Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 304 of 318
Found at i:96443187 original size:132 final size:131
Alignment explanation
Indices: 96442772--96443291 Score: 521
Period size: 132 Copynumber: 4.0 Consensus size: 131
96442762 TAGAAAATAC
* * * * * *
96442772 GAGTGAAATTTCGAAGAGATATTCGATTGTTTAGAACAAACGAGAGATTGCAACCCAGCGCGATA
1 GAGTGAAATTT-GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * * **
96442837 GGGCACGATTCT-CGAATTGCCAAACATCGAACATAGCTTTTGTTTTAAAGGGTTTTTAATAA-A
65 GGGCACGATTCTGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAA-AAGA
96442900 CAT
129 CAT
* * * ** ** *
96442903 GAGTGAAAATCTAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATTATAACCCAGCACGATA
1 GAGTG-AAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * ** * * *
96442968 GGGCATGATTC-CCGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAGAGGATTTTTAGAAGAC
65 GGGCACGATTCTGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAAAGAC
*
96443032 CT
130 AT
* * * * *
96443034 GAATGGAATCTCGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACAC-ATT
1 GAGTGAAAT-TTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA-T
* *
96443098 AGGGTACGATTCTGCGAATTGCCAAATATCGAACT-TTGCCTTCGTTTTAAAGAATTTTTAAAAG
64 AGGGCACGATTCTGCGAATTGCCAAACATCGAA-TATTGCCTTCGTTTTAAAGAATTTTTAAAAG
*
96443162 GCAT
128 ACAT
* * *
96443166 GAGTGAAAGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACAC-ATT
1 GAGTGAAA-TTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA-T
* * * * *
96443230 AGGGCACTATTCCGCGAATTGCCAAATATCGAATCTTGTCTTCGTTTTAAAGAATTTTTAAA
64 AGGGCACGATTCTGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAA
96443292 TGTATAATCA
Statistics
Matches: 323, Mismatches: 57, Indels: 17
0.81 0.14 0.04
Matches are distributed among these distances:
130 6 0.02
131 155 0.48
132 160 0.50
133 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (131 bp):
GAGTGAAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAG
GGCACGATTCTGCGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAAAGACA
T
Found at i:96448711 original size:73 final size:72
Alignment explanation
Indices: 96448571--96448712 Score: 221
Period size: 73 Copynumber: 2.0 Consensus size: 72
96448561 TTAAAATAAT
* * *
96448571 ATATCTTCATAATTCAATTATTTAAATTTGTTCTTGTTTTATCCCAATACAGTTTTTGCCTTCAA
1 ATATCTTCATAATTCAATTATTTAAATTTATTCTTGTTTTATCCAAATACACTTTTTGCCTTCAA
96448636 AAATCAC
66 AAATCAC
** *
96448643 ATATCTTGTTAATTTAATTATTTAAATTTATTCTTTGTTTTATCCAAATACACTTTTTGCCTTCA
1 ATATCTTCATAATTCAATTATTTAAATTTATTC-TTGTTTTATCCAAATACACTTTTTGCCTTCA
96448708 AAAAT
65 AAAAT
96448713 TAAAAGAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 29 0.46
73 34 0.54
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (72 bp):
ATATCTTCATAATTCAATTATTTAAATTTATTCTTGTTTTATCCAAATACACTTTTTGCCTTCAA
AAATCAC
Found at i:96454912 original size:32 final size:34
Alignment explanation
Indices: 96454876--96454940 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
96454866 TAACAGTGGT
*
96454876 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
96454908 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
96454941 TGGCCTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:96456820 original size:26 final size:26
Alignment explanation
Indices: 96456789--96456896 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
96456779 TGAAATGCCC
*
96456789 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96456815 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
96456841 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96456867 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96456893 ATCA
1 ATCA
96456897 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96458788 original size:12 final size:13
Alignment explanation
Indices: 96458769--96458809 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
96458759 TTTTAAAATT
96458769 AAAAAA-TTATAA
1 AAAAAAGTTATAA
* *
96458781 ACAAAATTTATAA
1 AAAAAAGTTATAA
96458794 AAAAAAGTTATAA
1 AAAAAAGTTATAA
96458807 AAA
1 AAA
96458810 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAAAAGTTATAA
Found at i:96461856 original size:46 final size:46
Alignment explanation
Indices: 96461758--96461881 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
96461748 TAGATCAATG
* *
96461758 ATACAAATCTTATACCCCTGAGTTGTAGTGGGATGGATTGAAGATG
1 ATACAAATCTTATATCCCTGAGTTGTAGTGGGATGGATTGAAGATA
*
96461804 ATACAAATCCTATATCCCTGAGTTGTAGTGGGATGGA-TGAAAGA-A
1 ATACAAATCTTATATCCCTGAGTTGTAGTGGGATGGATTG-AAGATA
* * *
96461849 ATCACAAATTTTATCTCCCTGAAGTTGCAGTGG
1 AT-ACAAATCTTATATCCCTG-AGTTGTAGTGG
96461882 AGCATATCGA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 4 0.06
46 54 0.79
47 10 0.15
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (46 bp):
ATACAAATCTTATATCCCTGAGTTGTAGTGGGATGGATTGAAGATA
Found at i:96461918 original size:50 final size:50
Alignment explanation
Indices: 96461853--96462027 Score: 173
Period size: 50 Copynumber: 3.6 Consensus size: 50
96461843 AAAGAAATCA
*
96461853 CAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
* * * * *
96461903 CCAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTGAAG----C--CG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
* * * * * * *
96461947 CAAATTTTATCTCCTTGAAGTCGTAGTGGAGTATATCAAATTTATCATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
* *
96461997 CAAATCTTATCTCCTTTAAGTTGCAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
96462028 TAGATTAAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
44 31 0.32
46 1 0.01
48 1 0.01
50 64 0.66
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
Found at i:96461956 original size:94 final size:94
Alignment explanation
Indices: 96461853--96462039 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 94
96461843 AAAGAAATCA
* * *
96461853 CAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGGCCAATCTTATCTCCC
1 CAAATTTTATCTCCCTGAAGTCGCAGTGGAGCATATCAAAGTTATCATGGCAAATCTTATCTCCC
* *
96461918 TGAAGTTGCGGTGGAGCAGATTGAAGCCG
66 TGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * *
96461947 CAAATTTTATCTCCTTGAAGTCGTAGTGGAGTATATCAAATTTATCATGGCAAATCTTATCTCCT
1 CAAATTTTATCTCCCTGAAGTCGCAGTGGAGCATATCAAAGTTATCATGGCAAATCTTATCTCCC
* *
96462012 TTAAGTTGCAGTGGAGTAGATTAAAGCC
66 TGAAGTTGCAGTGGAGCAGATTAAAGCC
96462040 ACGAACCTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (94 bp):
CAAATTTTATCTCCCTGAAGTCGCAGTGGAGCATATCAAAGTTATCATGGCAAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAGATTAAAGCCG
Found at i:96462306 original size:44 final size:44
Alignment explanation
Indices: 96462232--96462387 Score: 177
Period size: 44 Copynumber: 3.5 Consensus size: 44
96462222 TATCATGGCG
* * **
96462232 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATGGAAGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * ** * * **
96462276 AACCTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
*
96462321 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
*
96462365 AATCTTATCTCCTTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
96462388 AATGTGTAGA
Statistics
Matches: 88, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 55 0.62
45 33 0.38
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
Found at i:96462340 original size:45 final size:45
Alignment explanation
Indices: 96462279--96462429 Score: 128
Period size: 45 Copynumber: 3.4 Consensus size: 45
96462269 AGCCATTAAC
* * ** *
96462279 CTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTTCAAATGGAGCAGATTGAAGATAGCAAAT
* **
96462324 CTTATCTCCCTAAAGTTGC-AGTGGAGCAGATTGAAGCCA-CAAAT
1 CTTATCTCCCTAAAGTT-CAAATGGAGCAGATTGAAGATAGCAAAT
* * * * *
96462368 CTTATCTCCTTGAAGTTGCAAAT-GTGTAGACTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTT-CAAATGGAGCAGATTGAAGATAGCAAAT
* *
96462413 CTTATTTTCCTAAAGTT
1 CTTATCTCCCTAAAGTT
96462430 GCAAGGAAGA
Statistics
Matches: 84, Mismatches: 19, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
44 33 0.39
45 51 0.61
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (45 bp):
CTTATCTCCCTAAAGTTCAAATGGAGCAGATTGAAGATAGCAAAT
Found at i:96462383 original size:89 final size:89
Alignment explanation
Indices: 96462232--96462432 Score: 260
Period size: 89 Copynumber: 2.3 Consensus size: 89
96462222 TATCATGGCG
* **
96462232 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATGGAAGCCATTAACCTTATCTCCTTGAAGTT-
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATGGAAGCCACAAACCTTATCTCCTTGAAGTTG
** **
96462296 TTAATGGAGCAGGTTGAAGATAGCA
66 CAAAT-GAGCAGACTGAAGATAGCA
* * *
96462321 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATGGAAGCCACAAACCTTATCTCCTTGAAGTTG
* *
96462386 CAAATGTGTAGACTGAAGATAGCA
66 CAAATGAGCAGACTGAAGATAGCA
* *
96462410 AATCTTATTTTCCTAAAGTTGCA
1 AATCTTATCTCCCTAAAGTTGCA
96462433 AGGAAGAAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 94 0.97
90 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATGGAAGCCACAAACCTTATCTCCTTGAAGTTG
CAAATGAGCAGACTGAAGATAGCA
Found at i:96462403 original size:44 final size:45
Alignment explanation
Indices: 96462232--96462433 Score: 142
Period size: 44 Copynumber: 4.5 Consensus size: 45
96462222 TATCATGGCG
* * * * **
96462232 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TGGAAGCCA-TT
1 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGACT-GAAGACAGCA
* * * ** ** *
96462276 AACCTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCA
1 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACAGCA
* * *
96462321 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
1 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACAGCA
* * * * *
96462365 AATCTTATCTCCTTGAAGTTGCAAAT-GTGTAGACTGAAGATAGCA
1 AATCTTATCTCCCTAAAGTTGC-AATGGAGCAGACTGAAGACAGCA
* *
96462410 AATCTTATTTTCCTAAAGTTGCAA
1 AATCTTATCTCCCTAAAGTTGCAA
96462434 GGAAGAAGAT
Statistics
Matches: 122, Mismatches: 32, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
44 66 0.54
45 56 0.46
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACAGCA
Found at i:96464161 original size:26 final size:26
Alignment explanation
Indices: 96464066--96464202 Score: 99
Period size: 26 Copynumber: 5.4 Consensus size: 26
96464056 ATCTTTTTAA
* *
96464066 ATTATTTATGTTAAACTGTTTTATAT
1 ATTATTTATTTTAAACTATTTTATAT
* *
96464092 ATTTTGCTTA-TTT--ATTA-TTTATAT
1 ATTAT--TTATTTTAAACTATTTTATAT
*
96464116 A-TA-TTATTTTAAACAATTTTATAT
1 ATTATTTATTTTAAACTATTTTATAT
** *
96464140 ATTATTTATTTT-AGGTATTTTTACAT
1 ATTATTTATTTTAAACTA-TTTTATAT
* * *
96464166 ATTAGTTCTTTTAAACTATTTTATGT
1 ATTATTTATTTTAAACTATTTTATAT
96464192 ATTATTTATTT
1 ATTATTTATTT
96464203 AAAATTGCTT
Statistics
Matches: 82, Mismatches: 19, Indels: 20
0.68 0.16 0.17
Matches are distributed among these distances:
20 3 0.04
21 3 0.04
23 3 0.04
24 16 0.20
25 6 0.07
26 43 0.52
27 5 0.06
28 3 0.04
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTAAACTATTTTATAT
Found at i:96464323 original size:16 final size:16
Alignment explanation
Indices: 96464298--96464349 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
96464288 TTTTAAACTG
*
96464298 TTTTACATATTATTTA
1 TTTTAAATATTATTTA
96464314 TTTTAAATA-T-TTT-
1 TTTTAAATATTATTTA
*
96464327 TTTTATATATTATTTA
1 TTTTAAATATTATTTA
*
96464343 CTTTAAA
1 TTTTAAA
96464350 CTTATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
15 4 0.14
16 13 0.45
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:96467946 original size:26 final size:25
Alignment explanation
Indices: 96467917--96467981 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
96467907 AAAAATAAGT
96467917 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
96467943 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
96467968 -TATATTTATATATA
1 GTATATGTATATATA
96467982 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:96469060 original size:20 final size:20
Alignment explanation
Indices: 96469020--96469060 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
96469010 TGGTGGTTGC
*
96469020 GGCGGTGGCAGGGAGTTGGT
1 GGCGGTGGCAGGGAGTAGGT
96469040 GGCGGTGGCAGAGG-GTAGGT
1 GGCGGTGGCAG-GGAGTAGGT
96469060 G
1 G
96469061 ATGGGTGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.12, C:0.10, G:0.61, T:0.17
Consensus pattern (20 bp):
GGCGGTGGCAGGGAGTAGGT
Found at i:96469143 original size:46 final size:46
Alignment explanation
Indices: 96469090--96469179 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
96469080 TTAGGGGTTA
* *
96469090 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGTGCTTTG
1 GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTTTG
96469136 GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTT
1 GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTT
96469180 GTACATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.06, C:0.11, G:0.39, T:0.44
Consensus pattern (46 bp):
GGTCTGTTTTGGGTCTTGGGTTTGGGCTAGTTCAGATTGGGCTTTG
Found at i:96470199 original size:13 final size:15
Alignment explanation
Indices: 96470170--96470209 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
96470160 GATTGGAGGC
* *
96470170 TTTCAATTTTATTAT
1 TTTCAAATTTATTAA
96470185 TATTCAAATTTATTAA
1 T-TTCAAATTTATTAA
96470201 TTTCAAATT
1 TTTCAAATT
96470210 AGATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTCAAATTTATTAA
Found at i:96477120 original size:25 final size:25
Alignment explanation
Indices: 96477086--96477140 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
96477076 CCTCCAGCCC
96477086 TCTTCCTATACCCTTCCTACAAGTT
1 TCTTCCTATACCCTTCCTACAAGTT
* *
96477111 TCTTGCTATACCCTTCTTACAAGTT
1 TCTTCCTATACCCTTCCTACAAGTT
96477136 TCTTC
1 TCTTC
96477141 AAATTATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.05, T:0.44
Consensus pattern (25 bp):
TCTTCCTATACCCTTCCTACAAGTT
Found at i:96489575 original size:11 final size:11
Alignment explanation
Indices: 96489559--96489586 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96489549 GTTTCGTATT
96489559 TATTTACCTAA
1 TATTTACCTAA
96489570 TATTTACCTAA
1 TATTTACCTAA
96489581 TATTTA
1 TATTTA
96489587 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTACCTAA
Found at i:96501407 original size:44 final size:44
Alignment explanation
Indices: 96501344--96501721 Score: 216
Period size: 44 Copynumber: 8.5 Consensus size: 44
96501334 TAGTAGAAAG
* *
96501344 TCTTATCTCCTTGAAGTTGTAGTGGAGAATATTGAAGTTATAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
* * * * * *
96501388 TCTTATCTCCTTAAAGTTGTAGTGGAGTAGATCT-AAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATAT-TGAAGTTA-TAAA
* * * * * *
96501433 TCTTGTCT-CTCTGAAGTTGCAGTAGAGCATATTAAAGCTATAAG
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
96501477 TCTTATCTTCC-TGAAGTTGCAGTGGAGCAA-ATTGAAGTTATAAA
1 TCTTATC-TCCTTGAAGTTGCAGTGGAG-AATATTGAAGTTATAAA
* * * * *
96501521 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATAT-TGAAGTTA-TAAA
* * * * *
96501566 TCTTATCT-CTCTGAAGTTACAGTAGA-ACAGATTAAAGCTATAAA
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGA-ATATTGAAGTTATAAA
* * * * * * ** *
96501610 CCTTATCT-CTCTGAATTTGTAATAGAGCAGGTTGAAGTTATAGA
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
* * * * ** *
96501654 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGATAGTAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTA-TAAA
*
96501699 TATTATCT-CTCTGAAGTTGCAGT
1 TCTTATCTCCT-TGAAGTTGCAGT
96501722 AGAACAGAAT
Statistics
Matches: 262, Mismatches: 54, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
43 4 0.02
44 168 0.64
45 89 0.34
46 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (44 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTATAAA
Found at i:96501494 original size:89 final size:88
Alignment explanation
Indices: 96501344--96501776 Score: 340
Period size: 89 Copynumber: 4.9 Consensus size: 88
96501334 TAGTAGAAAG
* * * * * * *
96501344 TCTTATCTC-CTTGAAGTTGTAGTGGAGAATATTGAAGTTAT-AGATCTTATC-TCCTTAAAGTT
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGCTATAAG-TCTTATCTTCC-TGAAGTT
* *
96501406 GTAGTGGAGTAGATCT-AAGATAGCAAA
63 GCAGTGGAGTAGAT-TAAAGATA-TAAA
* *
96501433 TCTTGTCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTATAAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAGTCTTATCTTCCTGAAGTTGCA
* * * *
96501498 GTGGAGCAAATTGAAGTTATAAA
66 GTGGAGTAGATTAAAGATATAAA
* * * * * *
96501521 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AAGATAGCAAATCTTATC-TCTCTGAAGTT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-TAAAGCTA-TAAGTCTTATCTTC-CTGAAGTT
* * ** *
96501584 ACAGTAGAACAGATTAAAGCTATAAA
63 GCAGTGGAGTAGATTAAAGATATAAA
* * * * * * * * *
96501610 CCTTATCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTAT-AGACCTTATCTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAG-TCTTATCTTCCTGAAGTTGC
*
96501674 AGTGGAGTAGATCAAAGATAGTAAA
65 AGTGGAGTAGATTAAAGATA-TAAA
* * * * * * *
96501699 TATTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAGCTATAAGTATTATCTCCCTAAAGTTACA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAGTCTTATCTTCCTGAAGTTGCA
96501764 GTGGAGTAGATTA
66 GTGGAGTAGATTA
96501777 TCTCCCTAAA
Statistics
Matches: 272, Mismatches: 60, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
87 1 0.00
88 69 0.25
89 194 0.71
90 8 0.03
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (88 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAGTCTTATCTTCCTGAAGTTGCA
GTGGAGTAGATTAAAGATATAAA
Found at i:96501538 original size:133 final size:132
Alignment explanation
Indices: 96501341--96501769 Score: 581
Period size: 133 Copynumber: 3.2 Consensus size: 132
96501331 TCTTAGTAGA
* * *
96501341 AAGTCTTATCTCCTTGAAGTTGTAGTGGAG-AATATTGAAGTTATAGATCTTATCTCCTTAAAGT
1 AAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAA-ATTGAAGTTATAGATCTTATCTCCCTGAAGT
* * * *
96501405 TGTAGTGGAGTAGATCTAAGATAGCAAATCTTGTCTCTCTGAAGTTGCAGTAGAGCATATTAAAG
64 TGCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAG
96501470 CTAT
129 CTAT
*
96501474 AAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTT
1 AAGTCTTATC-TCCTGAAGTTGCAGTGGAGCAAATTGAAGTTATAGATCTTATCTCCCTGAAGTT
*
96501539 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTAAAGC
65 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
96501604 TAT
130 TAT
** * * * * ** *
96501607 AAACCTTATCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTATAGACCTTATCTCCCTGAAGTT
1 AAGTCTTATCTC-CTGAAGTTGCAGTGGAGCAAATTGAAGTTATAGATCTTATCTCCCTGAAGTT
* * * *
96501672 GCAGTGGAGTAGATCAAAGATAGTAAATATTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAGC
65 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
96501737 TAT
130 TAT
* * *
96501740 AAGTATTATCTCCCTAAAGTTACAGTGGAG
1 AAGTCTTATCT-CCTGAAGTTGCAGTGGAG
96501770 TAGATTATCT
Statistics
Matches: 259, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
132 2 0.01
133 251 0.97
134 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (132 bp):
AAGTCTTATCTCCTGAAGTTGCAGTGGAGCAAATTGAAGTTATAGATCTTATCTCCCTGAAGTTG
CAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGCT
AT
Found at i:96501760 original size:44 final size:44
Alignment explanation
Indices: 96501430--96501765 Score: 255
Period size: 44 Copynumber: 7.6 Consensus size: 44
96501420 CTAAGATAGC
* * * *
96501430 AAATCTTGTCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATAAAGCTAT
* * * * *
96501474 AAGTCTTATCTTCCTGAAGTTGCAGTGGAGCA-AATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAA-TAAAGCTAT
* * * * *
96501518 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAG-ATCTAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAAT-AAAGCTA-T
* * * *
96501563 AAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATAAAGCTAT
* * * * * ** * *
96501607 AAACCTTATCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATAAAGCTAT
* * * * *
96501651 AGACCTTATCTCCCTGAAGTTGCAGTGGAGTAG-ATCAAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAAT-AAAGCTA-T
* * *
96501696 AAATATTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATAAAGCTAT
* * * *
96501740 AAGTATTATCTCCCTAAAGTTACAGT
1 AAATCTTATCTCCCTGAAGTTGCAGT
96501766 GGAGTAGATT
Statistics
Matches: 230, Mismatches: 54, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
43 3 0.01
44 158 0.69
45 66 0.29
46 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAATAAAGCTAT
Found at i:96502064 original size:44 final size:44
Alignment explanation
Indices: 96502011--96502125 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 44
96502001 ATCTTATCTC
* *
96502011 TCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA-CCT-TACCT
1 TCTGAAGTTGCAGTAGAGCAGATTAAAGCGATAAATCCTATA-CA
* * *
96502054 TCCTGAAGTTGCAGTGGAGCGGATTAAAGCGGTAAATCCTATACA
1 T-CTGAAGTTGCAGTAGAGCAGATTAAAGCGATAAATCCTATACA
96502099 TCTGAAGTTGCAGTAG-GTCAGATTAAA
1 TCTGAAGTTGCAGTAGAG-CAGATTAAA
96502126 TCTACCATAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.03
44 52 0.85
45 5 0.08
46 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTGAAGTTGCAGTAGAGCAGATTAAAGCGATAAATCCTATACA
Found at i:96502069 original size:89 final size:89
Alignment explanation
Indices: 96501909--96502072 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
96501899 ACCATAACTA
* * * * * * *
96501909 CAAACCTTATCTCCTTGCAGTTGCAATAGAGCAGGTTGAAGTTATAGATCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCTTGAAGTTGCAATAGAGCAGATTAAAGCTATAAACCTTACCTCCCTGAAGT
96501974 TACAGTGGAGTAGATTAACTATAG
66 TACAGTGGAGTAGATTAACTATAG
* * *
96501998 CAAATCTTATCT-CTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTACCTTCCTGAAG
1 CAAACCTTATCTCCT-TGAAGTTGCAATAGAGCAGATTAAAGCTATAAACCTTACCTCCCTGAAG
*
96502062 TTGCAGTGGAG
65 TTACAGTGGAG
96502073 CGGATTAAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
88 2 0.03
89 61 0.97
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (89 bp):
CAAACCTTATCTCCTTGAAGTTGCAATAGAGCAGATTAAAGCTATAAACCTTACCTCCCTGAAGT
TACAGTGGAGTAGATTAACTATAG
Found at i:96503814 original size:11 final size:11
Alignment explanation
Indices: 96503798--96503825 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96503788 TTTTGGTATT
96503798 TATTTACCTAA
1 TATTTACCTAA
96503809 TATTTACCTAA
1 TATTTACCTAA
96503820 TATTTA
1 TATTTA
96503826 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTACCTAA
Found at i:96503847 original size:21 final size:22
Alignment explanation
Indices: 96503823--96503872 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
96503813 TACCTAATAT
96503823 TTATTTTATTT-TATCATTTTA
1 TTATTTTATTTATATCATTTTA
* *
96503844 TTA-TTCATTTATATCCTTTTA
1 TTATTTTATTTATATCATTTTA
*
96503865 TAATTTTA
1 TTATTTTA
96503873 AAAATTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.26
21 14 0.61
22 3 0.13
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTATTTATATCATTTTA
Found at i:96507803 original size:16 final size:17
Alignment explanation
Indices: 96507706--96507827 Score: 64
Period size: 17 Copynumber: 7.4 Consensus size: 17
96507696 ATATTTTATC
96507706 TATTATATTATTATATA
1 TATTATATTATTATATA
* *
96507723 TGTT-TAATTTTTATTATA
1 TATTAT-ATTATTA-TATA
*
96507741 TATTAT-TTA-TATCTA
1 TATTATATTATTATATA
* *
96507756 TATTACATGTTTTA-ATA
1 TATTATAT-TATTATATA
*
96507773 CATGT-TATT-TT-TATA
1 TAT-TATATTATTATATA
96507788 TATTATA-TATTATATA
1 TATTATATTATTATATA
*
96507804 TTATTCATATTATTACATA
1 -TATT-ATATTATTATATA
96507823 T-TTAT
1 TATTAT
96507828 TTACAAAGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 29
0.66 0.10 0.24
Matches are distributed among these distances:
14 2 0.03
15 19 0.24
16 11 0.14
17 24 0.30
18 14 0.18
19 9 0.11
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTATATTATTATATA
Found at i:96507824 original size:7 final size:7
Alignment explanation
Indices: 96507695--96507807 Score: 56
Period size: 7 Copynumber: 16.4 Consensus size: 7
96507685 TGCATTTTAC
*
96507695 TATATTT
1 TATATAT
*
96507702 TATCTAT
1 TATATAT
96507709 TATATTAT
1 TATA-TAT
96507717 TATATAT
1 TATATAT
*
96507724 GTTTA-AT
1 -TATATAT
*
96507731 T-TTTAT
1 TATATAT
96507737 TATATAT
1 TATATAT
*
96507744 TATTTAT
1 TATATAT
*
96507751 ATCTATAT
1 -TATATAT
* *
96507759 TACATGT
1 TATATAT
*
96507766 T-T-TAA
1 TATATAT
* *
96507771 TACATGT
1 TATATAT
*
96507778 TAT-TTT
1 TATATAT
96507784 TATATAT
1 TATATAT
96507791 TATATAT
1 TATATAT
96507798 TATATAT
1 TATATAT
96507805 TAT
1 TAT
96507808 TCATATTATT
Statistics
Matches: 77, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
5 3 0.04
6 9 0.12
7 50 0.65
8 15 0.19
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (7 bp):
TATATAT
Found at i:96507939 original size:23 final size:22
Alignment explanation
Indices: 96507906--96507967 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
96507896 TACCTATTAG
96507906 ATTATAATTATTTTATACATTCTT
1 ATTAT-ATTATTTTATACATT-TT
* * *
96507930 CTTATATTATATTATATATTTT
1 ATTATATTATTTTATACATTTT
*
96507952 ATTACATATATTTTAT
1 ATTATAT-TATTTTAT
96507968 TATTATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 7 0.23
23 20 0.65
24 4 0.13
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATATTATTTTATACATTTT
Found at i:96507944 original size:34 final size:34
Alignment explanation
Indices: 96507900--96507975 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
96507890 ATGAAATACC
* *
96507900 TATTAGATTATAATTATTTTA-TACAT-TCTTCTTA-
1 TATTATATTAT-A-TATTTTATTACATATATT-TTAT
96507934 TATTATATTATATATTTTATTACATATATTTTAT
1 TATTATATTATATATTTTATTACATATATTTTAT
96507968 TATTATAT
1 TATTATAT
96507976 GATTTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
32 7 0.19
33 9 0.24
34 21 0.57
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (34 bp):
TATTATATTATATATTTTATTACATATATTTTAT
Found at i:96507985 original size:14 final size:13
Alignment explanation
Indices: 96507932--96507987 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
96507922 ACATTCTTCT
96507932 TATA-TTATATTA
1 TATATTTATATTA
96507944 TATATTT-TATTACA
1 TATATTTATATT--A
96507958 TATATTTTATTATTA
1 TATA-TTTA-TATTA
96507973 TATGATTTATATTA
1 TAT-ATTTATATTA
96507987 T
1 T
96507988 TTTTATTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.22
13 2 0.05
14 11 0.30
15 11 0.30
16 1 0.03
17 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (13 bp):
TATATTTATATTA
Found at i:96507985 original size:17 final size:15
Alignment explanation
Indices: 96507939--96507988 Score: 66
Period size: 14 Copynumber: 3.3 Consensus size: 15
96507929 TCTTATATTA
96507939 TATTATATATTTTAT
1 TATTATATATTTTAT
*
96507954 TA-CATATATTTTAT
1 TATTATATATTTTAT
96507968 TATTATATGATTTATAT
1 TATTATAT-ATTT-TAT
96507985 TATT
1 TATT
96507989 TTTATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 13 0.43
15 6 0.20
16 4 0.13
17 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAT
Found at i:96510649 original size:15 final size:14
Alignment explanation
Indices: 96510625--96510669 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
96510615 AGCGTGTTTA
96510625 ATCTGGTATTTCTGT
1 ATCT-GTATTTCTGT
*
96510640 ATCTGTTATTTCTAT
1 ATCTG-TATTTCTGT
96510655 ATCTGT-TTTCTGT
1 ATCTGTATTTCTGT
96510668 AT
1 AT
96510670 ATGATTTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.30
14 2 0.07
15 17 0.63
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (14 bp):
ATCTGTATTTCTGT
Found at i:96511272 original size:17 final size:17
Alignment explanation
Indices: 96511230--96511274 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
96511220 GCGACTATTA
*
96511230 TCTAAAAACTAAAGTTTT
1 TCTAAAAA-TAAAGGTTT
96511248 TACT-AAAATAAAGGTTT
1 T-CTAAAAATAAAGGTTT
96511265 TCTAAAAATA
1 TCTAAAAATA
96511275 TGAACTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 15 0.62
18 5 0.21
19 2 0.08
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (17 bp):
TCTAAAAATAAAGGTTT
Found at i:96511825 original size:19 final size:20
Alignment explanation
Indices: 96511731--96511824 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 20
96511721 TTATTAAATT
96511731 TAAATAAAAATATAAAAAT--
1 TAAA-AAAAATATAAAAATCG
96511750 TAGAAAAAAATA-AAAAATCG
1 TA-AAAAAAATATAAAAATCG
* * *
96511770 TAAAAATATTATAAAAATTG
1 TAAAAAAAATATAAAAATCG
***
96511790 T-AAAATTTTATAAAAATCG
1 TAAAAAAAATATAAAAATCG
96511809 TAAAAAAAATATAAAA
1 TAAAAAAAATATAAAA
96511825 TACATCAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
18 6 0.10
19 33 0.53
20 23 0.37
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAAAAAAATATAAAAATCG
Found at i:96511990 original size:21 final size:21
Alignment explanation
Indices: 96511966--96512005 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96511956 TCAATAAAAG
* *
96511966 TTATAGAAAAATGTTAGAAGT
1 TTATAAAAAAATGATAGAAGT
96511987 TTATAAAAAAATGATAGAA
1 TTATAAAAAAATGATAGAA
96512006 AAAGGGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (21 bp):
TTATAAAAAAATGATAGAAGT
Found at i:96512222 original size:20 final size:20
Alignment explanation
Indices: 96512197--96512262 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
96512187 ACATAATAAT
96512197 TTTTATAATTTTTTTACGA-A
1 TTTTATAATTTTTTTAC-ATA
* *
96512217 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTTTTTACATA
*
96512236 TTTTATAATTTTCTTAC-TA
1 TTTTATAATTTTTTTACATA
*
96512255 CTTTATAA
1 TTTTATAA
96512263 AATTTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 23 0.61
20 14 0.37
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTTTTACATA
Found at i:96514967 original size:3 final size:3
Alignment explanation
Indices: 96514959--96514988 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96514949 CTAAAAATCC
96514959 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
96514989 TTTGCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:96516698 original size:58 final size:57
Alignment explanation
Indices: 96516647--96516810 Score: 142
Period size: 57 Copynumber: 2.9 Consensus size: 57
96516637 TTTTTATAGT
96516647 ATTATATATTATGATTT-TT-AATTCATA-TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTAAGAATTTTATTAA
* * **
96516704 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAA-AATATGGTTAA
1 ATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTAAGAATTTTATTAA
* * * * * * *
96516761 AATATTTATTTTTTTATTAACTTTTTTTAACAATAATCT-TATTAA-AATTT
1 ATTATATATTATTTTATTAAATTATATTAATAATAAT-TATATTAAGAATTT
96516811 AATAACAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
55 3 0.03
56 24 0.27
57 45 0.51
58 17 0.19
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTATATTAATAATAATTATATTAAGAATTTTATTAA
Found at i:96516997 original size:16 final size:16
Alignment explanation
Indices: 96516976--96517031 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
96516966 TGAATTACTG
* *
96516976 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCA
96516992 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
96517008 ATTACAAC-CATATTCC
1 ATTACAGCTC-TATTCA
96517024 ATTACAGC
1 ATTACAGC
96517032 CAATCAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:96517459 original size:55 final size:55
Alignment explanation
Indices: 96517375--96517484 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
96517365 ATTTATGCCG
96517375 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
1 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
96517430 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
1 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
96517485 TCTCAAGCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (55 bp):
AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
Found at i:96520308 original size:31 final size:31
Alignment explanation
Indices: 96520273--96520331 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
96520263 AAGCTATTTT
*
96520273 AAATTGAAATTAAGTAGA-AAATTTCAATTAA
1 AAATTCAAATTAAG-AGACAAATTTCAATTAA
* *
96520304 AAATTCAACTTTAGAGACAAATTTCAAT
1 AAATTCAAATTAAGAGACAAATTTCAAT
96520332 CAAACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (31 bp):
AAATTCAAATTAAGAGACAAATTTCAATTAA
Found at i:96523257 original size:14 final size:15
Alignment explanation
Indices: 96523240--96523268 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96523230 GAGTATGGTA
96523240 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
96523254 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
96523269 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:96525998 original size:5 final size:5
Alignment explanation
Indices: 96525990--96526016 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
96525980 TAGTATAATA
96525990 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
96526017 ATAAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:96533255 original size:25 final size:27
Alignment explanation
Indices: 96533218--96533270 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
96533208 TCAAACATGC
96533218 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
96533244 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
96533270 A
1 A
96533271 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:96534787 original size:26 final size:26
Alignment explanation
Indices: 96534756--96534860 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
96534746 TGAAATTCCC
96534756 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
96534782 ATCATGGAACATTTACCT-AACCA-T
1 ATCATGGAACATTTACCTAAACCATT
* *
96534806 ATCAT-GAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
96534831 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
96534857 ATCA
1 ATCA
96534861 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 11 0.15
24 10 0.14
25 11 0.15
26 40 0.56
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:96534830 original size:49 final size:50
Alignment explanation
Indices: 96534756--96534852 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 50
96534746 TGAAATTCCC
96534756 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAT
* *
96534806 ATCAT-GAATATTTACCTAATCCATTATCATGGAACATTTACCTAACC
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC
96534853 CATTATCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 40 0.89
50 5 0.11
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (50 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAT
Found at i:96554203 original size:14 final size:14
Alignment explanation
Indices: 96554184--96554213 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96554174 AAAAATACAT
96554184 AAAATTTTAATGCA
1 AAAATTTTAATGCA
*
96554198 AAAATTTTCATGCA
1 AAAATTTTAATGCA
96554212 AA
1 AA
96554214 GCAAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAATTTTAATGCA
Found at i:96554868 original size:26 final size:27
Alignment explanation
Indices: 96554822--96554880 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
96554812 AGGGGAGTCG
96554822 CGCCTCTGCAGCAGGAGCGACTGGTCA
1 CGCCTCTGCAGCAGGAGCGACTGGTCA
*
96554849 CGCCTCTGCA-CAGGAGCGACTGGTCG
1 CGCCTCTGCAGCAGGAGCGACTGGTCA
96554875 CGCCTC
1 CGCCTC
96554881 CAGGTCTGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.15, C:0.37, G:0.32, T:0.15
Consensus pattern (27 bp):
CGCCTCTGCAGCAGGAGCGACTGGTCA
Found at i:96555451 original size:27 final size:28
Alignment explanation
Indices: 96555390--96555453 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
96555380 AAATTTTTAA
96555390 AAATATATTTATAAAATATATTATTTGC
1 AAATATATTTATAAAATATATTATTTGC
*
96555418 ATCATAT-TTTATAAAA-ATA-TATTTGTCC
1 A-AATATATTTATAAAATATATTATTTG--C
96555446 AAATATAT
1 AAATATAT
96555454 AAAATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
26 6 0.20
27 7 0.23
28 13 0.43
29 4 0.13
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATATATTTATAAAATATATTATTTGC
Found at i:96555483 original size:9 final size:9
Alignment explanation
Indices: 96555446--96555483 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
96555436 ATATTTGTCC
96555446 AAATATATA
1 AAATATATA
*
96555455 AAATAAATA
1 AAATATATA
*
96555464 AAATCTA-A
1 AAATATATA
96555472 AAATATATA
1 AAATATATA
96555481 AAA
1 AAA
96555484 CGTATAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AAATATATA
Found at i:96558273 original size:15 final size:17
Alignment explanation
Indices: 96558253--96558297 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
96558243 ATTCATTATC
96558253 TTTGTA-AAA-AATATA
1 TTTGTATAAATAATATA
*
96558268 TTTGTATAAATATTATA
1 TTTGTATAAATAATATA
*
96558285 TTT-TTTAAATAAT
1 TTTGTATAAATAAT
96558298 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTGTATAAATAATATA
Found at i:96565310 original size:19 final size:17
Alignment explanation
Indices: 96565289--96565333 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
96565279 ATATCATATT
96565289 AATAAT-TAAATTTTTA
1 AATAATATAAATTTTTA
*
96565305 AATAATATATATTTTTAA
1 AATAATATAAATTTTT-A
96565323 AATATATATAA
1 AATA-ATATAA
96565334 TAAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 8 0.33
18 5 0.21
19 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATAATATAAATTTTTA
Found at i:96565320 original size:17 final size:16
Alignment explanation
Indices: 96565287--96565331 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
96565277 AAATATCATA
*
96565287 TTAATAAT-TAAATTT
1 TTAATAATATATATTT
96565302 TTAAATAATATATATTT
1 TT-AATAATATATATTT
96565319 TTAA-AATATATAT
1 TTAATAATATATAT
96565332 AATAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 11 0.41
16 8 0.30
17 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATATATATTT
Found at i:96565357 original size:25 final size:27
Alignment explanation
Indices: 96565296--96565358 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
96565286 ATTAATAATT
*
96565296 AAATTTTTA-AATAATATATATTTTTA
1 AAATTTTTATAATAAAATATATTTTTA
* *
96565322 AAATATATATAATAAAAT-TA-TTTTA
1 AAATTTTTATAATAAAATATATTTTTA
96565347 AAATTTTTATAA
1 AAATTTTTATAA
96565359 AAATAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 15 0.48
26 9 0.29
27 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATTTTTATAATAAAATATATTTTTA
Found at i:96565483 original size:17 final size:18
Alignment explanation
Indices: 96565450--96565484 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96565440 ATTTTATTCT
96565450 AAGTATTAAATAATAATA
1 AAGTATTAAATAATAATA
96565468 AAGTATTAAA-AATAATA
1 AAGTATTAAATAATAATA
96565485 CCCATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTATTAAATAATAATA
Found at i:96565578 original size:8 final size:8
Alignment explanation
Indices: 96565565--96565591 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
96565555 ACTTTCTCAT
96565565 TTTTTTTC
1 TTTTTTTC
96565573 TTTTTTTC
1 TTTTTTTC
96565581 TTTTTTTC
1 TTTTTTTC
96565589 TTT
1 TTT
96565592 CTATTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTC
Found at i:96566690 original size:16 final size:16
Alignment explanation
Indices: 96566661--96566700 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
96566651 AATTATCATG
96566661 TATATACATACATATA
1 TATATACATACATATA
* *
96566677 TATATTCATGCATATA
1 TATATACATACATATA
96566693 TATATACA
1 TATATACA
96566701 CCTCATAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (16 bp):
TATATACATACATATA
Found at i:96567829 original size:18 final size:18
Alignment explanation
Indices: 96567797--96567839 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
96567787 ATAACATGTG
* *
96567797 TTCAGTATCATTCAAACA
1 TTCAGTAGCAGTCAAACA
**
96567815 TTCAGTAGCAGTCAATTA
1 TTCAGTAGCAGTCAAACA
96567833 TTCAGTA
1 TTCAGTA
96567840 ACAATTAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (18 bp):
TTCAGTAGCAGTCAAACA
Found at i:96568031 original size:18 final size:18
Alignment explanation
Indices: 96568010--96568069 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
96568000 AATCGGTTAA
*
96568010 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
96568028 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
96568046 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
96568064 TCAGTA
1 TCAGTA
96568070 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:96569276 original size:17 final size:19
Alignment explanation
Indices: 96569242--96569279 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
96569232 AAACCTTTAA
96569242 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
96569261 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
96569278 TT
1 TT
96569280 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:96570079 original size:43 final size:43
Alignment explanation
Indices: 96570018--96570123 Score: 185
Period size: 43 Copynumber: 2.5 Consensus size: 43
96570008 TAATCTCGTC
*
96570018 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACTTGCA
1 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
96570061 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
1 GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
* *
96570104 GTTGAAATCTACCTTCGGCT
1 GTTGAAATCGACCTTTGGCT
96570124 GTGGGTGCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (43 bp):
GTTGAAATCGACCTTTGGCTATGGATACACAGCAGTACCTGCA
Found at i:96570794 original size:17 final size:17
Alignment explanation
Indices: 96570772--96570814 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96570762 TGTAGGGTGG
* **
96570772 TTGTGTGGCCCATATGC
1 TTGTGTGGCCCACACAC
*
96570789 TTGTGTAGCCCACACAC
1 TTGTGTGGCCCACACAC
96570806 TTGTGTGGC
1 TTGTGTGGC
96570815 TGACCATGTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.33
Consensus pattern (17 bp):
TTGTGTGGCCCACACAC
Found at i:96572901 original size:27 final size:26
Alignment explanation
Indices: 96572841--96572902 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
96572831 ATAAGACTCC
96572841 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
96572867 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
96572895 ATTTTATT
1 ATTTTATT
96572903 TTAATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:96583434 original size:20 final size:20
Alignment explanation
Indices: 96583378--96583445 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
96583368 ATTTTAGAAT
96583378 TTTTAGAATTTTTATAAA-TA
1 TTTT-GAATTTTTATAAATTA
*
96583398 TTTTCAA-TTTTATAAATTA
1 TTTTGAATTTTTATAAATTA
96583417 TTTTGAATTTTTGA-AAATTA
1 TTTTGAATTTTT-ATAAATTA
96583437 TTTTGAATT
1 TTTTGAATT
96583446 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.21
19 10 0.23
20 23 0.53
21 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTATAAATTA
Found at i:96603635 original size:26 final size:26
Alignment explanation
Indices: 96603604--96603711 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
96603594 TGAAATTCCC
*
96603604 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96603630 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
96603656 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96603682 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96603708 ATCA
1 ATCA
96603712 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96604141 original size:13 final size:13
Alignment explanation
Indices: 96604123--96604147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96604113 TATAAGTAAA
96604123 TATATTATTATAT
1 TATATTATTATAT
96604136 TATATTATTATA
1 TATATTATTATA
96604148 AATATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:96604161 original size:38 final size:38
Alignment explanation
Indices: 96604073--96604162 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
96604063 ACACGTGGAT
*
96604073 TAAT-TAAATACATATATTAGTAATTATTATTTACTTA
1 TAATATAAATAAATATATTAGTAATTATTATTTACTTA
* *
96604110 TAATATAAGTAAATATATTA-TTA-TATTATATTA-TTA
1 TAATATAAATAAATATATTAGTAATTATTAT-TTACTTA
96604146 TAAATATAAAATAAATA
1 T-AATAT-AAATAAATA
96604163 AATCAAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
36 10 0.22
37 14 0.31
38 21 0.47
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (38 bp):
TAATATAAATAAATATATTAGTAATTATTATTTACTTA
Found at i:96604440 original size:5 final size:5
Alignment explanation
Indices: 96604430--96604498 Score: 138
Period size: 5 Copynumber: 13.8 Consensus size: 5
96604420 TTAAGTAATA
96604430 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
96604480 TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATA
96604499 ATAATAAAGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 64 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:96610518 original size:25 final size:23
Alignment explanation
Indices: 96610476--96610545 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
96610466 GAGCTATAAT
*
96610476 CAGTAAGCTCCTCCTGAGCTGATGAA
1 CAGTAAGCT-CTACTGAGCTGA--AA
*
96610502 CAGTAAGCTCTATTGAGCTGAAA
1 CAGTAAGCTCTACTGAGCTGAAA
*
96610525 CGGTAAGCTCTGAC-GAGCTGA
1 CAGTAAGCTCT-ACTGAGCTGA
96610546 TTTATCGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 19 0.49
24 1 0.03
25 10 0.26
26 9 0.23
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (23 bp):
CAGTAAGCTCTACTGAGCTGAAA
Found at i:96613516 original size:23 final size:23
Alignment explanation
Indices: 96613490--96613546 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
96613480 GTTTTTGTGA
96613490 TCCGTATAAATGTGACACTTTTC
1 TCCGTATAAATGTGACACTTTTC
96613513 TCCGTATAAATGTGACACTTTTC
1 TCCGTATAAATGTGACACTTTTC
96613536 TCCGTATAAAT
1 TCCGTATAAAT
96613547 AGTGTCACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (23 bp):
TCCGTATAAATGTGACACTTTTC
Found at i:96617756 original size:23 final size:24
Alignment explanation
Indices: 96617730--96617778 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
96617720 AAGCTCAATT
96617730 GAGCTGAAA-C-GATAAGCTCTGAC
1 GAGCTGAAATCAG-TAAGCTCTGAC
96617753 GAGCTGAAATCAGTAAGCTCTGAC
1 GAGCTGAAATCAGTAAGCTCTGAC
96617777 GA
1 GA
96617779 TCTAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.38
24 14 0.58
25 1 0.04
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (24 bp):
GAGCTGAAATCAGTAAGCTCTGAC
Found at i:96620925 original size:39 final size:40
Alignment explanation
Indices: 96620868--96620946 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
96620858 CACTAAAGAT
* * * *
96620868 TGAGCATTAGTGGTGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
96620907 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
96620947 CCTTAGCCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 18 0.51
40 17 0.49
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
Found at i:96621047 original size:41 final size:40
Alignment explanation
Indices: 96620982--96621097 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
96620972 AACATTTCGT
*
96620982 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
96621023 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
96621064 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
96621098 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:96621339 original size:22 final size:22
Alignment explanation
Indices: 96621314--96621393 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
96621304 GAGTTACTGT
96621314 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
96621336 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
*
96621358 -TTATGGTTTAAT-G-GT-TGAGA
1 TTTAAGGTTT-ATGGAGTATG-GA
96621378 TTTAAGGTTTA-GGAGT
1 TTTAAGGTTTATGGAGT
96621394 TAGTGGTTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 18 0.40
22 21 0.47
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:96621360 original size:14 final size:15
Alignment explanation
Indices: 96621330--96621368 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
96621320 GTTTATGGAG
96621330 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
96621345 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
96621359 TATGG-TTTAA
1 TATGGATTTAA
96621369 TGGTTGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:96621411 original size:22 final size:22
Alignment explanation
Indices: 96621383--96621434 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
96621373 TGAGATTTAA
*
96621383 GGTTTAGGAGTT-AGTGGTTAGG
1 GGTTTAGGAGTTAAG-AGTTAGG
*
96621405 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGAGTTAAGAGTTAGG
*
96621427 GATTTAGG
1 GGTTTAGG
96621435 GTGTATGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (22 bp):
GGTTTAGGAGTTAAGAGTTAGG
Found at i:96621497 original size:12 final size:12
Alignment explanation
Indices: 96621476--96621518 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
96621466 TGGGTTTAGA
96621476 TTAA-TTATTTT
1 TTAATTTATTTT
96621487 TTAATTTATTTT
1 TTAATTTATTTT
* *
96621499 TAAATAT-TTTT
1 TTAATTTATTTT
96621510 TTAATTTAT
1 TTAATTTAT
96621519 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:96621513 original size:23 final size:24
Alignment explanation
Indices: 96621475--96621528 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
96621465 TTGGGTTTAG
*
96621475 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
96621497 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
96621521 ATTAAATA
1 ATTAAATA
96621529 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:96621749 original size:21 final size:21
Alignment explanation
Indices: 96621725--96621765 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
96621715 GATTTAAGGT
96621725 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
96621746 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
96621766 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:96621774 original size:21 final size:20
Alignment explanation
Indices: 96621722--96621775 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
96621712 TGGGATTTAA
96621722 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
96621743 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
96621764 GGATTTAGGGTT
1 GG-TTTAGGGTT
96621776 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:96626370 original size:43 final size:42
Alignment explanation
Indices: 96626323--96626568 Score: 226
Period size: 43 Copynumber: 5.8 Consensus size: 42
96626313 ATGGCACTTT
* * *
96626323 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTC-TGATCTA
*
96626366 TAGCGGCGTTTAT-AAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAAA-CGCCGCTAAAGGTC-TGATCTA
* **
96626409 TAGCGGCGTTTGTG-TAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGT-CTGATCTA
* ** ** *
96626451 TAGCGGCATTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGG-TCTGATCTA
** * * * *
96626494 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGT-CTGATCTA
** *
96626537 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAG
96626569 TTAGCGACGC
Statistics
Matches: 178, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
42 40 0.22
43 137 0.77
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTCTGATCTA
Found at i:96626448 original size:85 final size:86
Alignment explanation
Indices: 96626323--96626568 Score: 298
Period size: 85 Copynumber: 2.9 Consensus size: 86
96626313 ATGGCACTTT
* ** * * * * * ***
96626323 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
96626388 GCCGCTAAAGG-TCTTGATCTA
66 GCCGCTAAAGGTTC-TGATCTA
* * * *
96626409 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCATTTGTGGGAAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
*
96626473 GTCGCTAAAGGTTCTGATCTA
66 GCCGCTAAAGGTTCTGATCTA
* * *
96626494 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
96626559 GCCGCTAAAG
66 GCCGCTAAAG
96626569 TTAGCGACGC
Statistics
Matches: 135, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
85 68 0.50
86 67 0.50
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAGGTTCTGATCTA
Found at i:96626668 original size:22 final size:22
Alignment explanation
Indices: 96626640--96626682 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
96626630 CAGCGGCGCT
*
96626640 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
96626662 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
96626683 GTTTTCGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:96633294 original size:21 final size:22
Alignment explanation
Indices: 96633277--96633317 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96633267 CTGTTTTGTT
96633277 GTTG-TTTGCTAGC-ATTTTGAC
1 GTTGTTTTGCT-GCTATTTTGAC
96633298 GTTGTTTTGCTGCTATTTTG
1 GTTGTTTTGCTGCTATTTTG
96633318 CTATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.54
Consensus pattern (22 bp):
GTTGTTTTGCTGCTATTTTGAC
Found at i:96634380 original size:12 final size:12
Alignment explanation
Indices: 96634363--96634388 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96634353 AAAATAGGGC
96634363 TTTAGCGGCGTT
1 TTTAGCGGCGTT
96634375 TTTAGCGGCGTT
1 TTTAGCGGCGTT
96634387 TT
1 TT
96634389 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:96634494 original size:41 final size:40
Alignment explanation
Indices: 96634444--96634704 Score: 378
Period size: 41 Copynumber: 6.4 Consensus size: 40
96634434 CGTTTTACCA
* * *
96634444 AAAATGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGC-TTTTGGT
96634485 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
*
96634525 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGTTTTTTGGT
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCG-CTTTTGGT
96634567 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGT
* * *
96634608 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTTGGT
* * *
96634649 AAAACGCCGCTAAAAACCAGAGCAGTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGT
96634690 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
96634705 GTCATATAAT
Statistics
Matches: 206, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
40 22 0.11
41 144 0.70
42 40 0.19
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:96634643 original size:124 final size:122
Alignment explanation
Indices: 96634422--96634704 Score: 399
Period size: 124 Copynumber: 2.3 Consensus size: 122
96634412 TAAAAAAACG
* * * * *
96634422 GAGCAATAGCGGCGTTTTACCA-AAAATGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGTTA
1 GAGCAGTAGCGGCGCTTT-CGATAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGGTA
* *
96634486 AAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCA
65 AAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
* * * * *
96634544 GAGCATTAGCGGCGTTTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTTGGT
1 GAGCAGTAGCGGCG-CTTTCGATAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTTGGT
*
96634608 AAAACGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
64 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
96634668 GAGCAGTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
1 GAGCAGTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
96634705 GTCATATAAT
Statistics
Matches: 143, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
122 13 0.09
123 60 0.42
124 70 0.49
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (122 bp):
GAGCAGTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGGTAA
AACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
Found at i:96635231 original size:7 final size:7
Alignment explanation
Indices: 96635221--96635263 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
96635211 GGTTTAAGAT
*
96635221 TTAGGTG
1 TTAGGGG
*
96635228 TTAGGTG
1 TTAGGGG
96635235 TTAGGGG
1 TTAGGGG
96635242 TTAGGGG
1 TTAGGGG
96635249 TTAGGGG
1 TTAGGGG
*
96635256 TTAAGGG
1 TTAGGGG
96635263 T
1 T
96635264 GGGGGGTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.16, C:0.00, G:0.49, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:96635251 original size:21 final size:21
Alignment explanation
Indices: 96635204--96635263 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
96635194 GGTGGTTTAA
**
96635204 GGGTT-GGGGTTTAAGATTTAG
1 GGGTTAGGGG-TTAAGGGTTAG
* * *
96635225 GTGTTAGGTGTTAGGGGTTAG
1 GGGTTAGGGGTTAAGGGTTAG
96635246 GGGTTAGGGGTTAAGGGT
1 GGGTTAGGGGTTAAGGGT
96635264 GGGGGGTTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.35
Consensus pattern (21 bp):
GGGTTAGGGGTTAAGGGTTAG
Found at i:96635269 original size:21 final size:21
Alignment explanation
Indices: 96635227--96635271 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
96635217 AGATTTAGGT
* * *
96635227 GTTAGGTGTTAGGGGTTAGGG
1 GTTAGGGGTTAAGGGTGAGGG
*
96635248 GTTAGGGGTTAAGGGTGGGGG
1 GTTAGGGGTTAAGGGTGAGGG
96635269 GTT
1 GTT
96635272 CATGGTTCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.56, T:0.31
Consensus pattern (21 bp):
GTTAGGGGTTAAGGGTGAGGG
Found at i:96635489 original size:15 final size:15
Alignment explanation
Indices: 96635471--96635513 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
96635461 ATTATTTTAA
96635471 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
96635486 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
96635500 GATTTATGG-TTATG
1 GGTTTATGGATTATG
96635514 TAAGAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:96635491 original size:22 final size:22
Alignment explanation
Indices: 96635466--96635508 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
96635456 GAGTTATTAT
*
96635466 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGATTAT-GATTTATGGG
*
96635488 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGATTTATGG
96635509 TTATGTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGATTTATGGG
Found at i:96638023 original size:138 final size:138
Alignment explanation
Indices: 96637775--96638046 Score: 465
Period size: 138 Copynumber: 2.0 Consensus size: 138
96637765 TAATAATGTA
* * *
96637775 TGGATGCTTTGTGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATCTCTTTAAAAATTGGCA
1 TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
96637840 TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGAT
66 TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGAT
96637905 TTAACGTC
131 TTAACGTC
* *
96637913 TGGATGCTTT-TAGGAGTACTTGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGC
1 TGGATGCTTTGT-GGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGC
* *
96637977 ATTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
65 ATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGA
96638042 TTTAA
130 TTTAA
96638047 AATTTTAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
137 1 0.01
138 125 0.99
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (138 bp):
TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGAT
TTAACGTC
Found at i:96639196 original size:43 final size:43
Alignment explanation
Indices: 96639135--96639251 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
96639125 TAAAGACGCT
* * * *
96639135 CCGCTAAAGGTCAAGACCTCTAGCGGCGTTTGTGGGGAAAGTG
1 CCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGGGAAAAGCG
* *
96639178 CCGCTAAAGGTCTTGACCTATAGCAGCGTTTGTGGGAAAAGCG
1 CCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGGGAAAAGCG
* *
96639221 CTGCTAAAGGTCATGACCTTTAGCGGCGTTT
1 CCGCTAAAGGTCATGACCTATAGCGGCGTTT
96639252 TTTTAAATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGGGAAAAGCG
Found at i:96640164 original size:14 final size:15
Alignment explanation
Indices: 96640135--96640164 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96640125 GGCACAATCG
96640135 ATTTTTTTAATATTA
1 ATTTTTTTAATATTA
96640150 ATTTTTTTAAT-TTA
1 ATTTTTTTAATATTA
96640164 A
1 A
96640165 AAAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTTAATATTA
Found at i:96640286 original size:27 final size:27
Alignment explanation
Indices: 96640256--96640307 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
96640246 CCCGAAACCG
*
96640256 GTCGAGCCTGCCAGGTAGGCACGACTA
1 GTCGAGCCTGACAGGTAGGCACGACTA
*
96640283 GTCGTGCCTGACAGGTAGGCACGAC
1 GTCGAGCCTGACAGGTAGGCACGAC
96640308 ACCCCCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (27 bp):
GTCGAGCCTGACAGGTAGGCACGACTA
Found at i:96640480 original size:3 final size:3
Alignment explanation
Indices: 96640466--96640496 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
96640456 GAGAGAAAGG
*
96640466 AGA AGG AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
96640497 AAAAGGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:96640784 original size:92 final size:89
Alignment explanation
Indices: 96640688--96640858 Score: 222
Period size: 100 Copynumber: 1.8 Consensus size: 89
96640678 ACTAGGTTAC
96640688 AAATTGTTAGTG-TT-TAG-TGTATTAGTGTATTGTGATTTTTTTAGTAATAATATATTTTTTAA
1 AAATTGTTAGTGTTTATAGTTGTATTAGTGTATTGTGATTTTTTTAG---TAATATA---TTTAA
96640750 AAAATAATTTTATAGTTGATTAGGTTATAT
60 AAAATAATTTTATAGTTGATTAGGTTATAT
96640780 AAATTGTTAGTGTTTAGTAGTTTAATGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTAAA
1 AAATTGTTAGTGTTTA-TAG--T--TGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTAAA
96640845 AAATAATTTTATAG
61 AAATAATTTTATAG
96640859 CTATTTTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
92 12 0.17
93 2 0.03
94 20 0.28
95 3 0.04
97 7 0.10
100 27 0.38
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (89 bp):
AAATTGTTAGTGTTTATAGTTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTAAAAAATA
ATTTTATAGTTGATTAGGTTATAT
Found at i:96640894 original size:112 final size:115
Alignment explanation
Indices: 96640767--96641217 Score: 720
Period size: 113 Copynumber: 3.9 Consensus size: 115
96640757 TTTTATAGTT
*
96640767 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTA-ATGTATTAGTGTATTGTGA-TTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGATGTATTAGTGTATTGTGATTTTTTTT
96640830 AGTAATATA-TTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 AGTAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
96640879 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAG-TGTATTAGCGTATTGT-AATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGATGTATTAGTGTATTGTGATTTTTTTT
*
96640942 AGTAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 AGTAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
96640992 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGA-GTATTAGTGTATTGTGATTTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGATGTATTAGTGTATTGTGATTTTTTTT
* *
96641056 AGTAATATATTTTTAAAAAATATTTTTAGAGCTATTTTATTAGTAATTTAA
66 AGTAATATA-TTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
*
96641107 GATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGAATTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAG-ATGTATTAGTGTATTGTG-ATTTTTT
* *
96641170 TTAGTAATGTATTTTAAAAAATAATTTTATAGTTATTTTGTATTAGTA
64 TTAGTAATATATTTTAAAAAATAATTTTATAGCTA-TTT-TATTAGTA
96641218 TATGATTATA
Statistics
Matches: 315, Mismatches: 13, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
111 1 0.00
112 67 0.21
113 114 0.36
114 17 0.05
115 88 0.28
116 20 0.06
117 8 0.03
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (115 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGATGTATTAGTGTATTGTGATTTTTTTT
AGTAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:96641295 original size:15 final size:16
Alignment explanation
Indices: 96641266--96641297 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
96641256 TGTGATTTTT
96641266 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
96641282 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
96641297 T
1 T
96641298 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:96643837 original size:15 final size:17
Alignment explanation
Indices: 96643819--96643850 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96643809 TTTTAATTAA
96643819 ACAA-TATTT-TGACAT
1 ACAATTATTTCTGACAT
96643834 ACAATTATTTCTGACAT
1 ACAATTATTTCTGACAT
96643851 TTCTTCACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (17 bp):
ACAATTATTTCTGACAT
Found at i:96644086 original size:16 final size:15
Alignment explanation
Indices: 96644044--96644074 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
96644034 CATATTATCC
96644044 TTATATATTATATTTT
1 TTATATA-TATATTTT
96644060 TTATATATATATTTT
1 TTATATATATATTTT
96644075 GTTACTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATATATATTTT
Found at i:96645032 original size:131 final size:132
Alignment explanation
Indices: 96644790--96645072 Score: 388
Period size: 131 Copynumber: 2.2 Consensus size: 132
96644780 TTATTCATTC
** * *
96644790 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTACCCTAACGTG
* * *
96644855 TTGGATTGCAATTTCGCGTTTGCTCAAAATAATCTAATAGCACTTCAAAATTTCACTCACGTCTT
66 TTGGATTGCAATTTCGCGTTCGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
96644920 -T
131 CT
* * *
96644921 TAAAATTCTTCAAAACGAAGACGATATTTGATACTTAGCAATTCGCGGAATCGTACCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTACCCTAACGTG
* * * * * * *
96644986 TTGGGTTGCAATTTCGCGTTCGCTCAAAGTAATCGAGTATCCCTTCAAAATTTCATTCATATCTT
66 TTGGATTGCAATTTCGCGTTCGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
96645051 CT
131 CT
* *
96645053 AAAAATTATTTAAAACGAAG
1 AAAAATTCTTCAAAACGAAG
96645073 GCAACATTCA
Statistics
Matches: 131, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
131 113 0.86
132 18 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (132 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTACCCTAACGTG
TTGGATTGCAATTTCGCGTTCGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
CT
Found at i:96647576 original size:19 final size:19
Alignment explanation
Indices: 96647552--96647595 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
96647542 GAACGTAATT
96647552 ATAATAGTAAATGAAATAC
1 ATAATAGTAAATGAAATAC
96647571 ATAATAGTAAATGAAATAC
1 ATAATAGTAAATGAAATAC
96647590 ATAATA
1 ATAATA
96647596 AATCTGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (19 bp):
ATAATAGTAAATGAAATAC
Found at i:96654942 original size:3 final size:3
Alignment explanation
Indices: 96654934--96654958 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96654924 GGACAATTTG
96654934 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
96654959 AAGAACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:96662811 original size:7 final size:7
Alignment explanation
Indices: 96662799--96662851 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
96662789 TTGATATGTT
96662799 ATTTCAC
1 ATTTCAC
96662806 ATTTCAC
1 ATTTCAC
96662813 ATTTCAC
1 ATTTCAC
96662820 ATTTCAC
1 ATTTCAC
*
96662827 ATTTCCC
1 ATTTCAC
*
96662834 ATTTCCC
1 ATTTCAC
*
96662841 ATTTCCC
1 ATTTCAC
96662848 ATTT
1 ATTT
96662852 ACAGTTGTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTCAC
Found at i:96665104 original size:40 final size:40
Alignment explanation
Indices: 96665060--96665236 Score: 309
Period size: 40 Copynumber: 4.4 Consensus size: 40
96665050 GGCTCAGATG
*
96665060 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
96665100 TAATAACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
96665140 TAATAACCCGCACGAATGCCTTCGGGACTTACCCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
96665180 TAATAACCCGCACGAATGCCTTCGAGACTTAACCCGGTTA
1 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
*
96665220 CAATAACCCGCACGAAT
1 TAATAACCCGCACGAAT
96665237 ACTATGCACA
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:96678374 original size:20 final size:21
Alignment explanation
Indices: 96678349--96678387 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
96678339 TTTGGCTTAA
96678349 AGTATCAATACC-TTTAACCT
1 AGTATCAATACCATTTAACCT
*
96678369 AGTATCGATACCATTTAAC
1 AGTATCAATACCATTTAAC
96678388 GATTTTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (21 bp):
AGTATCAATACCATTTAACCT
Found at i:96683951 original size:21 final size:21
Alignment explanation
Indices: 96683913--96683952 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96683903 AAAATATTAT
* *
96683913 AAATGTATTTTTTTATAATAG
1 AAATGTATTTTATAATAATAG
*
96683934 AAATTTATTTTATAATAAT
1 AAATGTATTTTATAATAAT
96683953 TTAATATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AAATGTATTTTATAATAATAG
Found at i:96683960 original size:18 final size:17
Alignment explanation
Indices: 96683939--96684016 Score: 72
Period size: 18 Copynumber: 4.6 Consensus size: 17
96683929 AATAGAAATT
96683939 TATTTTATAATAATTTAA
1 TATTTTATAATAA-TTAA
*
96683957 TATTTTAAAATAATT-A
1 TATTTTATAATAATTAA
96683973 TATTTTAT-ATAAACTTAA
1 TATTTTATAAT-AA-TTAA
* *
96683991 TA-ATAATAATAATTAA
1 TATTTTATAATAATTAA
*
96684007 TATTTAATAA
1 TATTTTATAA
96684017 AAAATAATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
15 2 0.04
16 16 0.32
17 15 0.30
18 17 0.34
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAATTAA
Found at i:96683969 original size:21 final size:21
Alignment explanation
Indices: 96683945--96684028 Score: 53
Period size: 24 Copynumber: 3.6 Consensus size: 21
96683935 AATTTATTTT
96683945 ATAATAATTTAATATTTTAAA
1 ATAATAATTTAATATTTTAAA
**
96683966 ATAATTATATTTTATATAAACTTAATA
1 ATAA-TA-A-TTTA-AT-ATTTTAA-A
96683993 ATAATAATAATTAATATTTAATAAA
1 ATAATAAT--TTAATATTT--TAAA
96684018 A-AATAATTTAA
1 ATAATAATTTAA
96684029 ATATATAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 19
0.68 0.06 0.26
Matches are distributed among these distances:
21 4 0.08
22 6 0.12
23 1 0.02
24 13 0.27
25 7 0.14
26 13 0.27
27 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATAATTTAATATTTTAAA
Found at i:96685138 original size:21 final size:21
Alignment explanation
Indices: 96685099--96685138 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96685089 TTCAATTATT
**
96685099 TAATTAAAATCAATTAAATAA
1 TAATTAAAATCAAAGAAATAA
*
96685120 TAATTCAAATCAAAGAAAT
1 TAATTAAAATCAAAGAAAT
96685139 TAATTTAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (21 bp):
TAATTAAAATCAAAGAAATAA
Found at i:96689276 original size:38 final size:36
Alignment explanation
Indices: 96689212--96689282 Score: 92
Period size: 35 Copynumber: 1.9 Consensus size: 36
96689202 TATTATAATT
96689212 ATAATATATAATTTAAAAATATTAA-TTAATTTGTG
1 ATAATATATAATTTAAAAATATTAATTTAATTTGTG
96689247 ATAAT-TATATATTTAAAAATAATTATAATTTAATTT
1 ATAATATATA-ATTTAAAAAT-A-T-TAATTTAATTT
96689283 ACGATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
34 4 0.13
35 15 0.48
36 1 0.03
37 1 0.03
38 3 0.10
39 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (36 bp):
ATAATATATAATTTAAAAATATTAATTTAATTTGTG
Found at i:96689943 original size:15 final size:16
Alignment explanation
Indices: 96689923--96689956 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
96689913 AAAAAATTAA
96689923 ATTTTATA-TTAAATT
1 ATTTTATATTTAAATT
96689938 ATTTTATATTTAAATT
1 ATTTTATATTTAAATT
96689954 ATT
1 ATT
96689957 ATGTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTATATTTAAATT
Found at i:96690859 original size:2 final size:2
Alignment explanation
Indices: 96690852--96690876 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96690842 TTTAAAATTC
96690852 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
96690877 TTTTCTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96691231 original size:22 final size:23
Alignment explanation
Indices: 96691186--96691234 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
96691176 TTTATAGATC
96691186 ATTTATAAATTTCATAAATAATAT
1 ATTTATAAATTTCAT-AATAATAT
96691210 ATTTATATAATTT-AT-ATAATAT
1 ATTTATA-AATTTCATAATAATAT
96691232 ATT
1 ATT
96691235 ATACTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.42
24 9 0.38
25 5 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTATAAATTTCATAATAATAT
Found at i:96692263 original size:18 final size:18
Alignment explanation
Indices: 96692236--96692314 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
96692226 GTGTCAAATG
*
96692236 ATATTTAAAAATAAAAAA
1 ATATTAAAAAATAAAAAA
**
96692254 ATATTAAAAAATTGAAAA
1 ATATTAAAAAATAAAAAA
* * * * *
96692272 TTTTTATAAAATTACAAA
1 ATATTAAAAAATAAAAAA
96692290 AT-TTAAAAAAATAAAAAA
1 ATATT-AAAAAATAAAAAA
*
96692308 TTATTAA
1 ATATTAA
96692315 TTATTTTTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
17 2 0.04
18 42 0.91
19 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (18 bp):
ATATTAAAAAATAAAAAA
Done.