Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 30 of 106
Found at i:11746892 original size:94 final size:94
Alignment explanation
Indices: 11746785--11747188 Score: 438
Period size: 94 Copynumber: 4.3 Consensus size: 94
11746775 TGTCGCAGGA
* * * * ** * *
11746785 CAGAGTTTAGAGTTTGTGAAACGTCATGTTGGGAATGTGTGACACAG-CA-CTGCTCAAAGTTGG
1 CAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACAC-GCCAGC-GTTCAAAGTTGG
** * *
11746848 TGAGACGCCATGGAAAGAATTTGTGAGACGC
64 TGAGACGCCATGGAGGGAATTTGTGACACAC
* ** *
11746879 CAAAGTTAAGAGTTGGTGACACGCCAT-GATGGGAATCTGTGACACAACAGCGTTCAGAGTTGGT
1 CAGAGTTAAGAGTTGGTGACACGCCATGGA-GGGAATCTGTGACACGCCAGCGTTCAAAGTTGGT
* *
11746943 GAGAAGCCATTGAGGGAATTTGTGACACAC
65 GAGACGCCATGGAGGGAATTTGTGACACAC
*** * * *
11746973 CAGA-TTAAGAGTTGGTGACACAATATGGAGGGAATTTGTGACACGCCAGCGTTTAGAGTTGGTG
1 CAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCGTTCAAAGTTGGTG
* ** * *
11747037 AGACGCCATTGATTGAATCTGTGATACAC
66 AGACGCCATGGAGGGAATTTGTGACACAC
* *
11747066 CAGAGTTAAGAGTTGGTGGCACGCCATGGAGGAAATCTGTGACACGCCAGCGTTCAAAGTTGGTG
1 CAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCGTTCAAAGTTGGTG
* *
11747131 AGACGCCATGGAGGGAATATGTGACACGC
66 AGACGCCATGGAGGGAATTTGTGACACAC
* *
11747160 TAGAGTTCAGAGTTGGTGACACGCCATGG
1 CAGAGTTAAGAGTTGGTGACACGCCATGG
11747189 TCATGTTTAG
Statistics
Matches: 258, Mismatches: 47, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
93 78 0.30
94 179 0.69
95 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (94 bp):
CAGAGTTAAGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCCAGCGTTCAAAGTTGGTG
AGACGCCATGGAGGGAATTTGTGACACAC
Found at i:11746896 original size:47 final size:47
Alignment explanation
Indices: 11746842--11747188 Score: 351
Period size: 47 Copynumber: 7.4 Consensus size: 47
11746832 CACTGCTCAA
** * * *
11746842 AGTTGGTGAGACGCCATGGAAAGAATTTGTGAGACGCCAAAGTTAAG
1 AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTAAG
* ** * *
11746889 AGTTGGTGACACGCCAT-GATGGGAATCTGTGACACAACAGCGTTCAG
1 AGTTGGTGAGACGCCATGGA-GGGAATCTGTGACACGCCAGAGTTAAG
* * * *
11746936 AGTTGGTGAGAAGCCATTGAGGGAATTTGTGACACACCAGA-TTAAG
1 AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTAAG
* *** * * *
11746982 AGTTGGTGACACAATATGGAGGGAATTTGTGACACGCCAGCGTTTAG
1 AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTAAG
* ** * *
11747029 AGTTGGTGAGACGCCATTGATTGAATCTGTGATACACCAGAGTTAAG
1 AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTAAG
* *
11747076 AGTTGGTG-GCACGCCATGGAGGAAATCTGTGACACGCCAGCGTTCAA-
1 AGTTGGTGAG-ACGCCATGGAGGGAATCTGTGACACGCCAGAGTT-AAG
* * *
11747123 AGTTGGTGAGACGCCATGGAGGGAATATGTGACACGCTAGAGTTCAG
1 AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTAAG
*
11747170 AGTTGGTGACACGCCATGG
1 AGTTGGTGAGACGCCATGG
11747189 TCATGTTTAG
Statistics
Matches: 243, Mismatches: 50, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
46 41 0.17
47 197 0.81
48 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.23
Consensus pattern (47 bp):
AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGAGTTAAG
Found at i:11746897 original size:24 final size:24
Alignment explanation
Indices: 11746842--11746904 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
11746832 CACTGCTCAA
*
11746842 AGTTGGTGAGACGCC-ATGGAAAG
1 AGTTGGTGAGACGCCAAAGGAAAG
* * **
11746865 AATTTGTGAGACGCCAAAGTTAAG
1 AGTTGGTGAGACGCCAAAGGAAAG
*
11746889 AGTTGGTGACACGCCA
1 AGTTGGTGAGACGCCA
11746905 TGATGGGAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (24 bp):
AGTTGGTGAGACGCCAAAGGAAAG
Found at i:11747147 original size:187 final size:188
Alignment explanation
Indices: 11746842--11747181 Score: 495
Period size: 187 Copynumber: 1.8 Consensus size: 188
11746832 CACTGCTCAA
* *
11746842 AGTTGGTGAGACGCCATGGAAAGAATTTGTGAGACGCCAAAGTTAAGAGTTGGTGACACGCCATG
1 AGTTGGTGAGACGCCATGGAAAGAATCTGTGAGACACCAAAGTTAAGAGTTGGTGACACGCCATG
* * * *
11746907 ATGGGAATCTGTGACACAACAGCGTTCAGAGTTGGTGAGAAGCCATTGAGGGAATTTGTGACACA
66 ATGGAAATCTGTGACACAACAGCGTTCAAAGTTGGTGAGAAGCCATGGAGGGAATATGTGACACA
11746972 CCAGA-TTAAGAGTTGGTGACACAATATGGAGGGAATTTGTGACACGCCAGCGTTTAG
131 CCAGAGTTAAGAGTTGGTGACACAATATGGAGGGAATTTGTGACACGCCAGCGTTTAG
* ** * * *
11747029 AGTTGGTGAGACGCCATTGATTGAATCTGTGATACACCAGAGTTAAGAGTTGGTGGCACGCCATG
1 AGTTGGTGAGACGCCATGGAAAGAATCTGTGAGACACCAAAGTTAAGAGTTGGTGACACGCCAT-
** *
11747094 GA-GGAAATCTGTGACACGCCAGCGTTCAAAGTTGGTGAGACGCCATGGAGGGAATATGTGACAC
65 GATGGAAATCTGTGACACAACAGCGTTCAAAGTTGGTGAGAAGCCATGGAGGGAATATGTGACAC
* * *
11747158 GCTAGAGTTCAGAGTTGGTGACAC
130 ACCAGAGTTAAGAGTTGGTGACAC
11747182 GCCATGGTCA
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
187 115 0.86
188 18 0.14
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (188 bp):
AGTTGGTGAGACGCCATGGAAAGAATCTGTGAGACACCAAAGTTAAGAGTTGGTGACACGCCATG
ATGGAAATCTGTGACACAACAGCGTTCAAAGTTGGTGAGAAGCCATGGAGGGAATATGTGACACA
CCAGAGTTAAGAGTTGGTGACACAATATGGAGGGAATTTGTGACACGCCAGCGTTTAG
Found at i:11747752 original size:31 final size:31
Alignment explanation
Indices: 11747712--11747905 Score: 244
Period size: 31 Copynumber: 6.3 Consensus size: 31
11747702 AGTTAGTTAT
11747712 TGGCGTGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* * *
11747743 TAGCGTGTGACAGCATTCTACTTGATATGAA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
*
11747774 TGGCATGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* * * *
11747805 TGTCGTGTCACAGAATTTTACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* *
11747836 TGGTGTGTGACAGCATTTTACTTGATATACA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
* * * * * *
11747867 TGGCGTGTCATAACGTTTAACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCA
11747898 TGGCGTGT
1 TGGCGTGT
11747906 CACAATATTT
Statistics
Matches: 137, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 137 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (31 bp):
TGGCGTGTGACAGCATTTTACTTGATATGCA
Found at i:11747890 original size:62 final size:61
Alignment explanation
Indices: 11747712--11747942 Score: 252
Period size: 62 Copynumber: 3.7 Consensus size: 61
11747702 AGTTAGTTAT
* * * * *
11747712 TGGCGTGTGACAGCATTTTACTTGATATGCATAGCGTGTGACAGCATTCTACTTGATATGAA
1 TGGCGTGTGACAGCATTTTACTTGATATGCATGGCGTGTCACAACATT-TACTTGTTATGCA
* *
11747774 TGGCATGTGACAGCATTTTACTTGATATGCATGTCGTGTCACAGA-ATTTTACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCATGGCGTGTCACA-ACA-TTTACTTGTTATGCA
* * * *
11747836 TGGTGTGTGACAGCATTTTACTTGATATACATGGCGTGTCATAACGTTTAACTTGTTATGCA
1 TGGCGTGTGACAGCATTTTACTTGATATGCATGGCGTGTCACAACATTT-ACTTGTTATGCA
* ** *
11747898 TGGCGTGTCACAATATTTTGA-TTGCA-ATGCATGGCATGTCACAAC
1 TGGCGTGTGACAGCATTTT-ACTTG-ATATGCATGGCGTGTCACAAC
11747943 CTTGTTGCAC
Statistics
Matches: 143, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
61 4 0.03
62 135 0.94
63 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (61 bp):
TGGCGTGTGACAGCATTTTACTTGATATGCATGGCGTGTCACAACATTTACTTGTTATGCA
Found at i:11747906 original size:31 final size:31
Alignment explanation
Indices: 11747712--11747942 Score: 216
Period size: 31 Copynumber: 7.5 Consensus size: 31
11747702 AGTTAGTTAT
* *
11747712 TGGCGTGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTCACAACATTTTACTTGATATGCA
* * * * *
11747743 TAGCGTGTGACAGCATTCTACTTGATATGAA
1 TGGCGTGTCACAACATTTTACTTGATATGCA
* * *
11747774 TGGCATGTGACAGCATTTTACTTGATATGCA
1 TGGCGTGTCACAACATTTTACTTGATATGCA
* *
11747805 TGTCGTGTCACAGA-ATTTTACTTGTTATGCA
1 TGGCGTGTCACA-ACATTTTACTTGATATGCA
* * * *
11747836 TGGTGTGTGACAGCATTTTACTTGATATACA
1 TGGCGTGTCACAACATTTTACTTGATATGCA
* * * *
11747867 TGGCGTGTCATAACGTTTAACTTGTTATGCA
1 TGGCGTGTCACAACATTTTACTTGATATGCA
*
11747898 TGGCGTGTCACAATATTTTGA-TTGCA-ATGCA
1 TGGCGTGTCACAACATTTT-ACTTG-ATATGCA
*
11747929 TGGCATGTCACAAC
1 TGGCGTGTCACAAC
11747943 CTTGTTGCAC
Statistics
Matches: 163, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
31 162 0.99
32 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (31 bp):
TGGCGTGTCACAACATTTTACTTGATATGCA
Found at i:11747928 original size:93 final size:93
Alignment explanation
Indices: 11747712--11747932 Score: 243
Period size: 93 Copynumber: 2.4 Consensus size: 93
11747702 AGTTAGTTAT
* * *
11747712 TGGCGTGTGACAGCATTTTACTTG-ATATGCATAGCGTGTGACAGCATTCTACTTGATATGAATG
1 TGGCGTGTCACAGAATTTTACTTGCA-ATGCATGGCGTGTGACAGCATTCTACTTGATATGAATG
* * *
11747776 GCATGTGACAGCATTTTACTTGATATGCA
65 GCATGTCACAACATTTAACTTGATATGCA
* ** * *
11747805 TGTCGTGTCACAGAATTTTACTTGTTATGCATGGTGTGTGACAGCATTTTACTTGATAT-ACATG
1 TGGCGTGTCACAGAATTTTACTTGCAATGCATGGCGTGTGACAGCATTCTACTTGATATGA-ATG
* * * *
11747869 GCGTGTCATAACGTTTAACTTGTTATGCA
65 GCATGTCACAACATTTAACTTGATATGCA
11747898 TGGCGTGTCACA-ATATTTTGA-TTGCAATGCATGGC
1 TGGCGTGTCACAGA-ATTTT-ACTTGCAATGCATGGC
11747933 ATGTCACAAC
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
92 2 0.02
93 103 0.97
94 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (93 bp):
TGGCGTGTCACAGAATTTTACTTGCAATGCATGGCGTGTGACAGCATTCTACTTGATATGAATGG
CATGTCACAACATTTAACTTGATATGCA
Found at i:11749791 original size:155 final size:155
Alignment explanation
Indices: 11749566--11750033 Score: 618
Period size: 156 Copynumber: 3.0 Consensus size: 155
11749556 GTAATTTCTA
* * * * ** * *
11749566 TAATTGTAGTTTACGGAAGCAACGACAAGTCCTCAAGCACCGATCGGTCCAACTCAATCGCAGAC
1 TAATTGCAGTTTAC-GAAGCGACGACAGGTCCTCAAGCACCGATCGGTTCGGCTCCATCGTAGAC
11749631 AGCTAACGAGCCGACGGTAAGG-TATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATG
65 AGCTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATG
11749695 ATTATTGAATAACACAGTTATATATG
130 ATTATTGAATAACACAGTTATATATG
* * *
11749721 TAATTGCAGTTTACAGAAGTGACAACAGGTCCTCAAGCACCGATCGGTTCGGCTCCACCGTAGAC
1 TAATTGCAGTTTAC-GAAGCGACGACAGGTCCTCAAGCACCGATCGGTTCGGCTCCATCGTAGAC
* * *
11749786 AGCTAACGAGCCGACGGTAAGGATATTAAAGTTATAACTGTTCATGTTCAACAATTCCATACATG
65 AGCTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATG
*
11749851 ATTATTGAATAACATAGTTATATATG
130 ATTATTGAATAACACAGTTATATATG
* * * * * *
11749877 TAATTGCAGTATGCGAAAACGACGACAGGTCCTAAAGCATCGATCGG-TCTGGCTTCATCGTAGA
1 TAATTGCAGTTTACG-AAGCGACGACAGGTCCTCAAGCACCGATCGGTTC-GGCTCCATCGTAGA
** * * * * *
11749941 TTGCTAACGAGTC-ATTGGTTAGGATATTAAAGTTGTAACGATTAATGTTCAACAATTCCATATA
64 CAGCTAACGAGCCGA-CGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
11750005 TGATTATTGAATAACACAGTTATATATG
128 TGATTATTGAATAACACAGTTATATATG
11750033 T
1 T
11750034 TATTATAGTT
Statistics
Matches: 273, Mismatches: 36, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
155 79 0.29
156 194 0.71
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (155 bp):
TAATTGCAGTTTACGAAGCGACGACAGGTCCTCAAGCACCGATCGGTTCGGCTCCATCGTAGACA
GCTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGA
TTATTGAATAACACAGTTATATATG
Found at i:11750439 original size:31 final size:31
Alignment explanation
Indices: 11750398--11750696 Score: 262
Period size: 31 Copynumber: 9.6 Consensus size: 31
11750388 GTCAGCTTTA
* *
11750398 GCGTGTCACAACATTTTACTTGTTATTCACG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * * *
11750429 GCATGTCACAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
11750460 GCGTGTCAGAACATTTTGCTTGTTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
11750491 GCGTGTCACCA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* *
11750522 GCATGTCACAACATTTTACTTGTTTTGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
11750553 GCGTGTCACAACATTTTCCTCGTTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
11750584 GCGTGTCACCA-AGTTTATCTTGTTGTGCATA
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * *
11750615 GCGTGTCACGACACTTTACTTGTTTTGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
11750646 ACTTGTGACAACATTTTACTTGGTATGCACT-
1 GCGTGTCACAACATTTTACTTGTTATGCA-TG
**
11750677 ATGTGTCACAACATTTTACT
1 GCGTGTCACAACATTTTACT
11750697 GCTTATGATT
Statistics
Matches: 209, Mismatches: 54, Indels: 10
0.77 0.20 0.04
Matches are distributed among these distances:
30 8 0.04
31 190 0.91
32 11 0.05
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:11750557 original size:93 final size:93
Alignment explanation
Indices: 11750398--11750662 Score: 334
Period size: 93 Copynumber: 2.8 Consensus size: 93
11750388 GTCAGCTTTA
* * * * * * * * *
11750398 GCGTGTCACAACATTTTA-CTTGTTATTCACGGCATGTCACAACGTTTGATTTGATATGCATGGC
1 GCGTGTCACCA-AGTTTATCTTGTTATGCATGGCATGTCACAACATTTTACTTGTTTTGCATGGC
* * *
11750462 GTGTCAGAACATTTTGCTTGTTATCCTTG
65 GTGTCACAACATTTTCCTCGTTATCCTTG
11750491 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCATGTCACAACATTTTACTTGTTTTGCATGGCG
1 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCATGTCACAACATTTTACTTGTTTTGCATGGCG
11750556 TGTCACAACATTTTCCTCGTTATCCTTG
66 TGTCACAACATTTTCCTCGTTATCCTTG
* * * * * * *
11750584 GCGTGTCACCAAGTTTATCTTGTTGTGCATAGCGTGTCACGACACTTTACTTGTTTTGCATGACT
1 GCGTGTCACCAAGTTTATCTTGTTATGCATGGCATGTCACAACATTTTACTTGTTTTGCATGGCG
*
11750649 TGTGACAACATTTT
66 TGTCACAACATTTT
11750663 ACTTGGTATG
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
92 5 0.03
93 146 0.97
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (93 bp):
GCGTGTCACCAAGTTTATCTTGTTATGCATGGCATGTCACAACATTTTACTTGTTTTGCATGGCG
TGTCACAACATTTTCCTCGTTATCCTTG
Found at i:11752236 original size:14 final size:14
Alignment explanation
Indices: 11752175--11752238 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
11752165 ATAGAAATTT
11752175 TTGTATACAATTCA
1 TTGTATACAATTCA
* **
11752189 TTTTATACACATTTT
1 TTGTATACA-ATTCA
*
11752204 TTGTATACACAATTTA
1 TTGTAT--ACAATTCA
11752220 TTGTATACAATTCA
1 TTGTATACAATTCA
11752234 TTGTA
1 TTGTA
11752239 AACAGATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
14 20 0.49
15 8 0.20
16 10 0.24
17 3 0.07
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (14 bp):
TTGTATACAATTCA
Found at i:11752298 original size:15 final size:15
Alignment explanation
Indices: 11752259--11752299 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
11752249 ATTCTTTCTG
11752259 TATACACAATATACTT
1 TATACACAAT-TACTT
*
11752275 TAT--ACAATTATTT
1 TATACACAATTACTT
11752288 TATACACAATTA
1 TATACACAATTA
11752300 ATTTGATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 7 0.32
16 3 0.14
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (15 bp):
TATACACAATTACTT
Found at i:11753314 original size:31 final size:31
Alignment explanation
Indices: 11753276--11753542 Score: 216
Period size: 31 Copynumber: 8.6 Consensus size: 31
11753266 ACACCAGAAC
*
11753276 TTGTTATGCATGGCAG-GTCAGAATAATTTAA
1 TTGTTATGCATGGC-GTGTCAGAACAATTTAA
* * *
11753307 TTGTTATGCATGGCATGTCACAAC-GTTTAA
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * *
11753337 CTTGTTATGCATGACGTGTCAGCACAATTTAC
1 -TTGTTATGCATGGCGTGTCAGAACAATTTAA
* *
11753369 TTGTTATGCATGGCGTGTCAGCACAATTTAC
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * * *
11753400 TTGTTATGCATGGCGTGTAACAACATTTTAC
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * **
11753431 TTGTTATGCATGGTGTGTCATAA-AATTTTTC
1 TTGTTATGCATGGCGTGTCAGAACAA-TTTAA
* * * * *
11753462 TTGTTATGTATGGCGTGTCACAATATTTTAT
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
* * * * * * *
11753493 TTGATATGCACGACGTGTGACAACATTTTAC
1 TTGTTATGCATGGCGTGTCAGAACAATTTAA
*
11753524 TTGTTATGCATGGCATGTC
1 TTGTTATGCATGGCGTGTC
11753543 TCACATTTAT
Statistics
Matches: 193, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
30 6 0.03
31 182 0.94
32 5 0.03
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (31 bp):
TTGTTATGCATGGCGTGTCAGAACAATTTAA
Found at i:11753490 original size:62 final size:62
Alignment explanation
Indices: 11753274--11753542 Score: 276
Period size: 62 Copynumber: 4.3 Consensus size: 62
11753264 ACACACCAGA
* * * * ** *
11753274 ACTTGTTATGCATGGCAG-GTCAGAATAATTTAATTGTTATGCATGGCATGTCACAACGTTTA
1 ACTTGTTATGCATGGC-GTGTCACAATATTTTACTTGTTATGCATGGCGTGTCACAAAATTTT
* *
11753336 ACTTGTTATGCATGACGTGTCAGCACA-A-TTTACTTGTTATGCATGGCGTGTCAGCACAA-TTT
1 ACTTGTTATGCATGGCGTGTCA-CA-ATATTTTACTTGTTATGCATGGCGTGTCA-CAAAATTTT
* * * *
11753398 ACTTGTTATGCATGGCGTGTAACAACATTTTACTTGTTATGCATGGTGTGTCATAAAATTTT
1 ACTTGTTATGCATGGCGTGTCACAATATTTTACTTGTTATGCATGGCGTGTCACAAAATTTT
* * * * * * * *
11753460 TCTTGTTATGTATGGCGTGTCACAATATTTTATTTGATATGCACGACGTGTGACAACATTTT
1 ACTTGTTATGCATGGCGTGTCACAATATTTTACTTGTTATGCATGGCGTGTCACAAAATTTT
*
11753522 ACTTGTTATGCATGGCATGTC
1 ACTTGTTATGCATGGCGTGTC
11753543 TCACATTTAT
Statistics
Matches: 172, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
60 1 0.01
61 7 0.04
62 159 0.92
63 4 0.02
64 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (62 bp):
ACTTGTTATGCATGGCGTGTCACAATATTTTACTTGTTATGCATGGCGTGTCACAAAATTTT
Found at i:11753536 original size:93 final size:92
Alignment explanation
Indices: 11753274--11753542 Score: 301
Period size: 93 Copynumber: 2.9 Consensus size: 92
11753264 ACACACCAGA
* * * * *
11753274 ACTTGTTATGCATGGCAG-GTCAGAATAATTTAATTGTTATGCATGGCATGTCACAACGTTTAAC
1 ACTTGTTATGCATGGC-GTGTCACAAT-ATTTAATTGTTATGCATGGCGTGTAACAACATTTTAC
* *
11753338 TTGTTATGCATGACGTGTCAGCACAATTT
64 TTGTTATGCATGGCGTGTCAGCAAAATTT
*
11753367 ACTTGTTATGCATGGCGTGTCAGCACA-ATTTACTTGTTATGCATGGCGTGTAACAACATTTTAC
1 ACTTGTTATGCATGGCGTGTCA-CA-ATATTTAATTGTTATGCATGGCGTGTAACAACATTTTAC
* *
11753431 TTGTTATGCATGGTGTGTCA-TAAAATTTT
64 TTGTTATGCATGGCGTGTCAGCAAAA-TTT
* * * * * * *
11753460 TCTTGTTATGTATGGCGTGTCACAATATTTTATTTGATATGCACGACGTGTGACAACATTTTACT
1 ACTTGTTATGCATGGCGTGTCACAATA-TTTAATTGTTATGCATGGCGTGTAACAACATTTTACT
*
11753525 TGTTATGCATGGCATGTC
65 TGTTATGCATGGCGTGTC
11753543 TCACATTTAT
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
91 1 0.01
92 7 0.05
93 141 0.93
94 1 0.01
95 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (92 bp):
ACTTGTTATGCATGGCGTGTCACAATATTTAATTGTTATGCATGGCGTGTAACAACATTTTACTT
GTTATGCATGGCGTGTCAGCAAAATTT
Found at i:11757069 original size:31 final size:31
Alignment explanation
Indices: 11757023--11757104 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
11757013 TTGTCAGTCG
* *
11757023 TGTTGTTACAAGCCATGCATAT-AACGTAAAA
1 TGTTGTAACACGCCATGCATATCAA-GTAAAA
*
11757054 TGTTGTAACACGCCATGCATATCAAGTTAAA
1 TGTTGTAACACGCCATGCATATCAAGTAAAA
* *
11757085 TGTCGTGACACGCCATGCAT
1 TGTTGTAACACGCCATGCAT
11757105 CAGCATCGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCATATCAAGTAAAA
Found at i:11757155 original size:23 final size:23
Alignment explanation
Indices: 11757085--11757156 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
11757075 TCAAGTTAAA
11757085 TGTCGTGACACGCCATGCATCAGC
1 TGTCGTGACACGCCATGCATCA-C
* *
11757109 -ATCGTTACACGCCATGCATCAC
1 TGTCGTGACACGCCATGCATCAC
*
11757131 TGTCGTGACACGTCATGCATCAC
1 TGTCGTGACACGCCATGCATCAC
11757154 TGT
1 TGT
11757157 AATTACTGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.02
23 41 0.98
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (23 bp):
TGTCGTGACACGCCATGCATCAC
Found at i:11757340 original size:54 final size:54
Alignment explanation
Indices: 11757185--11757361 Score: 187
Period size: 55 Copynumber: 3.2 Consensus size: 54
11757175 CCAACAGTCG
* * *
11757185 TGACACGCTAAAAACCCAAA-AACCTAGTTAACCCACGACACGCCAAGATCAGCCA
1 TGACACGCTAAAAA-CCAAATAA-CTAGTTAACCCACAACACGCCAGGAACAGCCA
* * * * * * * *
11757240 TGACATGCCAAAAACC-CATAAATTCAGTTAACCCACCACACCCCAGGAACAACCG
1 TGACACGCTAAAAACCAAAT-AACT-AGTTAACCCACAACACGCCAGGAACAGCCA
* *
11757295 TGACACGCTAAGAACCAAATAACTAGTTAACCCACAACACGCCAGGAACAGTCA
1 TGACACGCTAAAAACCAAATAACTAGTTAACCCACAACACGCCAGGAACAGCCA
11757349 TGACACGCTAAAA
1 TGACACGCTAAAA
11757362 TAACTCTAAC
Statistics
Matches: 97, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 40 0.41
55 54 0.56
56 2 0.02
ACGTcount: A:0.42, C:0.33, G:0.13, T:0.12
Consensus pattern (54 bp):
TGACACGCTAAAAACCAAATAACTAGTTAACCCACAACACGCCAGGAACAGCCA
Found at i:11758390 original size:16 final size:17
Alignment explanation
Indices: 11758358--11758394 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11758348 TTATACGTTG
*
11758358 ATTT-GTTATTTTTTTT
1 ATTTAGTTATTTTATTT
11758374 ATTTAGTTA-TTTATTT
1 ATTTAGTTATTTTATTT
11758390 ATTTA
1 ATTTA
11758395 TTCTACTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
ATTTAGTTATTTTATTT
Found at i:11770105 original size:16 final size:16
Alignment explanation
Indices: 11770071--11770103 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11770061 GGAAAACGGT
11770071 AAGCTTTAAGAGAATA
1 AAGCTTTAAGAGAATA
*
11770087 AAGCTTTGAG-GAATA
1 AAGCTTTAAGAGAATA
11770102 AA
1 AA
11770104 AGGTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (16 bp):
AAGCTTTAAGAGAATA
Found at i:11772480 original size:2 final size:2
Alignment explanation
Indices: 11772473--11772498 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11772463 ACAACCCTCA
11772473 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
11772499 GGTTTGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:11780594 original size:16 final size:17
Alignment explanation
Indices: 11780573--11780610 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
11780563 AGAGATAGAG
11780573 ATGTACCA-ACATAAAT
1 ATGTACCATACATAAAT
11780589 ATGTA-CATACATAAAT
1 ATGTACCATACATAAAT
11780605 ATGTAC
1 ATGTAC
11780611 ATTAGTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (17 bp):
ATGTACCATACATAAAT
Found at i:11780611 original size:16 final size:16
Alignment explanation
Indices: 11780581--11780612 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11780571 AGATGTACCA
11780581 ACATAAATATGTACAT
1 ACATAAATATGTACAT
11780597 ACATAAATATGTACAT
1 ACATAAATATGTACAT
11780613 TAGTTATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
ACATAAATATGTACAT
Found at i:11783049 original size:2 final size:2
Alignment explanation
Indices: 11783042--11783085 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11783032 TGAGCAAGCA
*
11783042 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11783084 TC
1 TC
11783086 ACACACACAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11788439 original size:4 final size:4
Alignment explanation
Indices: 11788430--11788454 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11788420 TATTATTATT
11788430 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
11788455 ATTCTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11790627 original size:17 final size:16
Alignment explanation
Indices: 11790598--11790636 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11790588 CAAGCCAAAT
11790598 ATTTA-AGTGTAAAAA
1 ATTTATAGTGTAAAAA
11790613 ATTTATAGTGTTAAAAA
1 ATTTATAGTG-TAAAAA
*
11790630 ATATATA
1 ATTTATA
11790637 TAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTTATAGTGTAAAAA
Found at i:11790897 original size:16 final size:17
Alignment explanation
Indices: 11790876--11790908 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11790866 AATTATTCAT
11790876 CTTTTATCT-AATTTAC
1 CTTTTATCTAAATTTAC
*
11790892 CTTTTATTTAAATTTAC
1 CTTTTATCTAAATTTAC
11790909 TCAAATTAGC
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:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (17 bp):
CTTTTATCTAAATTTAC
Found at i:11791001 original size:108 final size:108
Alignment explanation
Indices: 11790812--11791021 Score: 332
Period size: 108 Copynumber: 1.9 Consensus size: 108
11790802 TAAAAGCACT
* *
11790812 AAATATATTGATTTAATTATAACTTTTACAATTTACAAATACACATTCTTTTGAAATTATTCATC
1 AAATATATTGATTTAATTACAACTTTTACAATTTACAAATACACATTCTTTTGAAATTATTCAAC
** *
11790877 TTTTATCTAATTTACCTTTTATTTAAATTTACTCAAATTAGCA
66 TCATACCTAATTTACCTTTTATTTAAATTTACTCAAATTAGCA
* * *
11790920 AAATATGTTGATTTAGTTACAA-TTTTCACAATTTACAAATAGACATTCTTTTGAAATTATTCAA
1 AAATATATTGATTTAATTACAACTTTT-ACAATTTACAAATACACATTCTTTTGAAATTATTCAA
11790984 CTCATACCTAATTTACCTTTTATTTAAATTTACTCAAA
65 CTCATACCTAATTTACCTTTTATTTAAATTTACTCAAA
11791022 ATTTCTTATA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 4 0.04
108 89 0.96
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (108 bp):
AAATATATTGATTTAATTACAACTTTTACAATTTACAAATACACATTCTTTTGAAATTATTCAAC
TCATACCTAATTTACCTTTTATTTAAATTTACTCAAATTAGCA
Found at i:11793250 original size:20 final size:20
Alignment explanation
Indices: 11793205--11793242 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11793195 TTTTGGCCCC
11793205 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
11793225 ATTTGACTTGTTGGAGTA
1 ATTTGACTTATTGGAGTA
11793243 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:11798010 original size:20 final size:20
Alignment explanation
Indices: 11797985--11798030 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11797975 CTTCTAAACC
11797985 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
11798005 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
11798025 TCAAAT
1 TCAAAT
11798031 GGGATCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:11799802 original size:19 final size:19
Alignment explanation
Indices: 11799780--11799816 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11799770 TTTAATGCTC
**
11799780 AAAAAGATTTTTTTTTTAA
1 AAAAAGATAATTTTTTTAA
11799799 AAAAAGATAATTTTTTTA
1 AAAAAGATAATTTTTTTA
11799817 TGTTTATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
AAAAAGATAATTTTTTTAA
Found at i:11801212 original size:18 final size:18
Alignment explanation
Indices: 11801171--11801213 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11801161 TAATTACATT
*
11801171 AAAAT-ATATAAAAATTA
1 AAAATAATATAAAAATAA
*
11801188 AACATAATATAAAAATAA
1 AAAATAATATAAAAATAA
11801206 AAAATAAT
1 AAAATAAT
11801214 TAATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATAATATAAAAATAA
Found at i:11803842 original size:14 final size:15
Alignment explanation
Indices: 11803818--11803931 Score: 79
Period size: 14 Copynumber: 8.2 Consensus size: 15
11803808 ATAATTATTT
11803818 TTTAAATATTAATAA
1 TTTAAATATTAATAA
*
11803833 TTTATA-ATTAATAA
1 TTTAAATATTAATAA
11803847 TTTAAATATTAAT-A
1 TTTAAATATTAATAA
*
11803861 TTT---TAGT-ATAA
1 TTTAAATATTAATAA
*
11803872 TTTAATTATTAAT-A
1 TTTAAATATTAATAA
*
11803886 TTT---TATTTATAA
1 TTTAAATATTAATAA
*
11803898 TTT-AATATTATTATGA
1 TTTAAATATTA--ATAA
*
11803914 TTAAAATATTAATAA
1 TTTAAATATTAATAA
11803929 TTT
1 TTT
11803932 TTTATTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
10 2 0.03
11 13 0.17
12 4 0.05
14 28 0.36
15 18 0.23
16 5 0.06
17 7 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTAAATATTAATAA
Found at i:11803871 original size:25 final size:25
Alignment explanation
Indices: 11803818--11803907 Score: 110
Period size: 25 Copynumber: 3.4 Consensus size: 25
11803808 ATAATTATTT
11803818 TTTAAATATTAATAATTTATAATTAATAA
1 TTTAAATATTAAT-ATTT-T-ATT-ATAA
*
11803847 TTTAAATATTAATATTTTAGTATAA
1 TTTAAATATTAATATTTTATTATAA
*
11803872 TTTAATTATTAATATTTTATTTATAA
1 TTTAAATATTAATATTTTA-TTATAA
11803898 TTT-AATATTA
1 TTTAAATATTA
11803908 TTATGATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
25 28 0.50
26 10 0.18
27 1 0.02
28 4 0.07
29 13 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTAAATATTAATATTTTATTATAA
Found at i:11805546 original size:13 final size:12
Alignment explanation
Indices: 11805519--11805591 Score: 69
Period size: 13 Copynumber: 5.9 Consensus size: 12
11805509 NNNTAATTTT
11805519 AAATAAATAAAA
1 AAATAAATAAAA
*
11805531 AAATATAATGAAA
1 AAATA-AATAAAA
11805544 AAATAAA-AAATA
1 AAATAAATAAA-A
*
11805556 CAAT-AATAAAA
1 AAATAAATAAAA
11805567 AAATAAAATAAAA
1 AAAT-AAATAAAA
*
11805580 TAATAATATAAA
1 AAATAA-ATAAA
11805592 TTAAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
11 8 0.16
12 16 0.32
13 26 0.52
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:11805547 original size:21 final size:20
Alignment explanation
Indices: 11805518--11805601 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 20
11805508 NNNNTAATTT
11805518 TAAATAAATAAAAAAATATAA
1 TAAA-AAATAAAAAAATATAA
*
11805539 TGAAAAAATAAAAAATACAATAA
1 T-AAAAAATAAAAAA-A-TATAA
11805562 TAAAAAAATAAAATAAA-ATAA
1 T-AAAAAATAAAA-AAATATAA
11805583 TAATATAAATTAAAAAAAT
1 TAA-A-AAA-TAAAAAAAT
11805602 TTAAAATTGA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.04
21 17 0.32
22 10 0.19
23 22 0.42
24 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAAAAATAAAAAAATATAA
Found at i:11805561 original size:23 final size:21
Alignment explanation
Indices: 11805518--11805600 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
11805508 NNNNTAATTT
* *
11805518 TAAATAAATAAAAAAATATAA
1 TAAAAAAATAAAAAAAAATAA
*
11805539 TGAAAAAATAAAAAATACAATAA
1 TAAAAAAATAAAAAA-A-AATAA
*
11805562 TAAAAAAATAAAATAAAATAA
1 TAAAAAAATAAAAAAAAATAA
* *
11805583 TAATATAAATTAAAAAAA
1 TAA-AAAAATAAAAAAAA
11805601 TTTAAAATTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 21 0.41
22 13 0.25
23 17 0.33
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (21 bp):
TAAAAAAATAAAAAAAAATAA
Found at i:11805584 original size:8 final size:8
Alignment explanation
Indices: 11805535--11805592 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
11805525 ATAAAAAAAT
11805535 ATAATGAAA
1 ATAAT-AAA
11805544 A-AATAAA
1 ATAATAAA
*
11805551 A-AATACA
1 ATAATAAA
11805558 ATAATAAA
1 ATAATAAA
*
11805566 AAAATAAA
1 ATAATAAA
11805574 ATAA-AATA
1 ATAATAA-A
11805582 ATAATATAA
1 ATAATA-AA
11805591 AT
1 AT
11805593 TAAAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 12 0.29
8 23 0.56
9 5 0.12
10 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (8 bp):
ATAATAAA
Found at i:11812134 original size:5 final size:5
Alignment explanation
Indices: 11812124--11812152 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11812114 AACAACACAT
11812124 GGAGA GGAGA GGAGA GGAGA GGAGA GGAG
1 GGAGA GGAGA GGAGA GGAGA GGAGA GGAG
11812153 GGGGATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:11818505 original size:20 final size:19
Alignment explanation
Indices: 11818460--11818502 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
11818450 AAATATCTCT
11818460 TTCTTCCAGCAGCTTCTTCA
1 TTCTT-CAGCAGCTTCTTCA
11818480 TTCTTCAGCAGCTT-TTC-
1 TTCTTCAGCAGCTTCTTCA
11818497 TTCTTC
1 TTCTTC
11818503 TTCTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 3 0.13
19 9 0.39
20 5 0.22
ACGTcount: A:0.12, C:0.33, G:0.09, T:0.47
Consensus pattern (19 bp):
TTCTTCAGCAGCTTCTTCA
Found at i:11819416 original size:42 final size:42
Alignment explanation
Indices: 11819285--11819426 Score: 178
Period size: 42 Copynumber: 3.4 Consensus size: 42
11819275 GTAATGATAT
* *
11819285 TGACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* * * *
11819327 TGA-CCGGATAAAGTGCGAGTGGGAGTGCGCATAAGCCGATGT
1 TGACCCGGCT-ATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* *
11819369 TGACCCGGCTGTGTACGAGTAGGAGTGCGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
* *
11819411 TGACCCAGCCATGTGC
1 TGACCCGGCTATGTGC
11819427 TAGTGAGAGT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.05
42 74 0.89
43 5 0.06
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.20
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGA
Found at i:11819437 original size:84 final size:84
Alignment explanation
Indices: 11819284--11819438 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
11819274 TGTAATGATA
* * * * * *
11819284 TTGACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGCTGACCGGATAAAGTGCGAGTGG
1 TTGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGATGATGACCAGACAAAGTGCGAGTGA
11819349 GAGTGCGCATAAGCCGATG
66 GAGTGCGCATAAGCCGATG
* * * *
11819368 TTGACCCGGCTGTGTACGAGTAGGAGTGCGCATAAGCCGATGATGACCCAG-CCATGTGCTAGTG
1 TTGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGATGATGA-CCAGACAAAGTGCGAGTG
11819432 AGAGTGC
65 AGAGTGC
11819439 ATATGAGCTG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 57 0.95
85 3 0.05
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (84 bp):
TTGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGATGATGACCAGACAAAGTGCGAGTGA
GAGTGCGCATAAGCCGATG
Found at i:11819972 original size:19 final size:19
Alignment explanation
Indices: 11819933--11819972 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11819923 AAATTTTAGA
*
11819933 GAGAAACCCTCGACCATTT
1 GAGAAACCCTCGACCAGTT
*
11819952 GAGAAACCCTCGTCCAGTT
1 GAGAAACCCTCGACCAGTT
11819971 GA
1 GA
11819973 TAACTTGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (19 bp):
GAGAAACCCTCGACCAGTT
Found at i:11822930 original size:13 final size:13
Alignment explanation
Indices: 11822912--11822944 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11822902 AGAAAGAGAG
11822912 AAAGAAGAAAAAA
1 AAAGAAGAAAAAA
11822925 AAAGAA-AAAAAA
1 AAAGAAGAAAAAA
11822937 AGAAGAAG
1 A-AAGAAG
11822945 CCAATCGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAAAAA
Found at i:11822931 original size:10 final size:10
Alignment explanation
Indices: 11822916--11822940 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11822906 AGAGAGAAAG
11822916 AAGAAAAAAA
1 AAGAAAAAAA
11822926 AAGAAAAAAA
1 AAGAAAAAAA
11822936 AAGAA
1 AAGAA
11822941 GAAGCCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:11823062 original size:14 final size:14
Alignment explanation
Indices: 11823038--11823105 Score: 63
Period size: 14 Copynumber: 5.0 Consensus size: 14
11823028 ACACTGACTG
11823038 AGAGAAAGGAGAAAA
1 AGAG-AAGGAGAAAA
*
11823053 GGAGAAGGAG--AA
1 AGAGAAGGAGAAAA
11823065 AGAGAAGGA-AAGAA
1 AGAGAAGGAGAA-AA
*
11823079 AGA-AAGAAGAAAA
1 AGAGAAGGAGAAAA
*
11823092 AGAAAAGGAGAAAA
1 AGAGAAGGAGAAAA
11823106 GAAACTAGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
12 10 0.23
13 9 0.20
14 22 0.50
15 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AGAGAAGGAGAAAA
Found at i:11825924 original size:98 final size:98
Alignment explanation
Indices: 11825749--11825925 Score: 243
Period size: 98 Copynumber: 1.8 Consensus size: 98
11825739 CATTTTCTTT
* * * * *
11825749 TTAGTCTGGATTCTTAAGTTCCTATGTCTAGTTCATTAAGATTCCCTTTAAATTCCCTTGTAAGG
1 TTAGTCTGGATTCTGAAATTCCTATGTCTAGTACATTAAGAATCCCCTTAAATTCCCTTGTAAGG
11825814 TTTAATAAAGTTACTAACTCCTAATTAATTCCC
66 TTTAATAAAGTTACTAACTCCTAATTAATTCCC
11825847 TTAGTCTGGATT-TCGAAATTCCTATGTCTAGTACATTAAGAATCCCCTT-AATTCCCCCTT-TA
1 TTAGTCTGGATTCT-GAAATTCCTATGTCTAGTACATTAAGAATCCCCTTAAATT--CCCTTGTA
* *
11825909 AGGTTTATTAGAGTTAC
63 AGGTTTAATAAAGTTAC
11825926 CATGTATCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
97 5 0.07
98 59 0.86
99 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (98 bp):
TTAGTCTGGATTCTGAAATTCCTATGTCTAGTACATTAAGAATCCCCTTAAATTCCCTTGTAAGG
TTTAATAAAGTTACTAACTCCTAATTAATTCCC
Found at i:11833791 original size:22 final size:22
Alignment explanation
Indices: 11833751--11833794 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11833741 TTTAAAATAA
*
11833751 CTTTAAAACTAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
**
11833773 CTTTAAAACCAAATGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
11833795 ACCAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:11837748 original size:42 final size:42
Alignment explanation
Indices: 11837701--11837785 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
11837691 ATTATCTTCA
11837701 TGATTTTGTGCCTTTTTATCCAAAGAAAATCAGCTTAAAAAT
1 TGATTTTGTGCCTTTTTATCCAAAGAAAATCAGCTTAAAAAT
11837743 TGATTTTGTGCCTTTTTATCCAAAGAAAATCAGCTTAAAAAT
1 TGATTTTGTGCCTTTTTATCCAAAGAAAATCAGCTTAAAAAT
11837785 T
1 T
11837786 ATCTAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (42 bp):
TGATTTTGTGCCTTTTTATCCAAAGAAAATCAGCTTAAAAAT
Found at i:11843540 original size:100 final size:100
Alignment explanation
Indices: 11843367--11843571 Score: 329
Period size: 100 Copynumber: 2.0 Consensus size: 100
11843357 TGCTAAGAAA
*
11843367 GGCTACCAATGTGTCGTCAAACCCATGAGAGTGAAAGATGTCCCTCTCACTTTCTGCCAAATGGA
1 GGCTACCAATGTGTCGTCAAACCCATGAGAGGGAAAGATGTCCCTCTCACTTTCTGCCAAATGGA
*
11843432 AGACATGAAAGCCTGCACTACTGAGTATAGGGCTT
66 AGACATGAAAGCCTGCACTACTGAGTATAGGGCAT
* * * * **
11843467 GGCTACTAGTGTGTCGTCAAACCCATGGGAGGGAAATATGTCCCTCTCACTTTCTGCTTAATGGA
1 GGCTACCAATGTGTCGTCAAACCCATGAGAGGGAAAGATGTCCCTCTCACTTTCTGCCAAATGGA
*
11843532 AGACATGAAAGCTTGCACTACTGAGTATAGGGCAT
66 AGACATGAAAGCCTGCACTACTGAGTATAGGGCAT
11843567 GGCTA
1 GGCTA
11843572 AACCTCTAGT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (100 bp):
GGCTACCAATGTGTCGTCAAACCCATGAGAGGGAAAGATGTCCCTCTCACTTTCTGCCAAATGGA
AGACATGAAAGCCTGCACTACTGAGTATAGGGCAT
Found at i:11844883 original size:22 final size:22
Alignment explanation
Indices: 11844819--11844883 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
11844809 TACATTACTA
* * *
11844819 GTTTTTAGGCATTGTATCATTG
1 GTTTTTAGGCATTGCATGACTG
* *
11844841 GTTTTTAGGCACTGCAAGACTG
1 GTTTTTAGGCATTGCATGACTG
*
11844863 GTTTTTAGGCATTGCGTGACT
1 GTTTTTAGGCATTGCATGACT
11844884 TAATCATTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (22 bp):
GTTTTTAGGCATTGCATGACTG
Found at i:11845084 original size:22 final size:22
Alignment explanation
Indices: 11845056--11845245 Score: 164
Period size: 22 Copynumber: 8.6 Consensus size: 22
11845046 AATCAATTAT
11845056 GTAATACCTAAAAATTAGTTAC
1 GTAATACCTAAAAATTAGTTAC
* *
11845078 GTAATACTTAAAAATCAGTTAC
1 GTAATACCTAAAAATTAGTTAC
* * *
11845100 GCAATACCTAAAAATTAGTAAT
1 GTAATACCTAAAAATTAGTTAC
*
11845122 GTAATACCTAAAAATTAGTCAC
1 GTAATACCTAAAAATTAGTTAC
* * ** ** * *
11845144 GTAATGTCATATCAACCAATTAT
1 GTAAT-ACCTAAAAATTAGTTAC
*
11845167 GTAATACCTAAAAATCAGTTAC
1 GTAATACCTAAAAATTAGTTAC
* *
11845189 GCAATACTTAAAAATTAGTTAC
1 GTAATACCTAAAAATTAGTTAC
* * * *
11845211 GCAATATCTAAAAATTAATCAC
1 GTAATACCTAAAAATTAGTTAC
* *
11845233 GCAATACTTAAAA
1 GTAATACCTAAAA
11845246 GCTAGTTAAC
Statistics
Matches: 132, Mismatches: 35, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
22 119 0.90
23 13 0.10
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.29
Consensus pattern (22 bp):
GTAATACCTAAAAATTAGTTAC
Found at i:11845209 original size:111 final size:111
Alignment explanation
Indices: 11845023--11845227 Score: 347
Period size: 111 Copynumber: 1.8 Consensus size: 111
11845013 AATGCATATC
* * *
11845023 AATTAGTCACAAAATGTCATATCAATCAATTATGTAATACCTAAAAATTAGTTACGTAATACTTA
1 AATTAGTCACAAAATGTCATATCAACCAATTATGTAATACCTAAAAATCAGTTACGCAATACTTA
11845088 AAAATCAGTTACGCAATACCTAAAAATTAGTAATGTAATACCTAAA
66 AAAATCAGTTACGCAATACCTAAAAATTAGTAATGTAATACCTAAA
**
11845134 AATTAGTCACGTAATGTCATATCAACCAATTATGTAATACCTAAAAATCAGTTACGCAATACTTA
1 AATTAGTCACAAAATGTCATATCAACCAATTATGTAATACCTAAAAATCAGTTACGCAATACTTA
* *
11845199 AAAATTAGTTACGCAATATCTAAAAATTA
66 AAAATCAGTTACGCAATACCTAAAAATTA
11845228 ATCACGCAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 87 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (111 bp):
AATTAGTCACAAAATGTCATATCAACCAATTATGTAATACCTAAAAATCAGTTACGCAATACTTA
AAAATCAGTTACGCAATACCTAAAAATTAGTAATGTAATACCTAAA
Found at i:11846952 original size:10 final size:10
Alignment explanation
Indices: 11846937--11846978 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
11846927 AAACTAATTT
11846937 TTAATATATA
1 TTAATATATA
11846947 TTAATATATA
1 TTAATATATA
*
11846957 -TAATAT-TT
1 TTAATATATA
11846965 TTAATATATA
1 TTAATATATA
11846975 TTAA
1 TTAA
11846979 GAAGAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 1 0.04
9 12 0.43
10 15 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTAATATATA
Found at i:11847258 original size:26 final size:26
Alignment explanation
Indices: 11847228--11847281 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
11847218 GTAATGTTTC
*
11847228 ATATAAAA-TGTTATGAATATATATAT
1 ATATAAAATTG-TATAAATATATATAT
* *
11847254 ATATATAATTGTATAAATTTATATAT
1 ATATAAAATTGTATAAATATATATAT
11847280 AT
1 AT
11847282 TTAATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (26 bp):
ATATAAAATTGTATAAATATATATAT
Found at i:11848196 original size:43 final size:44
Alignment explanation
Indices: 11848115--11848197 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
11848105 CAATTAGTTA
* * * *
11848115 TTAGGTATTGCATTACCGGTTTTTAGGTATTGCATGACTGGTGT
1 TTAGGCATTGCATGACAGGTTTTTACGTATTGCATGACTGGTGT
*
11848159 TTAGGCATTGCATGACAGG-TTTTACGTATTGCGTGACTG
1 TTAGGCATTGCATGACAGGTTTTTACGTATTGCATGACTG
11848198 ATTTTTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 18 0.53
44 16 0.47
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (44 bp):
TTAGGCATTGCATGACAGGTTTTTACGTATTGCATGACTGGTGT
Found at i:11848202 original size:21 final size:21
Alignment explanation
Indices: 11848115--11848202 Score: 95
Period size: 22 Copynumber: 4.1 Consensus size: 21
11848105 CAATTAGTTA
* *
11848115 TTAGGTATTGCATTACCGGTTT
1 TTAGGTATTGCATGACTGG-TT
11848137 TTAGGTATTGCATGACTGGTGT
1 TTAGGTATTGCATGACTGGT-T
* *
11848159 TTAGGCATTGCATGACAGGTT
1 TTAGGTATTGCATGACTGGTT
* * *
11848180 TTACGTATTGCGTGACTGATT
1 TTAGGTATTGCATGACTGGTT
11848201 TT
1 TT
11848203 TAAATAATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
21 20 0.36
22 36 0.64
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.42
Consensus pattern (21 bp):
TTAGGTATTGCATGACTGGTT
Found at i:11848366 original size:22 final size:21
Alignment explanation
Indices: 11848335--11848391 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
11848325 AATCAGTTAC
*
11848335 GCAATATCTAAAACTTAGTAAT
1 GCAATGTCTAAAAC-TAGTAAT
* *
11848357 GTAATGTCTAAAAACTAGTTAT
1 GCAATGTCT-AAAACTAGTAAT
*
11848379 GCAATGCCTAAAA
1 GCAATGTCTAAAA
11848392 ACTACTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 20 0.69
23 5 0.17
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (21 bp):
GCAATGTCTAAAACTAGTAAT
Found at i:11848392 original size:23 final size:23
Alignment explanation
Indices: 11848344--11848394 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
11848334 CGCAATATCT
* *
11848344 AAAACTTAGTAATGTAATGTCTA
1 AAAACTTAGTAATGCAATGCCTA
*
11848367 AAAAC-TAGTTATGCAATGCCTA
1 AAAACTTAGTAATGCAATGCCTA
11848389 AAAACT
1 AAAACT
11848395 ACTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (23 bp):
AAAACTTAGTAATGCAATGCCTA
Found at i:11852077 original size:33 final size:34
Alignment explanation
Indices: 11852040--11852126 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 34
11852030 TTTTAATGTC
*
11852040 ATATATTTTATTTTTATTTCTTATTATAA-TCTT
1 ATATATTTTATTTTTATTTCTTAATATAATTCTT
* *
11852073 ATATATTTTATTTTCATTTCTTAATATAATTTTT
1 ATATATTTTATTTTTATTTCTTAATATAATTCTT
* *
11852107 TTATATTATATATTTTATTT
1 ATATATTTTAT-TTTTATTT
11852127 TAATTTCTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 27 0.59
34 12 0.26
35 7 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (34 bp):
ATATATTTTATTTTTATTTCTTAATATAATTCTT
Found at i:11863650 original size:22 final size:21
Alignment explanation
Indices: 11863622--11863668 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11863612 TGGACAATGC
11863622 CAAGAACCGGCTCAATAATCTT
1 CAAGAA-CGGCTCAATAATCTT
* * *
11863644 CAAGAACGGTTCACTGATCTT
1 CAAGAACGGCTCAATAATCTT
11863665 CAAG
1 CAAG
11863669 CCGCTAGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (21 bp):
CAAGAACGGCTCAATAATCTT
Found at i:11867613 original size:13 final size:13
Alignment explanation
Indices: 11867595--11867634 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
11867585 AAATTTTATT
11867595 AATATTTATAATA
1 AATATTTATAATA
11867608 AATATTTAT-ATA
1 AATATTTATAATA
11867620 AATTATTTAATAATA
1 AA-TATTT-ATAATA
11867635 TTAAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.21
13 14 0.58
14 2 0.08
15 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTTATAATA
Found at i:11875829 original size:55 final size:55
Alignment explanation
Indices: 11875763--11875874 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
11875753 CATCAATATA
*
11875763 AATAGACATAAAACAGAAAAAAAAATTAACATTAGATATTCACACTAAGTATCGT
1 AATAGACATAAAACAGAAAAAAAAATTAACATTAGATATTCACACTAAGCATCGT
** * * * *
11875818 AATAGACATAAAGGAGAGAGAAAAATTAACATTAGATTTTCACATTAAGCATCGT
1 AATAGACATAAAACAGAAAAAAAAATTAACATTAGATATTCACACTAAGCATCGT
11875873 AA
1 AA
11875875 ATTGTGCTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (55 bp):
AATAGACATAAAACAGAAAAAAAAATTAACATTAGATATTCACACTAAGCATCGT
Found at i:11876014 original size:10 final size:10
Alignment explanation
Indices: 11875996--11876048 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
11875986 GTATATTCAT
*
11875996 AAAAGAGAAA
1 AAAAAAGAAA
11876006 AAAAAAGAAA
1 AAAAAAGAAA
11876016 AAGGAAAA-AAA
1 AA--AAAAGAAA
*
11876027 AAGAAAGAAA
1 AAAAAAGAAA
*
11876037 AGAAAAGAAA
1 AAAAAAGAAA
11876047 AA
1 AA
11876049 TAATTCCAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 3 0.09
10 23 0.66
11 5 0.14
12 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:11876016 original size:5 final size:5
Alignment explanation
Indices: 11876001--11876047 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
11875991 TTCATAAAAG
* *
11876001 AGAAA AAAAA AGAAAA AGGAAA AAAAA AG-AA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AG-AAA A-GAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
11876048 ATAATTCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 22 0.63
6 8 0.23
7 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:11876022 original size:17 final size:17
Alignment explanation
Indices: 11875996--11876048 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
11875986 GTATATTCAT
11875996 AAAAGAGAAAAAAAAAGA
1 AAAAG-GAAAAAAAAAGA
11876014 AAAAGGAAAAAAAAAG-
1 AAAAGGAAAAAAAAAGA
*
11876030 -AAA-GAAAAGAAAAGA
1 AAAAGGAAAAAAAAAGA
11876045 AAAA
1 AAAA
11876049 TAATTCCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.31
15 3 0.09
16 3 0.09
17 11 0.34
18 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGGAAAAAAAAAGA
Found at i:11876025 original size:14 final size:15
Alignment explanation
Indices: 11876004--11876048 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
11875994 ATAAAAGAGA
11876004 AAAAAAAAGAAAAAGG
1 AAAAAAAAGAAAAA-G
*
11876020 AAAAAAAA-AGAAAG
1 AAAAAAAAGAAAAAG
11876034 AAAAGAAAAGAAAAA
1 AAAA-AAAAGAAAAA
11876049 TAATTCCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 12 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:11876101 original size:16 final size:15
Alignment explanation
Indices: 11876072--11876107 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
11876062 TCAGAGGAAC
11876072 AAAAGTTGAAAAGAA
1 AAAAGTTGAAAAGAA
*
11876087 AAAATGTTGAGAAGAA
1 AAAA-GTTGAAAAGAA
11876103 AAAAG
1 AAAAG
11876108 AAGTTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (15 bp):
AAAAGTTGAAAAGAA
Found at i:11876148 original size:18 final size:18
Alignment explanation
Indices: 11876125--11876176 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
11876115 GTATATTTAT
11876125 AAAAGAGAGAAAAAAAGA
1 AAAAGAGAGAAAAAAAGA
* *
11876143 AAAAGAAAGAAAAAAGGA
1 AAAAGAGAGAAAAAAAGA
*
11876161 AAAAAAGAGAAAAAAA
1 AAAAGAGAGAAAAAAA
11876177 AAAGGAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAGAGAGAAAAAAAGA
Found at i:11876151 original size:10 final size:10
Alignment explanation
Indices: 11876125--11876189 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 10
11876115 GTATATTTAT
*
11876125 AAAAGAGAG-
1 AAAAGAAAGA
11876134 AAAA-AAAGA
1 AAAAGAAAGA
11876143 AAAAGAAAGAA
1 AAAAGAAAG-A
*
11876154 AAAAGGAA-A
1 AAAAGAAAGA
11876163 AAAAGAGAA-A
1 AAAAGA-AAGA
*
11876173 AAAA-AAAGG
1 AAAAGAAAGA
11876182 AAAAGAAA
1 AAAAGAAA
11876190 ACTAATTCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 5 0.11
9 19 0.41
10 14 0.30
11 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:11876171 original size:22 final size:21
Alignment explanation
Indices: 11876142--11876190 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
11876132 AGAAAAAAAG
*
11876142 AAAAAGAAAGAAAAAAGGAAA
1 AAAAAGAAAAAAAAAAGGAAA
11876163 AAAAGAGAAAAAAAAAAGGAAA
1 AAAA-AGAAAAAAAAAAGGAAA
11876185 AGAAAA
1 A-AAAA
11876191 CTAATTCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 4 0.16
22 18 0.72
23 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAAGGAAA
Found at i:11878478 original size:22 final size:22
Alignment explanation
Indices: 11878424--11878478 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
11878414 AGTGGAAAAA
* *
11878424 TTTGTCAATAAATGAAGCAAAT
1 TTTGTTAATAAAAGAAGCAAAT
** * *
11878446 TTCATTGATAAAAGAAGTAAAT
1 TTTGTTAATAAAAGAAGCAAAT
11878468 TTTGTTAATAA
1 TTTGTTAATAA
11878479 TATATTTCAA
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.36
Consensus pattern (22 bp):
TTTGTTAATAAAAGAAGCAAAT
Found at i:11883869 original size:16 final size:17
Alignment explanation
Indices: 11883848--11883902 Score: 62
Period size: 16 Copynumber: 3.3 Consensus size: 17
11883838 GGGTGTCATA
11883848 AAAAAAGAAAAG-AAAG
1 AAAAAAGAAAAGAAAAG
*
11883864 AAAAAAG-GAAGAAAAG
1 AAAAAAGAAAAGAAAAG
11883880 AGAAAAA-AAAAGCAAAAG
1 A-AAAAAGAAAAG-AAAAG
11883898 AAAAA
1 AAAAA
11883903 TGAAGAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 3 0.09
16 12 0.36
17 12 0.36
18 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAG
Found at i:11883877 original size:20 final size:21
Alignment explanation
Indices: 11883852--11883891 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11883842 GTCATAAAAA
*
11883852 AAGAAAAGA-AAGAAAAAAGG
1 AAGAAAAGAGAAAAAAAAAGG
11883872 AAGAAAAGAGAAAAAAAAAG
1 AAGAAAAGAGAAAAAAAAAG
11883892 CAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAGAAAAGAGAAAAAAAAAGG
Found at i:11898309 original size:2 final size:2
Alignment explanation
Indices: 11898302--11898346 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
11898292 ACCACAAATA
*
11898302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11898344 AT A
1 AT A
11898347 AATGCAGACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11916503 original size:40 final size:41
Alignment explanation
Indices: 11916448--11916528 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
11916438 CTTGTAAAAG
11916448 TACTTAACTATACTTC-TTTTTTGTTTTTCTTGAAAAATTA
1 TACTTAACTATACTTCTTTTTTTGTTTTTCTTGAAAAATTA
* *
11916488 TACTTAGCTATACTTCTTTTTTTGTTTTTCTTGGAAAATTA
1 TACTTAACTATACTTCTTTTTTTGTTTTTCTTGAAAAATTA
11916529 AAGTGTGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 15 0.39
41 23 0.61
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (41 bp):
TACTTAACTATACTTCTTTTTTTGTTTTTCTTGAAAAATTA
Found at i:11935300 original size:22 final size:21
Alignment explanation
Indices: 11935278--11935321 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
11935268 GGTGAGGGAT
11935278 ATGCATATAAATTGTTTTTGATAA
1 ATGCATAT-AA-TGTTTTTGAT-A
*
11935302 ATGCATGTAATGTTTTTGAT
1 ATGCATATAATGTTTTTGAT
11935322 GATGTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 2 0.11
24 7 0.37
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (21 bp):
ATGCATATAATGTTTTTGATA
Found at i:11937610 original size:27 final size:22
Alignment explanation
Indices: 11937553--11937598 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11937543 TTCTAATCTC
11937553 TTTCTTATTTATTTTATAGGAA
1 TTTCTTATTTATTTTATAGGAA
11937575 TTTCTTATTTATTTTATAGGAA
1 TTTCTTATTTATTTTATAGGAA
11937597 TT
1 TT
11937599 GAATTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTCTTATTTATTTTATAGGAA
Found at i:11939651 original size:25 final size:24
Alignment explanation
Indices: 11939622--11939681 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
11939612 GTTTTGGGGG
*
11939622 TGTCTTTATTTATTTTTAAGTTG-T
1 TGTCTTTATTTATCTTT-AGTTGCT
*
11939646 TGGTCTTTATATATCTTTAGTTGCT
1 T-GTCTTTATTTATCTTTAGTTGCT
11939671 TGTCTTTATTT
1 TGTCTTTATTT
11939682 TATTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 15 0.48
25 16 0.52
ACGTcount: A:0.15, C:0.08, G:0.13, T:0.63
Consensus pattern (24 bp):
TGTCTTTATTTATCTTTAGTTGCT
Found at i:11970531 original size:20 final size:22
Alignment explanation
Indices: 11970506--11970561 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
11970496 AAAGTGAAAA
11970506 GAGAGG-CCAATG-TCCCATGT
1 GAGAGGACCAATGATCCCATGT
*
11970526 GAGAGGATCAATGATCCCATGT
1 GAGAGGACCAATGATCCCATGT
*
11970548 GAGAGGATCAATGA
1 GAGAGGACCAATGA
11970562 GGCAATGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 6 0.18
21 5 0.15
22 22 0.67
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (22 bp):
GAGAGGACCAATGATCCCATGT
Found at i:11970543 original size:22 final size:22
Alignment explanation
Indices: 11970513--11970561 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
11970503 AAAGAGAGGC
11970513 CAATG-TCCCATGTGAGAGGAT
1 CAATGATCCCATGTGAGAGGAT
11970534 CAATGATCCCATGTGAGAGGAT
1 CAATGATCCCATGTGAGAGGAT
11970556 CAATGA
1 CAATGA
11970562 GGCAATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (22 bp):
CAATGATCCCATGTGAGAGGAT
Found at i:11970954 original size:20 final size:20
Alignment explanation
Indices: 11970904--11970960 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
11970894 TTATGTTTAA
*
11970904 ATATTTA-TTTTAAGTTAGT
1 ATATTTAGTTTTATGTTAGT
*
11970923 A-ATGTTAGTTTTATGTTATTT
1 ATAT-TTAGTTTTATGTTA-GT
*
11970944 ATATTTATTTTTATGTT
1 ATATTTAGTTTTATGTT
11970961 TTTGTAGGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.06
19 4 0.13
20 9 0.29
21 14 0.45
22 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (20 bp):
ATATTTAGTTTTATGTTAGT
Found at i:11982029 original size:36 final size:37
Alignment explanation
Indices: 11981979--11982050 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
11981969 ATCAATGTTT
* * *
11981979 AATACAATG-CCTTTTATGGATCAAGCATAACCTTTC
1 AATACAATGACTTTTTATGGATAAAGCACAACCTTTC
*
11982015 AATACAATGACTTTTTATGGTTAAAGCACAACCTTT
1 AATACAATGACTTTTTATGGATAAAGCACAACCTTT
11982051 TTGCCTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 9 0.29
37 22 0.71
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (37 bp):
AATACAATGACTTTTTATGGATAAAGCACAACCTTTC
Found at i:11982652 original size:14 final size:15
Alignment explanation
Indices: 11982633--11982663 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11982623 TATCGATAAA
11982633 TTGAG-TTTGACTTT
1 TTGAGTTTTGACTTT
11982647 TTGAGTTTTGACTTT
1 TTGAGTTTTGACTTT
11982662 TT
1 TT
11982664 TCAAGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.61
Consensus pattern (15 bp):
TTGAGTTTTGACTTT
Found at i:11986402 original size:24 final size:23
Alignment explanation
Indices: 11986374--11986435 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
11986364 TCAATTTTTA
11986374 ATTATTTTATTATATATATAATAT
1 ATTATTTTATTATATATAT-ATAT
*
11986398 ATTATTTTATTATTTATATATAT
1 ATTATTTTATTATATATATATAT
*
11986421 AATA-TTT-TTATATAT
1 ATTATTTTATTATATAT
11986436 TTTTTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.20
22 3 0.09
23 7 0.20
24 18 0.51
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTATTTTATTATATATATATAT
Found at i:11986441 original size:28 final size:28
Alignment explanation
Indices: 11986367--11986441 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 28
11986357 TTATTTATCA
11986367 ATTTTTA-ATTATTTTATTATATATATAAT
1 ATTTTTATA-TATTTT-TTATATATATAAT
*
11986396 ATATTATT-T-TATTATTTATATATATAAT
1 AT-TT-TTATATATTTTTTATATATATAAT
11986424 ATTTTTATATATTTTTTA
1 ATTTTTATATATTTTTTA
11986442 ATTTTTCTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 23 0.59
29 7 0.18
30 2 0.05
31 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTTATATATTTTTTATATATATAAT
Found at i:11986446 original size:17 final size:17
Alignment explanation
Indices: 11986394--11986447 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
11986384 TATATATATA
11986394 ATATATTATTTTATTATTT
1 ATATATT-TTTTATT-TTT
* **
11986413 ATATATATAATATTTTT
1 ATATATTTTTTATTTTT
11986430 ATATATTTTTTAATTTTT
1 ATATATTTTTT-ATTTTT
11986448 CTTGTTTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 11 0.39
18 11 0.39
19 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATATTTTTTATTTTT
Found at i:11986877 original size:17 final size:18
Alignment explanation
Indices: 11986837--11986877 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
11986827 ATTTGAAATG
*
11986837 TTAATTTAGAAATATATA
1 TTAATTTAGAAAAATATA
11986855 TT-ATTTAGAAAAATA-A
1 TTAATTTAGAAAAATATA
11986871 TTAATTT
1 TTAATTT
11986878 GTTTAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.76
18 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TTAATTTAGAAAAATATA
Found at i:11987999 original size:1 final size:1
Alignment explanation
Indices: 11987993--11988017 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11987983 AAGAGTTCTG
11987993 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
11988018 AAATCTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11997714 original size:21 final size:21
Alignment explanation
Indices: 11997649--11997715 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
11997639 TTTTGTTTGG
* *
11997649 TTTTACTATTCTATTCTTTAT
1 TTTTAATATTCTGTTCTTTAT
* * **
11997670 ATTT-AT-TTCAGTTTCTTTGG
1 TTTTAATATTCTG-TTCTTTAT
11997690 TTTTAATATTCTGTTCTTTAT
1 TTTTAATATTCTGTTCTTTAT
11997711 TTTTA
1 TTTTA
11997716 TTTCGATTTG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 3 0.09
20 10 0.30
21 16 0.48
22 4 0.12
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTTAATATTCTGTTCTTTAT
Found at i:12010514 original size:2 final size:2
Alignment explanation
Indices: 12010507--12010546 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
12010497 GCTAAACACT
12010507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12010547 TTACGTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12017368 original size:32 final size:32
Alignment explanation
Indices: 12017307--12017369 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
12017297 TTAGATAAAG
*
12017307 GAATATCACCATCCTCTCTACCCAACCTTAAT
1 GAATATCACCATCCTCTCCACCCAACCTTAAT
* *
12017339 GAATATCACCATCTTC-CCACCTCAGCCTTAA
1 GAATATCACCATCCTCTCCACC-CAACCTTAA
12017370 CCTTCTCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.30, C:0.38, G:0.05, T:0.27
Consensus pattern (32 bp):
GAATATCACCATCCTCTCCACCCAACCTTAAT
Found at i:12018345 original size:16 final size:16
Alignment explanation
Indices: 12018324--12018358 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12018314 CTTTTCTTTC
12018324 TTTTTTTTT--ACTCT
1 TTTTTTTTTGGACTCT
12018338 TTTTTTTTTGGACTCT
1 TTTTTTTTTGGACTCT
12018354 TTTTT
1 TTTTT
12018359 GCAATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
16 10 0.53
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTTTTTTGGACTCT
Found at i:12018409 original size:18 final size:17
Alignment explanation
Indices: 12018363--12018435 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 17
12018353 TTTTTTGCAA
12018363 TTTTTCTTCCCTTTTCATT
1 TTTTTCTT-CCTTTTC-TT
*
12018382 ATCTTT-TTCCTTTTCTT
1 -TTTTTCTTCCTTTTCTT
12018399 TTTTTCCTTCCTTTT-TT
1 TTTTT-CTTCCTTTTCTT
12018416 TTTCTTCTT--TTTTCTT
1 TTT-TTCTTCCTTTTCTT
12018432 TTTT
1 TTTT
12018436 CTTTTCCTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
15 5 0.11
16 9 0.19
17 10 0.21
18 17 0.36
19 2 0.04
20 4 0.09
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCTTCCTTTTCTT
Found at i:12018433 original size:17 final size:18
Alignment explanation
Indices: 12018391--12018438 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
12018381 TATCTTTTTC
*
12018391 CTTTTCTTTTTT-TCCTT
1 CTTTTCTTTTTTCTTCTT
*
12018408 CCTTT-TTTTTTCTTCTT
1 CTTTTCTTTTTTCTTCTT
12018425 -TTTTCTTTTTTCTT
1 CTTTTCTTTTTTCTT
12018439 TTCCTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTCTTTTTTCTTCTT
Found at i:12018437 original size:14 final size:13
Alignment explanation
Indices: 12018397--12018440 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
12018387 TTTCCTTTTC
*
12018397 TTTTTTTCCTTCCT
1 TTTTTTTTCTT-CT
12018411 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
*
12018424 TTTTTCTTTTTTCT
1 TTTTT-TTTCTTCT
12018438 TTT
1 TTT
12018441 CCTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:12019324 original size:12 final size:13
Alignment explanation
Indices: 12019295--12019324 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12019285 CTTCATGGAG
12019295 CTTTTTTTTTAAA
1 CTTTTTTTTTAAA
12019308 CTTTTTTTTTAAA
1 CTTTTTTTTTAAA
12019321 -TTTT
1 CTTTT
12019325 GTTCTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTTTTTTAAA
Found at i:12019350 original size:28 final size:29
Alignment explanation
Indices: 12019313--12019374 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
12019303 TTAAACTTTT
12019313 TTTTTAAATTTTGTTCTTAAAAAAAATTA
1 TTTTTAAATTTTGTTCTTAAAAAAAATTA
12019342 TTTTT-AATTTTGTTCTTAAAAAAAATTA
1 TTTTTAAATTTTGTTCTTAAAAAAAATTA
12019370 TTTTT
1 TTTTT
12019375 TTAAGAGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 28 0.85
29 5 0.15
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTTTAAATTTTGTTCTTAAAAAAAATTA
Found at i:12036216 original size:31 final size:32
Alignment explanation
Indices: 12036181--12036242 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
12036171 GCCTCTCTTG
12036181 GGTGCT-CTCGTCT-TTAGGAAGCACCAAATCT
1 GGTGCTCCTC-TCTCTTAGGAAGCACCAAATCT
* *
12036212 GGTGCTCCTCTCTCTTAGGGAGCACTAAATC
1 GGTGCTCCTCTCTCTTAGGAAGCACCAAATC
12036243 AGTGTTCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (32 bp):
GGTGCTCCTCTCTCTTAGGAAGCACCAAATCT
Found at i:12037189 original size:33 final size:33
Alignment explanation
Indices: 12037101--12037191 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
12037091 AAAATGCTAC
* * *
12037101 ATGATCATGTCATCATACTATATCATTATCAATT
1 ATGA-CATGTCATCATACCACATCATAATCAATT
* * * * *
12037135 ATGATATGTTAACAAATCACATCATAATCAATT
1 ATGACATGTCATCATACCACATCATAATCAATT
*
12037168 ATTACATGTCATCATACCACATCA
1 ATGACATGTCATCATACCACATCA
12037192 ATATCATGTG
Statistics
Matches: 43, Mismatches: 14, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
33 39 0.91
34 4 0.09
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (33 bp):
ATGACATGTCATCATACCACATCATAATCAATT
Found at i:12038833 original size:15 final size:14
Alignment explanation
Indices: 12038796--12038853 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
12038786 AAATTGTAAT
12038796 TATTTTAAAATTAA
1 TATTTTAAAATTAA
**
12038810 TAAAGTTAATAATTAA
1 T-ATTTTAA-AATTAA
* *
12038826 TTTTTTAACATTAA
1 TATTTTAAAATTAA
12038840 TATTTTAAATATTA
1 TATTTTAAA-ATTA
12038854 TATGTAAGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
14 13 0.39
15 13 0.39
16 7 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TATTTTAAAATTAA
Found at i:12060194 original size:21 final size:21
Alignment explanation
Indices: 12060170--12060216 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
12060160 AGACCAATAT
12060170 TGAAGTGGCATTGAAGCTTGA
1 TGAAGTGGCATTGAAGCTTGA
12060191 TGAAGTGGCATTGAAGCTTGA
1 TGAAGTGGCATTGAAGCTTGA
12060212 TGAAG
1 TGAAG
12060217 AAGGGTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.34, T:0.28
Consensus pattern (21 bp):
TGAAGTGGCATTGAAGCTTGA
Found at i:12062523 original size:23 final size:23
Alignment explanation
Indices: 12062497--12062543 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12062487 ACGAACCCGG
*
12062497 ACTTGGTT-TTGATCAAGCACTTC
1 ACTT-GTTCTTGATCAAGAACTTC
*
12062520 ACTTGTTCTTGATCACGAACTTC
1 ACTTGTTCTTGATCAAGAACTTC
12062543 A
1 A
12062544 TCACTTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (23 bp):
ACTTGTTCTTGATCAAGAACTTC
Found at i:12062560 original size:28 final size:28
Alignment explanation
Indices: 12062518--12062625 Score: 100
Period size: 28 Copynumber: 4.0 Consensus size: 28
12062508 ATCAAGCACT
*
12062518 TCACTTG-T-TCTTGATCACGAACTTCA
1 TCACTTGATATCTTGATCACAAACTTCA
**
12062544 TCACTTGATATCTTGATCACAAACTTTG
1 TCACTTGATATCTTGATCACAAACTTCA
* * **
12062572 TCGCTTGATATCTTAATCATGAAC-T--
1 TCACTTGATATCTTGATCACAAACTTCA
* *
12062597 TCGCTTGATATCTTGATCATAAACTTCA
1 TCACTTGATATCTTGATCACAAACTTCA
12062625 T
1 T
12062626 AAATTTTACT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
25 22 0.32
26 8 0.12
27 2 0.03
28 36 0.53
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (28 bp):
TCACTTGATATCTTGATCACAAACTTCA
Found at i:12062606 original size:25 final size:25
Alignment explanation
Indices: 12062547--12062623 Score: 91
Period size: 25 Copynumber: 3.0 Consensus size: 25
12062537 AACTTCATCA
* *
12062547 CTTGATATCTTGATCACAAACTTTGTCG
1 CTTGATATCTTAATCATAAAC--T-TCG
*
12062575 CTTGATATCTTAATCATGAACTTCG
1 CTTGATATCTTAATCATAAACTTCG
*
12062600 CTTGATATCTTGATCATAAACTTC
1 CTTGATATCTTAATCATAAACTTC
12062624 ATAAATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 25 0.57
26 1 0.02
28 18 0.41
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (25 bp):
CTTGATATCTTAATCATAAACTTCG
Found at i:12063753 original size:21 final size:21
Alignment explanation
Indices: 12063727--12063793 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
12063717 GGATATCTCT
12063727 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
* **
12063748 TTTAAATGTAATTAATACTT--A
1 TTTAAATTTAAACAA-A-TTAAA
12063769 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
12063790 TTTA
1 TTTA
12063794 CATTATATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 30 0.83
22 1 0.03
23 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAAATTTAAACAAATTAAA
Found at i:12070829 original size:20 final size:20
Alignment explanation
Indices: 12070800--12070842 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12070790 ATTAGGTTGC
12070800 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTAGTTATTTTAA
* * *
12070820 TTTTATGTTATTTCTTTTAA
1 TTTTAAGTTAGTTATTTTAA
12070840 TTT
1 TTT
12070843 GGTTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAAGTTAGTTATTTTAA
Found at i:12071961 original size:14 final size:14
Alignment explanation
Indices: 12071942--12071968 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12071932 TTAGTTTTAA
12071942 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
12071956 TTTTAGTTAATTA
1 TTTTAGTTAATTA
12071969 ATAAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:12078214 original size:20 final size:20
Alignment explanation
Indices: 12078185--12078227 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
12078175 ATTAGGTTAC
12078185 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
12078205 TTTTATGTTATTCCTTTTAA
1 TTTTAAGTTATTCATTTTAA
12078225 TTT
1 TTT
12078228 GGTTATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:12082642 original size:14 final size:13
Alignment explanation
Indices: 12082615--12082661 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
12082605 TTTATTTATA
12082615 TTTTCTTT-TTCT
1 TTTTCTTTCTTCT
12082627 TTTTCTTTTCTTCT
1 TTTTC-TTTCTTCT
**
12082641 TTTGTCAATCTTCT
1 TTT-TCTTTCTTCT
12082655 TTTTCTT
1 TTTTCTT
12082662 CGACTACCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 16 0.57
15 2 0.07
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTCTTTCTTCT
Found at i:12083224 original size:20 final size:20
Alignment explanation
Indices: 12083199--12083236 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12083189 GGGGGAGTAG
12083199 TTATATCTCGCATGTTTTAT
1 TTATATCTCGCATGTTTTAT
* *
12083219 TTATATTTTGCATGTTTT
1 TTATATCTCGCATGTTTT
12083237 GTTGTGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (20 bp):
TTATATCTCGCATGTTTTAT
Found at i:12083896 original size:18 final size:18
Alignment explanation
Indices: 12083861--12083904 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
12083851 GGGGGTTAAA
*
12083861 AAAAAAAGATGAAGAAAG
1 AAAAAAAGATAAAGAAAG
12083879 AAAAAAAGA-AAAGAAAAG
1 AAAAAAAGATAAAG-AAAG
12083897 AAATAAAA
1 AAA-AAAA
12083905 TGTTATGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 16 0.70
19 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAAAAAGATAAAGAAAG
Found at i:12083897 original size:22 final size:22
Alignment explanation
Indices: 12083858--12083904 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
12083848 TTTGGGGGTT
*
12083858 AAAAAAAAAAGATGAAGAAAGA
1 AAAAAAAAAAGATAAAGAAAGA
*
12083880 AAAAAAGAAAAGA-AAAGAAATA
1 AAAAAA-AAAAGATAAAGAAAGA
12083902 AAA
1 AAA
12083905 TGTTATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAGATAAAGAAAGA
Found at i:12085712 original size:14 final size:14
Alignment explanation
Indices: 12085693--12085719 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12085683 TTGGTTTTAA
12085693 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
12085707 TTTTAGTTAATTA
1 TTTTAGTTAATTA
12085720 ATAAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:12087309 original size:37 final size:37
Alignment explanation
Indices: 12087268--12087341 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
12087258 CTTGTGATCT
12087268 ACCTTTCCCATGCTTTTCTCCTTC-TTTCCATGGTTA
1 ACCTTTCCCATGCTTTTCTCCTTCTTTTCCATGGTTA
12087304 NACCTTTCCCATGCTTTTCTCCTTCTTTTCCATGGTTA
1 -ACCTTTCCCATGCTTTTCTCCTTCTTTTCCATGGTTA
12087342 GATTTCATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 24 0.67
38 12 0.33
ACGTcount: A:0.11, C:0.32, G:0.08, T:0.47
Consensus pattern (37 bp):
ACCTTTCCCATGCTTTTCTCCTTCTTTTCCATGGTTA
Found at i:12087554 original size:10 final size:10
Alignment explanation
Indices: 12087539--12087577 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12087529 TTGTGGCTGA
12087539 ATTTGATGAT
1 ATTTGATGAT
12087549 ATTTGATGAT
1 ATTTGATGAT
* *
12087559 ATTTTGGTAAT
1 A-TTTGATGAT
12087570 ATTTGATG
1 ATTTGATG
12087578 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:12095323 original size:10 final size:10
Alignment explanation
Indices: 12095288--12095326 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12095278 TAATGGCTGA
12095288 ATTTGATGAT
1 ATTTGATGAT
*
12095298 ATTTCATGAT
1 ATTTGATGAT
*
12095308 ATTTTGGTGAT
1 A-TTTGATGAT
12095319 ATTTGATG
1 ATTTGATG
12095327 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:12107294 original size:20 final size:19
Alignment explanation
Indices: 12107271--12107324 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
12107261 TAAATATAAA
12107271 TAACATAAAACT-AACATTAT
1 TAACATAAAA-TAAACATT-T
*
12107291 TAACTTAAAATAAACATTT
1 TAACATAAAATAAACATTT
* *
12107310 AAACATAAATTAAAC
1 TAACATAAAATAAAC
12107325 TAAACTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (19 bp):
TAACATAAAATAAACATTT
Found at i:12114255 original size:5 final size:5
Alignment explanation
Indices: 12114215--12114254 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
12114205 CCCCAAGTCC
* *
12114215 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA GGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
12114255 GATTGAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
AGTTA
Done.