period size: 28 Copynumber: 6.2 Consensus size: 28
151068 TGAGCATTTG
*
151078 GCTTCAGTCTAGAATCTGACACCTCTGT
1 GCTTCAGTCTAGAATATGACACCTCTGT
* * * *
151106 GCTT-TGT-AATAAT-TGTGCACCTCTGT
1 GCTTCAGTCTAGAATATG-ACACCTCTGT
*
151132 GCTTCAATCGATA-AAT-TGACACCTCTGT
1 GCTTCAGTC--TAGAATATGACACCTCTGT
* *
151160 G---CAGT-TAAAAATGACTGAGCACCTCTAT
1 GCTTCAGTCT-AGAAT-A-TGA-CACCTCTGT
* *
151188 GCTTCAGTCTAGAATATTG-CACATATGT
1 GCTTCAGTCTAGAATA-TGACACCTCTGT
*
151216 GCTTCAGTCTAGAATATTG-CACCTTTGT
1 GCTTCAGTCTAGAATA-TGACACCTCTGT
151244 GCTTCA
1 GCTTCA
151250 AACTAGTATA
Statistics
Matches: 112, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 3 0.03
25 5 0.04
26 17 0.15
27 6 0.05
28 61 0.54
29 5 0.04
30 4 0.04
31 8 0.07
32 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (28 bp):
GCTTCAGTCTAGAATATGACACCTCTGT
Found at i:151260 original size:28 final size:28
Alignment explanation
Indices: 151178--151249 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
151168 AAATGACTGA
* *
151178 GCACCTCTATGCTTCAGTCTAGAATATT
1 GCACCTATGTGCTTCAGTCTAGAATATT
*
151206 GCACATATGTGCTTCAGTCTAGAATATT
1 GCACCTATGTGCTTCAGTCTAGAATATT
*
151234 GCACCTTTGTGCTTCA
1 GCACCTATGTGCTTCA
151250 AACTAGTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (28 bp):
GCACCTATGTGCTTCAGTCTAGAATATT
Found at i:152562 original size:144 final size:144
Alignment explanation
Indices: 152302--152589 Score: 567
Period size: 144 Copynumber: 2.0 Consensus size: 144
152292 TACTAAGCAA
152302 ATATTCAAAAGTTCAATACTTATTATTAATTTTAAATCAGTATTTTAATATGTAAAACTATTGAC
1 ATATTCAAAAGTTCAATACTTATTATTAATTTTAAATCAGTATTTTAATATGTAAAACTATTGAC
152367 TTCTTCACAAAATATTTGGTCTTGATTCTACTAAAGGGCAGTTAATATACCAAAGGAATATACGA
66 TTCTTCACAAAATATTTGGTCTTGATTCTACTAAAGGGCAGTTAATATACCAAAGGAATATACGA
152432 GAAGAAGCTATATC
131 GAAGAAGCTATATC
152446 ATATTCAAAAGTTCAATACTTATTATTAATTTTAAATCAGTATTTTAATATGTAAAACTATTGAC
1 ATATTCAAAAGTTCAATACTTATTATTAATTTTAAATCAGTATTTTAATATGTAAAACTATTGAC
*
152511 TTCTTCCCAAAATATTTGGTCTTGATTCTACTAAAGGGCAGTTAATATACCAAAGGAATATACGA
66 TTCTTCACAAAATATTTGGTCTTGATTCTACTAAAGGGCAGTTAATATACCAAAGGAATATACGA
152576 GAAGAAGCTATATC
131 GAAGAAGCTATATC
152590 CATAGAAATT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (144 bp):
ATATTCAAAAGTTCAATACTTATTATTAATTTTAAATCAGTATTTTAATATGTAAAACTATTGAC
TTCTTCACAAAATATTTGGTCTTGATTCTACTAAAGGGCAGTTAATATACCAAAGGAATATACGA
GAAGAAGCTATATC
Found at i:152773 original size:12 final size:13
Alignment explanation
Indices: 152756--152784 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
152746 ATCACATCAG
152756 TTAATTAATT-AA
1 TTAATTAATTAAA
152768 TTAATTAATTAAA
1 TTAATTAATTAAA
152781 TTAA
1 TTAA
152785 GTATGCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:155125 original size:20 final size:20
Alignment explanation
Indices: 155074--155125 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
155064 TTCAAATTTT
*
155074 ATAAAAAGTAAATGTTATGTA
1 ATAAAAA-TAAATATTATGTA
*** *
155095 ATTTTATTAAATATTATGTA
1 ATAAAAATAAATATTATGTA
155115 ATAAAAATAAA
1 ATAAAAATAAA
155126 ATGATTAAAT
Statistics
Matches: 22, Mismatches: 9, Indels: 1
0.69 0.28 0.03
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (20 bp):
ATAAAAATAAATATTATGTA
Found at i:156373 original size:15 final size:16
Alignment explanation
Indices: 156353--156393 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
156343 ATTTACTTTA
*
156353 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
*
156368 GAATGATTCAAATGTT
1 GAATGATTCAAACGTT
156384 GAATGATTCA
1 GAATGATTCA
156394 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:157999 original size:33 final size:33
Alignment explanation
Indices: 157957--158026 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
157947 CTAAGGGGTT
* * *
157957 GTTTGTTTGTCTCTTAATGGAATTATCCAGTGC
1 GTTTGTTTGTCTCTTAATAGAATCATCCAGCGC
*
157990 GTTTGTTTGTCTCTTAATAGAATCATTCAGCGC
1 GTTTGTTTGTCTCTTAATAGAATCATCCAGCGC
158023 GTTT
1 GTTT
158027 ATTTCGTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.46
Consensus pattern (33 bp):
GTTTGTTTGTCTCTTAATAGAATCATCCAGCGC
Found at i:158188 original size:16 final size:16
Alignment explanation
Indices: 158167--158208 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
158157 ACAGAGTCTC
158167 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
158183 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
158199 TGAATCATTC
1 TGAATCATTC
158209 TGAAGTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:168557 original size:17 final size:17
Alignment explanation
Indices: 168535--168567 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
168525 GAAATCACCG
*
168535 AAACTAATCATGAATTA
1 AAACTAAGCATGAATTA
168552 AAACTAAGCATGAATT
1 AAACTAAGCATGAATT
168568 GAATTCACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (17 bp):
AAACTAAGCATGAATTA
Found at i:171474 original size:3 final size:3
Alignment explanation
Indices: 171466--171508 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
171456 ATATATAATT
*
171466 TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA -AA TTA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA
171509 TAAAAAAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 29 0.83
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:171507 original size:13 final size:13
Alignment explanation
Indices: 171466--171508 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
171456 ATATATAATT
171466 TAATAATAAT-AA
1 TAATAATAATAAA
*
171478 TAATAATAATAAT
1 TAATAATAATAAA
171491 TAATAA-AATTAAA
1 TAATAATAA-TAAA
171504 TAATA
1 TAATA
171509 TAAAAAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:171513 original size:15 final size:16
Alignment explanation
Indices: 171462--171513 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
171452 TGTAATATAT
*
171462 AATTTAATAATAATAA
1 AATTAAATAATAATAA
*
171478 TAATAATAATAATTAATAA
1 -AATTA-AATAA-TAATAA
171497 AATTAAATAAT-ATAA
1 AATTAAATAATAATAA
171512 AA
1 AA
171514 AAGACCCGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.20
16 1 0.03
17 8 0.27
18 9 0.30
19 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAATAATAATAA
Found at i:171713 original size:40 final size:40
Alignment explanation
Indices: 171658--171734 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
171648 GTTGGTTGTT
171658 GGGGACGACACTGCTCATACGCGATGAAGAGATCTGGTCA
1 GGGGACGACACTGCTCATACGCGATGAAGAGATCTGGTCA
* * *
171698 GGGGATGACACTGCTCATACGTGATGAAGAGTTCTGG
1 GGGGACGACACTGCTCATACGCGATGAAGAGATCTGG
171735 CCATCTTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (40 bp):
GGGGACGACACTGCTCATACGCGATGAAGAGATCTGGTCA
Found at i:171904 original size:134 final size:134
Alignment explanation
Indices: 171664--172061 Score: 575
Period size: 134 Copynumber: 3.0 Consensus size: 134
171654 TGTTGGGGAC
* * * *
171664 GACACTGCTCATACGCGATGAAGAGATCTGGTC-AGGGGATGACACTGCTCATACGTGATGAAGA
1 GACACAGCTCCTACGTGATGAAGAGATCTGGTCGA-GGGATGACACTACTCATACGTGATGAAGA
*
171728 GTTCTGGCCATCTTTAGGTAGGGCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTA
65 GTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTA
*
171793 TGGTT
130 TGGGT
* * * *
171798 GACACAGTTCCTACGTGATGAGGAGATCGGGTCGAGGGATGACATTACTCATACGTGATGAAGAG
1 GACACAGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACTACTCATACGTGATGAAGAG
* *
171863 TTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGACGTCTGGTTATCTAG
66 TTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAT
171928 GGGT
131 GGGT
* * * *
171932 GACACGGCTCCTACGTGGTGAAGAGATCTGGTCG-GTGGATGACACGACTCATACTTGATGAAGA
1 GACACAGCTCCTACGTGATGAAGAGATCTGGTCGAG-GGATGACACTACTCATACGTGATGAAGA
* ** * *
171996 GTTCTGGCCATCTTTAGGAATGATGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATCTA
65 GTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTA
172061 T
130 T
172062 AGGGATAATG
Statistics
Matches: 236, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
133 1 0.00
134 234 0.99
135 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (134 bp):
GACACAGCTCCTACGTGATGAAGAGATCTGGTCGAGGGATGACACTACTCATACGTGATGAAGAG
TTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAT
GGGT
Found at i:172212 original size:34 final size:33
Alignment explanation
Indices: 172169--172264 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 33
172159 GGAGACAAAA
172169 TTTGTTTCAAGGAAACGATCTCAAAGAT-ATTTGT
1 TTTGTTTCAAGGAAACGA-CTCAAAGATGATTT-T
*
172203 TTTGTTTCAAGGGAAACAAACTCAAAGATGATTTT
1 TTTGTTTCAA-GGAAAC-GACTCAAAGATGATTTT
* *
172238 TGT-TTTCAAAGAAACAGACTCAAAGAT
1 TTTGTTTCAAGGAAAC-GACTCAAAGAT
172265 TTTTCTCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 16 0.29
34 16 0.29
35 18 0.33
36 5 0.09
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (33 bp):
TTTGTTTCAAGGAAACGACTCAAAGATGATTTT
Found at i:172492 original size:30 final size:30
Alignment explanation
Indices: 172426--172492 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
172416 ATTTGTTTTT
* * *
172426 AAAGAAATAAACTCAAAGATGATTTTGTTA
1 AAAGAAACAAACTCAAAGATGATTTTCTCA
** **
172456 GTAGAAACAAACTCAAAGATTTTTTTCTCA
1 AAAGAAACAAACTCAAAGATGATTTTCTCA
172486 AAAGAAA
1 AAAGAAA
172493 TTGTCCTTAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.28
Consensus pattern (30 bp):
AAAGAAACAAACTCAAAGATGATTTTCTCA
Found at i:172659 original size:217 final size:213
Alignment explanation
Indices: 172215--172762 Score: 661
Period size: 217 Copynumber: 2.5 Consensus size: 213
172205 TGTTTCAAGG
* * *
172215 GAAACAAACTCAAAGATGATTTTTGTTTTCAAAGAAACAGACTCAAAGA--TTTTTCTCAAAAGA
1 GAAATAAACTCAAAGATGA-TTTTG--TTAAAAGAAACAAACTCAAAGATTTTTTTCTCAAAAGA
* * * * * *
172278 AAATGTCTCAAGAGACAAAATTTTGTTTCCAAATAAACATACTCAAAGATGGGTTACGTCTTAAG
63 AAATGTCTCAAGAGACAAAATTTTATTTCAAAAGAAACAGACTCAAAGATGGATTACATCTTAAG
* * * * *
172343 TGAGACGAATTTTTTCAAAGGAAACAATCTCAAAGGTTGGTTTTTCATTAGATATTGTCTCAAGA
128 TGAAACAAATTTTTTCAAAGGAAACAACCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGA
172408 GAGACAAAATTTGTTTTTAAA
193 GAGACAAAATTTGTTTTTAAA
** *
172429 GAAATAAACTCAAAGATGATTTTGTTAGTAGAAACAAACTCAAAGATTTTTTTCTCAAAAGAAAT
1 GAAATAAACTCAAAGATGATTTTGTTAAAAGAAACAAACTCAAAGATTTTTTTCTCAAAAGAAAA
* *
172494 TGTCCTTAAGAGATAAAATTTTATTTCAAAAGAAACAGACTCAAAGATGGATTACATCTTAAGTG
66 TGT-CTCAAGAGACAAAATTTTATTTCAAAAGAAACAGACTCAAAGATGGATTACATCTTAAGTG
172559 AAACCAAATTTGTTTCAAAGGAAACAACCTCAAAGGTTGGTTTTTTCATTAGAAACTGTCTCAAG
130 AAA-CAAATTT-TTTCAAAGGAAACAACCTCAAAGGTTGG-TTTTTCATTAGAAACTGTCTCAAG
*
172624 AGAGAGAAAATTTG-TTTTAATA
192 AGAGACAAAATTTGTTTTTAA-A
* * * * * *** *
172646 GAAATAGACTCAAAGTTGATTTTGTTAAAAGAAACTAACTAAAAGATTTTTTTTTTTTACGAAAA
1 GAAATAAACTCAAAGATGATTTTGTTAAAAGAAACAAACTCAAAGATTTTTTTCTCAAAAG-AAA
* * * * *
172711 ACTGTATCAAGAGAGACAAAACTTTATTTCAAAAGAAAAATAATCAAAGATG
65 A-TGTCTC-A-AGAGACAAAATTTTATTTCAAAAGAAACAGACTCAAAGATG
172763 TTTTTTTTTG
Statistics
Matches: 284, Mismatches: 39, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
211 18 0.06
213 24 0.08
214 73 0.26
215 6 0.02
216 33 0.12
217 86 0.30
218 4 0.01
219 4 0.01
220 36 0.13
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (213 bp):
GAAATAAACTCAAAGATGATTTTGTTAAAAGAAACAAACTCAAAGATTTTTTTCTCAAAAGAAAA
TGTCTCAAGAGACAAAATTTTATTTCAAAAGAAACAGACTCAAAGATGGATTACATCTTAAGTGA
AACAAATTTTTTCAAAGGAAACAACCTCAAAGGTTGGTTTTTCATTAGAAACTGTCTCAAGAGAG
ACAAAATTTGTTTTTAAA
Found at i:173515 original size:16 final size:16
Alignment explanation
Indices: 173483--173532 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
173473 TTTATGTATC
173483 ATGTATGTA-TG-TGT
1 ATGTATGTATTGATGT
173497 ATGTATGTATTGATGT
1 ATGTATGTATTGATGT
*
173513 ATGTATGTGTTGATGT
1 ATGTATGTATTGATGT
173529 ATGT
1 ATGT
173533 TTTTCTCGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
14 9 0.27
15 2 0.06
16 22 0.67
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (16 bp):
ATGTATGTATTGATGT
Found at i:173528 original size:12 final size:13
Alignment explanation
Indices: 173484--173532 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
173474 TTATGTATCA
173484 TGTATGTATGTGT
1 TGTATGTATGTGT
*
173497 ATGTATGTAT-TGA
1 -TGTATGTATGTGT
173510 TGTATGTATGTGT
1 TGTATGTATGTGT
173523 TG-ATGTATGT
1 TGTATGTATGT
173533 TTTTCTCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 17 0.53
13 6 0.19
14 9 0.28
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (13 bp):
TGTATGTATGTGT
Found at i:174738 original size:12 final size:11
Alignment explanation
Indices: 174710--174747 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
174700 CCTCTTTTTG
*
174710 TTCTTTGCTTT
1 TTCTTTGATTT
174721 TTCTTTGATTT
1 TTCTTTGATTT
174732 TTGCTTTGATTT
1 TT-CTTTGATTT
174744 TTCT
1 TTCT
174748 CTTTGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:174751 original size:13 final size:12
Alignment explanation
Indices: 174705--174752 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
174695 TTTGTCCTCT
174705 TTTTGTTCTTTG-
1 TTTT-TTCTTTGA
*
174717 CTTTTTCTTTGA
1 TTTTTTCTTTGA
*
174729 TTTTTGCTTTGA
1 TTTTTTCTTTGA
174741 TTTTTCTCTTTG
1 TTTTT-TCTTTG
174753 CTCTTTGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.04, C:0.12, G:0.12, T:0.71
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:181428 original size:3 final size:3
Alignment explanation
Indices: 181420--181474 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
181410 ATATATAATT
181420 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
*
181465 TTA -AA TAA TA
1 TAA TAA TAA TA
181475 TAAAAAAGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:182660 original size:14 final size:15
Alignment explanation
Indices: 182641--182671 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
182631 TTTCTGTCTA
182641 TATGCAGAGA-TTAT
1 TATGCAGAGATTTAT
182655 TATGCAGAGATTTAT
1 TATGCAGAGATTTAT
182670 TA
1 TA
182672 GCATGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (15 bp):
TATGCAGAGATTTAT
Found at i:182719 original size:13 final size:13
Alignment explanation
Indices: 182701--182726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
182691 ACAGACGCGC
182701 ATATGAAGACTGT
1 ATATGAAGACTGT
182714 ATATGAAGACTGT
1 ATATGAAGACTGT
182727 TCAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTGT
Found at i:201565 original size:65 final size:65
Alignment explanation
Indices: 201440--201600 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
201430 TGGAACCTTA
* *
201440 GTGCATCGATGCATAAAATGCAATCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCT-
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGG-TA
201503 G
65 G
* *
201504 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGTA
*
201568 T
65 G
* * *
201569 GTGCATCGATGCATGAAATACATTTGATGTTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTT
201601 AATTTATTCC
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 27 0.32
65 55 0.65
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGTAG
Found at i:202730 original size:22 final size:23
Alignment explanation
Indices: 202703--202746 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
202693 TTGATCTATC
*
202703 CTCTTTTTTCTCT-TCGTTTCCA
1 CTCTTTGTTCTCTCTCGTTTCCA
*
202725 CTCTTTGTTCTCTCTCTTTTCC
1 CTCTTTGTTCTCTCTCGTTTCC
202747 CGATTCTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.02, C:0.34, G:0.05, T:0.59
Consensus pattern (23 bp):
CTCTTTGTTCTCTCTCGTTTCCA
Found at i:211220 original size:24 final size:24
Alignment explanation
Indices: 211191--211239 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
211181 TGTCATCTCC
211191 CACAGAGTCCTACCACATGCCCAT
1 CACAGAGTCCTACCACATGCCCAT
211215 CACAGAGTCCTACCACATGCCCAT
1 CACAGAGTCCTACCACATGCCCAT
211239 C
1 C
211240 GAAGCATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.43, G:0.12, T:0.16
Consensus pattern (24 bp):
CACAGAGTCCTACCACATGCCCAT
Found at i:211766 original size:36 final size:33
Alignment explanation
Indices: 211726--211800 Score: 78
Period size: 36 Copynumber: 2.2 Consensus size: 33
211716 AATATGACTG
211726 TATTTGATGCAGATTACATATTTAAATATAAATATT
1 TATTTGATGCA-ATTACATATTTAAA-A-AAATATT
* ** *
211762 TATTTTGATGTAATTGTATATTTTAAAAAATATT
1 TA-TTTGATGCAATTACATATTTAAAAAAATATT
211796 TATTT
1 TATTT
211801 TATATTGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
33 3 0.09
34 9 0.26
35 1 0.03
36 13 0.38
37 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.51
Consensus pattern (33 bp):
TATTTGATGCAATTACATATTTAAAAAAATATT
Found at i:212439 original size:2 final size:2
Alignment explanation
Indices: 212419--212471 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
212409 AATATAAGTT
*
212419 TA TA T- TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
212459 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
212472 TAATAAAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:212699 original size:51 final size:50
Alignment explanation
Indices: 212623--212757 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 50
212613 ACTTATATCG
* * * *
212623 GTGTAAGTATGTGTCAAGTGCTACACTTTTTTGTTTTATTCACTGACACAT
1 GTGTAAGTATGTGTTAAGTGATACACTTTTTTGTTTCATTCACTGACAC-C
* * *
212674 GTGTAAGTATGTGTTAAGTGATACACTTGTTTATTTCATTCACTTACACC
1 GTGTAAGTATGTGTTAAGTGATACACTTTTTTGTTTCATTCACTGACACC
* * *
212724 GATGTACGTACGTGTTAAGTGTTACA-TTTTTTGT
1 G-TGTAAGTATGTGTTAAGTGATACACTTTTTTGT
212758 AGTATGAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 7 0.10
51 64 0.90
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (50 bp):
GTGTAAGTATGTGTTAAGTGATACACTTTTTTGTTTCATTCACTGACACC
Found at i:216792 original size:2 final size:2
Alignment explanation
Indices: 216785--216839 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
216775 TTACGAGTTG
216785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
216827 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
216840 GTAAATATGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:217588 original size:25 final size:27
Alignment explanation
Indices: 217537--217605 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 27
217527 CCAGAAGTGC
*
217537 GAGCCTACCTAAGGAAATACCTTGGCCTTA
1 GAGCCTACCTAAGGAAATA-C--GGCCTCA
217567 GAGCCTACCTAAGG-AATA-GGCCTCA
1 GAGCCTACCTAAGGAAATACGGCCTCA
*
217592 GAGCCTACCCAAGG
1 GAGCCTACCTAAGG
217606 GAAGCACCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 19 0.51
29 4 0.11
30 14 0.38
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.17
Consensus pattern (27 bp):
GAGCCTACCTAAGGAAATACGGCCTCA
Found at i:220846 original size:15 final size:15
Alignment explanation
Indices: 220815--220844 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
220805 TTCAATAATA
220815 TAAATTTTTACAATT
1 TAAATTTTTACAATT
220830 TAAA-TTTTACAATT
1 TAAATTTTTACAATT
220844 T
1 T
220845 TATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATTTTTACAATT
Found at i:224014 original size:22 final size:23
Alignment explanation
Indices: 223989--224044 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
223979 TTTTTAAGAT
223989 TTTTTC-GAAATACTTTTAGGGA
1 TTTTTCTGAAATACTTTTAGGGA
*
224011 TTTTTCTGAAATACTTTTAGGGG
1 TTTTTCTGAAATACTTTTAGGGA
*
224034 TTTTTATGAAA
1 TTTTTCTGAAA
224045 ACACTCTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (23 bp):
TTTTTCTGAAATACTTTTAGGGA
Found at i:227663 original size:18 final size:18
Alignment explanation
Indices: 227640--227680 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
227630 AGGATTACAC
227640 CATCATCA-AAGGCTGCAA
1 CATCATCACAA-GCTGCAA
227658 CATCATCACAAGCTGCAA
1 CATCATCACAAGCTGCAA
227676 CATCA
1 CATCA
227681 CAACCACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.39, C:0.32, G:0.12, T:0.17
Consensus pattern (18 bp):
CATCATCACAAGCTGCAA
Found at i:237327 original size:33 final size:33
Alignment explanation
Indices: 237285--237396 Score: 224
Period size: 33 Copynumber: 3.4 Consensus size: 33
237275 TATAATTGAA
237285 GTTTAGGGACTAATCTTATAAATATCCTAAAGT
1 GTTTAGGGACTAATCTTATAAATATCCTAAAGT
237318 GTTTAGGGACTAATCTTATAAATATCCTAAAGT
1 GTTTAGGGACTAATCTTATAAATATCCTAAAGT
237351 GTTTAGGGACTAATCTTATAAATATCCTAAAGT
1 GTTTAGGGACTAATCTTATAAATATCCTAAAGT
237384 GTTTAGGGACTAA
1 GTTTAGGGACTAA
237397 AGTGTAATTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
GTTTAGGGACTAATCTTATAAATATCCTAAAGT
Found at i:237812 original size:111 final size:111
Alignment explanation
Indices: 237618--237849 Score: 446
Period size: 111 Copynumber: 2.1 Consensus size: 111
237608 ATAACATTTA
*
237618 AGGGTGGGCACCGTCCATAAAATAAGTAACTAATTAAAGAAAACTTCTATTTCAGGATGGGCACG
1 AGGGTGGGCACCATCCATAAAATAAGTAACTAATTAAAGAAAACTTCTATTTCAGGATGGGCACG
237683 AAAAGTTTCAGGGTGGATGCCAGTGGCGGATCCAGAAATATTTTTT
66 AAAAGTTTCAGGGTGGATGCCAGTGGCGGATCCAGAAATATTTTTT
237729 AGGGTGGGCACCATCCATAAAATAAGTAACTAATTAAAGAAAACTTCTATTTCAGGATGGGCACG
1 AGGGTGGGCACCATCCATAAAATAAGTAACTAATTAAAGAAAACTTCTATTTCAGGATGGGCACG
237794 AAAAGTTTCAGGGTGGATGCCAGTGGCGGATCCAGAAATATTTTTT
66 AAAAGTTTCAGGGTGGATGCCAGTGGCGGATCCAGAAATATTTTTT
*
237840 AGGGTAGGCA
1 AGGGTGGGCA
237850 TATATAAATT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 119 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (111 bp):
AGGGTGGGCACCATCCATAAAATAAGTAACTAATTAAAGAAAACTTCTATTTCAGGATGGGCACG
AAAAGTTTCAGGGTGGATGCCAGTGGCGGATCCAGAAATATTTTTT
Found at i:240402 original size:20 final size:19
Alignment explanation
Indices: 240379--240430 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
240369 ACATATACGT
240379 ATATAATAATAAAAATAATA
1 ATATAATAATAAAAA-AATA
*
240399 ATATAATAGCATAAATAAATA
1 ATATAATA--ATAAAAAAATA
240420 A-ATAATAATAA
1 ATATAATAATAA
240431 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
20 14 0.48
21 5 0.17
22 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAATAATAAAAAAATA
Found at i:241807 original size:3 final size:3
Alignment explanation
Indices: 241801--241832 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
241791 GAGGAAAAAA
241801 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
241833 CAAATAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:241880 original size:19 final size:21
Alignment explanation
Indices: 241842--241880 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
241832 ACAAATAAAT
*
241842 TATATATTATATATTATTATA
1 TATATATAATATATTATTATA
241863 TATATATAATA-ATT-TTAT
1 TATATATAATATATTATTAT
241881 GTAAGGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATATAATATATTATTATA
Found at i:242349 original size:105 final size:101
Alignment explanation
Indices: 242145--242399 Score: 386
Period size: 105 Copynumber: 2.5 Consensus size: 101
242135 AGCAAATTGT
* * * * *
242145 GTTGTTTCGAGTCCGATGTCCTTCGTTGTGAAGTTGAAATTGAATCTGA-ATGAAATTTTGTTGA
1 GTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGATGAAATGTTGTTGA
242209 CAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 CAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
*
242245 GTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGATTGGGAAGTCGTTG
1 GTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGA-T--GAAAT-GTTG
242310 TTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
62 TTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * *
242350 ATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG
1 GTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAG
242400 TAAAACCTGC
Statistics
Matches: 141, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
100 45 0.32
101 1 0.01
102 1 0.01
104 4 0.03
105 90 0.64
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (101 bp):
GTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGATGAAATGTTGTTGA
CAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
Found at i:252669 original size:10 final size:10
Alignment explanation
Indices: 252644--252677 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
252634 AACGTTAGTA
*
252644 AAATAGAAAT
1 AAATAAAAAT
*
252654 AGATAAAAAT
1 AAATAAAAAT
252664 AAATAAAAAT
1 AAATAAAAAT
252674 AAAT
1 AAAT
252678 GGTAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:254004 original size:20 final size:19
Alignment explanation
Indices: 253981--254032 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
253971 ACATATACGT
253981 ATATAATAATAAAAATAATA
1 ATATAATAATAAAAA-AATA
*
254001 ATATAATAGCATAAATAAATA
1 ATATAATA--ATAAAAAAATA
254022 A-ATAATAATAA
1 ATATAATAATAA
254033 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
20 14 0.48
21 5 0.17
22 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAATAATAAAAAAATA
Found at i:255404 original size:3 final size:3
Alignment explanation
Indices: 255398--255429 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
255388 GAGGAAAAAA
255398 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
255430 CAAATAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:255722 original size:14 final size:15
Alignment explanation
Indices: 255691--255723 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
255681 GAAATAATAA
255691 ATAAAAAAATGTAAT
1 ATAAAAAAATGTAAT
*
255706 ATAAACAAATG-AAT
1 ATAAAAAAATGTAAT
255720 ATAA
1 ATAA
255724 TATACGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (15 bp):
ATAAAAAAATGTAAT
Found at i:257049 original size:13 final size:13
Alignment explanation
Indices: 257031--257062 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
257021 AATATTATAT
257031 ATATAATTATACA
1 ATATAATTATACA
*
257044 ATATAATTATATA
1 ATATAATTATACA
257057 ATATAA
1 ATATAA
257063 CAAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAATTATACA
Found at i:257065 original size:21 final size:22
Alignment explanation
Indices: 257010--257065 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
257000 ATGTAAAGAA
* *
257010 ATAATATTAATAATATTATATAT
1 ATAATA-TAACAATATAATATAT
257033 ATAAT-TATACAATATAAT-TAT
1 ATAATATA-ACAATATAATATAT
257054 ATAATATAACAA
1 ATAATATAACAA
257066 AATATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 14 0.48
22 10 0.34
23 5 0.17
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAATATAACAATATAATATAT
Found at i:257688 original size:106 final size:106
Alignment explanation
Indices: 257560--257876 Score: 481
Period size: 106 Copynumber: 3.0 Consensus size: 106
257550 GTATGGTTCC
* * * * * * *
257560 GAGTCCAATATCCTCCGCTGTGAAGTTGAAACTGGTTCTGGAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
257625 CCAGTAGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCAGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
257666 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
257731 CCAGCGGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTG
66 CCAGCAGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
*
257772 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * *
257837 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
66 CCAGCAGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
257877 TTTTTGACAA
Statistics
Matches: 193, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 193 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCAGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
Found at i:257930 original size:156 final size:156
Alignment explanation
Indices: 257724--258122 Score: 753
Period size: 156 Copynumber: 2.6 Consensus size: 156
257714 AAGTTGTTTG
* *
257724 TTGACAACCAGCGGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
257789 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCT
66 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCT
257854 GTGAAGTTGAGCTTGTGCTGTCTTTT
131 GTGAAGTTGAGCTTGTGCTGTCTTTT
* *
257880 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCA
1 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
*
257945 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGTCGGCCGCCCCTTCGCT
66 TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCT
258010 GTGAAGTTGAGCTTGTGCTGTCTTTT
131 GTGAAGTTGAGCTTGTGCTGTCTTTT
258036 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
258101 TTGTGAAGTTGAAATTGGCTCT
66 TTGTGAAGTTGAAATTGGCTCT
258123 AGGTAAAACT
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 236 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (156 bp):
TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCT
GTGAAGTTGAGCTTGTGCTGTCTTTT
Found at i:258917 original size:22 final size:21
Alignment explanation
Indices: 258876--258922 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
258866 CCTTGTTTTC
258876 TTTTCTTTTTCTTTCATTCTTT
1 TTTTCTTTTTCTTT-ATTCTTT
258898 TTTTCTCTTTTCCTTT-TTCTTT
1 TTTTCT-TTTT-CTTTATTCTTT
258920 TTT
1 TTT
258923 CAATTAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.65
23 4 0.17
24 4 0.17
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTTCTTTATTCTTT
Found at i:269019 original size:14 final size:15
Alignment explanation
Indices: 268988--269020 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
268978 GAAATAATAA
268988 ATAAAAAAATGTAAT
1 ATAAAAAAATGTAAT
*
269003 ATAAACAAATG-AAT
1 ATAAAAAAATGTAAT
269017 ATAA
1 ATAA
269021 TATACGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (15 bp):
ATAAAAAAATGTAAT
Found at i:283914 original size:15 final size:15
Alignment explanation
Indices: 283894--283923 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
283884 CAAATTATAT
283894 CTCTAAATTAGGAAA
1 CTCTAAATTAGGAAA
*
283909 CTCTAAGTTAGGAAA
1 CTCTAAATTAGGAAA
283924 GATATTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (15 bp):
CTCTAAATTAGGAAA
Found at i:284838 original size:26 final size:26
Alignment explanation
Indices: 284809--284871 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
284799 CCAAGAAAAC
284809 TAGTTTCTTTGAGTAAATCAAGTACA
1 TAGTTTCTTTGAGTAAATCAAGTACA
284835 TAGTTTCTTTGAGTAAATCAAGTACA
1 TAGTTTCTTTGAGTAAATCAAGTACA
284861 TAGTTTCTTTG
1 TAGTTTCTTTG
284872 GTTGATCACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (26 bp):
TAGTTTCTTTGAGTAAATCAAGTACA
Found at i:299389 original size:89 final size:90
Alignment explanation
Indices: 299218--299389 Score: 199
Period size: 89 Copynumber: 1.9 Consensus size: 90
299208 CGAATCTCTA
* * * *
299218 CTGATTTACCCTGCAAAAATTTACAAAAATGAAACCAAGTTTCATTAGCACATCAAAGAAAACAG
1 CTGATTTACCCTCCAAAAATTAACAAAAATGAAACCAAATTTCATTAGCACATAAAAGAAAACAG
* *
299283 ATTCTCATAGTATATCCAAAGGCTT
66 ATTCTCATAATACATCCAAAGGCTT
* ** *
299308 CTGATTTACCCTCCATAAATTAAC-AAAATGAAA-CAAATTTCTATTCTCGCATAAAAGAAAACA
1 CTGATTTACCCTCCAAAAATTAACAAAAATGAAACCAAATTTC-ATTAGCACATAAAAGAAAACA
299371 GGTATTC-C-TAATACATCCA
65 -G-ATTCTCATAATACATCCA
299390 GAGTAAGAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
88 7 0.10
89 35 0.51
90 23 0.33
91 4 0.06
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (90 bp):
CTGATTTACCCTCCAAAAATTAACAAAAATGAAACCAAATTTCATTAGCACATAAAAGAAAACAG
ATTCTCATAATACATCCAAAGGCTT
Found at i:300499 original size:16 final size:14
Alignment explanation
Indices: 300468--300508 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
300458 TTTATTATTA
300468 ATTTAATTTTATAT
1 ATTTAATTTTATAT
300482 ATTTCAATTTTA-AT
1 ATTT-AATTTTATAT
*
300496 ATATAATTTTATA
1 ATTTAATTTTATA
300509 AAAAAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
15 7 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTAATTTTATAT
Found at i:300505 original size:13 final size:14
Alignment explanation
Indices: 300471--300508 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
300461 ATTATTAATT
*
300471 TAATTTTATATATT
1 TAATTTTATATATA
300485 TCAATTTTA-ATATA
1 T-AATTTTATATATA
300499 TAATTTTATA
1 TAATTTTATA
300509 AAAAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 7 0.33
14 7 0.33
15 7 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATTTTATATATA
Found at i:302238 original size:283 final size:286
Alignment explanation
Indices: 301728--302240 Score: 748
Period size: 283 Copynumber: 1.8 Consensus size: 286
301718 TTAATTTTTT
* *
301728 TTAATTTAATTACTTAAATTTCAAATTACTCCTAATTTATTCACTCTAACTTTCAAATTTATTTG
1 TTAATTTAATTACTTAAATTTCAAATTACTCCTAATTTATACACTCTAACTTCCAAATTTATTTG
* *
301793 TATTTTAATTATATACTAATAAAAATAATAATGAAAAATGTAATGTCATAAAAATTATTAATAAA
66 TATTTTAATTATATACTAATAAAAATAATAATGAAAAATATAATGTCATAAAAATTATTAACAAA
* * * * * * **
301858 ATAAATTAGAGTGATTAAAATATGAACAATTTGTAAGTCGAGTAGTTAAATTGAAAATTTTTAAA
131 ATAAATTAGAGTGATTAAAATATGAACAACTAGAAAGTCGAGCAATTAAATTAAAAAAATTTAAA
* *
301923 CTTTAGTGACTAAAATAGGAGTGAAAAGATAGTTTTAGTGATGAATGATATAGTTCCCTTAAAGT
196 CTTTAATGACCAAAATAGGAGTGAAAAGATAGTTTTAGTGATGAATGATATAGTTCCCTTAAAGT
301988 TTGAGGGCTATTTGTGTAGTTTACCC
261 TTGAGGGCTATTTGTGTAGTTTACCC
* *
302014 TTAATTTAATTACTTAACTTTCAAATTACTCCTAATTTA-ACACTCTACCTTCCAAATTTATTT-
1 TTAATTTAATTACTTAAATTTCAAATTACTCCTAATTTATACACTCTAACTTCCAAATTTATTTG
* * *
302077 TCATTTTAATTATATATTAAT-AAAATAATAAT-AATAATATCATGTCATAAAAATTATTAACAA
66 T-ATTTTAATTATATACTAATAAAAATAATAATGAAAAATATAATGTCATAAAAATTATTAACAA
* * *
302140 AATAAATTAGAGTGATTAAAACT-TGAGCAACTAGAAAGTTGAGCAATTAAGTTAAAAAAATTTA
130 AATAAATTAGAGTGATTAAAA-TATGAACAACTAGAAAGTCGAGCAATTAAATTAAAAAAATTTA
* **
302204 AACTTTAATGACCAAAATATGAGTGGGAAGATAGTTT
194 AACTTTAATGACCAAAATAGGAGTGAAAAGATAGTTT
302241 GATGAATGAT
Statistics
Matches: 200, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
283 110 0.55
284 13 0.06
285 39 0.19
286 38 0.19
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (286 bp):
TTAATTTAATTACTTAAATTTCAAATTACTCCTAATTTATACACTCTAACTTCCAAATTTATTTG
TATTTTAATTATATACTAATAAAAATAATAATGAAAAATATAATGTCATAAAAATTATTAACAAA
ATAAATTAGAGTGATTAAAATATGAACAACTAGAAAGTCGAGCAATTAAATTAAAAAAATTTAAA
CTTTAATGACCAAAATAGGAGTGAAAAGATAGTTTTAGTGATGAATGATATAGTTCCCTTAAAGT
TTGAGGGCTATTTGTGTAGTTTACCC
Found at i:302380 original size:32 final size:32
Alignment explanation
Indices: 302339--302404 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
302329 GTTATTCCTT
302339 GAGGTCTAGGGTTTAAGCACCAGAAATGTCAG
1 GAGGTCTAGGGTTTAAGCACCAGAAATGTCAG
*
302371 GAGGTCTAGGGTTTGAGCACCAGAAATGTCAG
1 GAGGTCTAGGGTTTAAGCACCAGAAATGTCAG
302403 GA
1 GA
302405 CAGGTGTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.21
Consensus pattern (32 bp):
GAGGTCTAGGGTTTAAGCACCAGAAATGTCAG
Found at i:307797 original size:24 final size:24
Alignment explanation
Indices: 307770--307818 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
307760 CTAGAAGGTC
307770 GGTTGATTTTCAAACTAAGGAGCT
1 GGTTGATTTTCAAACTAAGGAGCT
* *
307794 GGTTGATTTTCAAATTAAGGGGCT
1 GGTTGATTTTCAAACTAAGGAGCT
307818 G
1 G
307819 CTTTGAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (24 bp):
GGTTGATTTTCAAACTAAGGAGCT
Found at i:314177 original size:20 final size:20
Alignment explanation
Indices: 314149--314189 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
314139 ACTATTATTT
314149 TGACAAAAATA-ATAATTAAG
1 TGACAAAAATATA-AATTAAG
*
314169 TGACCAAAATATAAATTAAG
1 TGACAAAAATATAAATTAAG
314189 T
1 T
314190 AATATGTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (20 bp):
TGACAAAAATATAAATTAAG
Found at i:319561 original size:22 final size:22
Alignment explanation
Indices: 319533--319575 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
319523 TCAGCTGTTA
*
319533 TAACTCCTAAAATTATATCATG
1 TAACTCCTAAAATTAAATCATG
*
319555 TAACTCCTGAAATTAAATCAT
1 TAACTCCTAAAATTAAATCAT
319576 ACAACTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.35
Consensus pattern (22 bp):
TAACTCCTAAAATTAAATCATG
Found at i:319581 original size:22 final size:22
Alignment explanation
Indices: 319534--319592 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
319524 CAGCTGTTAT
* * **
319534 AACTCCTAAAATTATATCATGT
1 AACTCCTGAAATTAAATCATAC
319556 AACTCCTGAAATTAAATCATAC
1 AACTCCTGAAATTAAATCATAC
* *
319578 AACTCATGATATTAA
1 AACTCCTGAAATTAA
319593 CAGCTTATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (22 bp):
AACTCCTGAAATTAAATCATAC
Found at i:326232 original size:22 final size:22
Alignment explanation
Indices: 326185--326237 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
326175 TATTCAGCTG
* **
326185 ATATAACTCCTGAAATTATATT
1 ATATAACTCCTGAAATTAAACC
326207 ATATAACTCCTGAAATTAAACC
1 ATATAACTCCTGAAATTAAACC
326229 ATATAACTC
1 ATATAACTC
326238 ATGTAGCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATAACTCCTGAAATTAAACC
Found at i:327283 original size:3 final size:3
Alignment explanation
Indices: 327275--327317 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
327265 GTACCCACGA
* * * *
327275 TGT TGT TGT TGT TGT TGT TGT TGC TGC TGC TGT TGG TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
327318 CTCTCACCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.07, G:0.35, T:0.58
Consensus pattern (3 bp):
TGT
Found at i:329924 original size:21 final size:20
Alignment explanation
Indices: 329895--329939 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
329885 TTTTTTCACC
**
329895 AAAAAAACAAAAAAAGGCAA
1 AAAAAAACAAAAAAAACCAA
329915 AAAAATAACAAAAAAAACCAA
1 AAAAA-AACAAAAAAAACCAA
329936 AAAA
1 AAAA
329940 CCAAAATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.82, C:0.11, G:0.04, T:0.02
Consensus pattern (20 bp):
AAAAAAACAAAAAAAACCAA
Found at i:336976 original size:23 final size:23
Alignment explanation
Indices: 336943--336992 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
336933 AGAACTCGAT
*
336943 GTTATTGCTTAACGATAGTAGCA
1 GTTATTACTTAACGATAGTAGCA
*
336966 GTTATTACTTAACGATATTAGCA
1 GTTATTACTTAACGATAGTAGCA
336989 GTTA
1 GTTA
336993 ACTACTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (23 bp):
GTTATTACTTAACGATAGTAGCA
Found at i:347181 original size:23 final size:23
Alignment explanation
Indices: 347153--347205 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
347143 ATGATTATTT
347153 TTATTTTTAGTTTTAATATGATA
1 TTATTTTTAGTTTTAATATGATA
347176 TTATTTTTAGTTTTAATATGATA
1 TTATTTTTAGTTTTAATATGATA
347199 TTATTTT
1 TTATTTT
347206 ATGGTCAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (23 bp):
TTATTTTTAGTTTTAATATGATA
Found at i:351054 original size:12 final size:12
Alignment explanation
Indices: 351035--351081 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
351025 TCTGCCACGA
351035 TTTGAATTTCTT
1 TTTGAATTTCTT
*
351047 TCTGAATTTCTT
1 TTTGAATTTCTT
351059 TTTGAATTTCTT
1 TTTGAATTTCTT
351071 TTTGAATTTCT
1 TTTGAATTTCT
351082 CCCTCTAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.64
Consensus pattern (12 bp):
TTTGAATTTCTT
Found at i:360267 original size:35 final size:35
Alignment explanation
Indices: 360221--360288 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
360211 TACTTTTAAA
*
360221 GGACTCGAATTCAAATAATTATGTTTGGAGAATGC
1 GGACTCGAATTCAAATAATTATGTCTGGAGAATGC
*
360256 GGACTCGAATTCAAATAATTATGTCTGTAGAAT
1 GGACTCGAATTCAAATAATTATGTCTGGAGAAT
360289 ACATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (35 bp):
GGACTCGAATTCAAATAATTATGTCTGGAGAATGC
Found at i:367930 original size:15 final size:15
Alignment explanation
Indices: 367910--367942 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
367900 AAAATCTTTC
367910 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTTGAT
*
367925 TTTCCCTTTCTTGAT
1 TTTCCCGTTCTTGAT
367940 TTT
1 TTT
367943 TCTTGATTTC
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:0.06, C:0.24, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCCCGTTCTTGAT
Found at i:373834 original size:20 final size:20
Alignment explanation
Indices: 373795--373834 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
373785 ATAATTATAT
* * *
373795 AAATAATATTTTTTTTATTA
1 AAATAATATTTATATAATTA
373815 AAATAATATTTATATAATTA
1 AAATAATATTTATATAATTA
373835 TTATTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATAATATTTATATAATTA
Found at i:374764 original size:422 final size:422
Alignment explanation
Indices: 373980--374823 Score: 1573
Period size: 422 Copynumber: 2.0 Consensus size: 422
373970 TTTTTTATAA
373980 TTAATGTTAATATTTATTATTATTTTTAATTTAAATTTAGAATGAATTTATATTAATTATAAATT
1 TTAATGTTAATATTTATTATTATTTTTAATTTAAATTTAGAATGAATTTATATTAATTATAAATT
*
374045 TTTATAATGCATATTATTTAGGAAAATAATCGTATTTTAGAGATTTTTATTAAAAATCCACGTAT
66 TTTATAATGCATATTATTTAGGAAAATAATCGTATTTTAGAGACTTTTATTAAAAATCCACGTAT
374110 ACCGACACCACAACATATTTTGCCATATTTGTCTTCTGCTGGGTTCGGGTATATTGCAACAATTA
131 ACCGACACCACAACATATTTTGCCATATTTGTCTTCTGCTGGGTTCGGGTATATTGCAACAATTA
374175 TTGGCGGTTGCAAACTCGAACCTGTCCTAATTTCTGGATTGATTGAGAGGTGGAGGCCCAAGACA
196 TTGGCGGTTGCAAACTCGAACCTGTCCTAATTTCTGGATTGATTGAGAGGTGGAGGCCCAAGACA
*
374240 AACATATTTCATCTTTCATGTGGAGAGGCTACAATTACATTGGAGGATGTCTCTATGCATCTGGG
261 AACATATTTCATCTTTCATGTGGAGAGGCTACAATTACATTGGAGGATGTCTCTATGCATCTAGG
* *
374305 GCTTCCCGTCGATGGGAATATTATCTGTGGTATGGCGGATGGTGATTGGCAGTCAATGTATGTAT
326 GCTTCCCGTCGATGGGAATATTATCTGTGGTATGGCGGATGGTGATTGGCAGACAATGTATGGAT
* *
374370 TATCTTGGAGCTGCTTCGCCAGAGTTTAATGG
391 TATCTTGGAGCTACTCCGCCAGAGTTTAATGG
374402 TTAATGTTAATATTTATTATTATTTTTAATTTAAATTTAGAATGAATTTATATTAATTATAAATT
1 TTAATGTTAATATTTATTATTATTTTTAATTTAAATTTAGAATGAATTTATATTAATTATAAATT
374467 TTTATAATGCATATTATTTAGGAAAATAATCGTATTTTAGAGACTTTTATT-AAAATCCCACGTA
66 TTTATAATGCATATTATTTAGGAAAATAATCGTATTTTAGAGACTTTTATTAAAAAT-CCACGTA
* *
374531 TACCGACACCACAATATATTTTGCTATATTTGTCTTCTGCTGGGTTCGGGTATATTGCAACAATT
130 TACCGACACCACAACATATTTTGCCATATTTGTCTTCTGCTGGGTTCGGGTATATTGCAACAATT
*
374596 ATTGGCGGTTGCAAACTCGAACCTGTCCTAATTTCTGGATTGATTGAGAGGTGGAGGCCCGAGAC
195 ATTGGCGGTTGCAAACTCGAACCTGTCCTAATTTCTGGATTGATTGAGAGGTGGAGGCCCAAGAC
* *
374661 ACACATATTTCATCTTTCATGTGGAGATGCTACAATTACATTGGAGGATGTCTCTATGCATCTAG
260 AAACATATTTCATCTTTCATGTGGAGAGGCTACAATTACATTGGAGGATGTCTCTATGCATCTAG
374726 GGCTTCCCGTCGATGGGAATATTATCTGTGGTATGGCGGATGGTGATTGGCAGACAATGTATGGA
325 GGCTTCCCGTCGATGGGAATATTATCTGTGGTATGGCGGATGGTGATTGGCAGACAATGTATGGA
374791 TTATCTTGGAGCTACTCCGCCAGAGTTTAATGG
390 TTATCTTGGAGCTACTCCGCCAGAGTTTAATGG
374824 AGGTAGAATA
Statistics
Matches: 410, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
421 5 0.01
422 405 0.99
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (422 bp):
TTAATGTTAATATTTATTATTATTTTTAATTTAAATTTAGAATGAATTTATATTAATTATAAATT
TTTATAATGCATATTATTTAGGAAAATAATCGTATTTTAGAGACTTTTATTAAAAATCCACGTAT
ACCGACACCACAACATATTTTGCCATATTTGTCTTCTGCTGGGTTCGGGTATATTGCAACAATTA
TTGGCGGTTGCAAACTCGAACCTGTCCTAATTTCTGGATTGATTGAGAGGTGGAGGCCCAAGACA
AACATATTTCATCTTTCATGTGGAGAGGCTACAATTACATTGGAGGATGTCTCTATGCATCTAGG
GCTTCCCGTCGATGGGAATATTATCTGTGGTATGGCGGATGGTGATTGGCAGACAATGTATGGAT
TATCTTGGAGCTACTCCGCCAGAGTTTAATGG
Found at i:376089 original size:21 final size:21
Alignment explanation
Indices: 376063--376131 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
376053 TCATCTCCAA
*
376063 AGGGTTACATTCCTAGCCCTC
1 AGGGTTACATTCCTAGCCCCC
*
376084 AGGGTTACAATCCTAGCCCGCC
1 AGGGTTACATTCCTAGCCC-CC
* *
376106 A-GGTTACATGCCTAGCCCGC
1 AGGGTTACATTCCTAGCCCCC
376126 AGGGTT
1 AGGGTT
376132 TTATGACACC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.90
22 2 0.05
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (21 bp):
AGGGTTACATTCCTAGCCCCC
Found at i:376685 original size:34 final size:34
Alignment explanation
Indices: 376641--376713 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
376631 TTAAAAGTTT
* *
376641 TTAATATACAAATTATAGTATTCGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
* *
376675 TTAAAATACAAATTATGGTATTCAAAATTTAACA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
376709 TTAAA
1 TTAAA
376714 TTCAACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:377007 original size:63 final size:63
Alignment explanation
Indices: 376906--377030 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
376896 CAATGTCACG
*
376906 ACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAACA
1 ACCAACTTATCACTTAACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAACA
* * *
376969 ACCAA-TTGATCACTTAACATTTATTCAATTTATTCATAACATTTTATCCATTTTATTCAAAC
1 ACCAACTT-ATCACTTAACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAAC
377031 TTCACATAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
62 2 0.04
63 55 0.96
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.41
Consensus pattern (63 bp):
ACCAACTTATCACTTAACATTTATTCAATTTATCCATAACATTTTATCCAATATATTCAAACA
Found at i:377021 original size:22 final size:23
Alignment explanation
Indices: 376983--377027 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
376973 ATTGATCACT
376983 TAACATTTATTCAA-TTTATTCA
1 TAACATTTATTCAATTTTATTCA
*
377005 TAACATTT-TATCCATTTTATTCA
1 TAACATTTAT-TCAATTTTATTCA
377028 AACTTCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 11 0.55
23 8 0.40
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (23 bp):
TAACATTTATTCAATTTTATTCA
Done.