Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold18
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: 4432388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 63034 characters in sequence are not A, C, G, or T
File 15 of 27
Found at i:2122492 original size:135 final size:135
Alignment explanation
Indices: 2122244--2122797 Score: 715
Period size: 135 Copynumber: 4.0 Consensus size: 135
2122234 AGAAAAGTGA
* * * * * * * *
2122244 TAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
1 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AG---AAGG-TGCC
* *
2122309 AATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGC
60 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
2122374 TATATTGGACT
125 TATATTGGACT
*
2122385 TAAAGATGCCAATGCGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
1 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
2122450 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATT
66 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATT
2122515 GGACT
131 GGACT
* *
2122520 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGAAGAAGGTGCCAATATG
1 TAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
*
2122585 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
66 CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATT
2122650 GGACT
131 GGACT
* *
2122655 TAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCC
1 T--A-AAG-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCC
* * *
2122714 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAG
60 AATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAAG
* *
2122779 GCCAGCGATATTGGGCT
119 GCCAGCTATATTGGACT
2122796 TA
1 TA
2122798 GAAGGGTTGC
Statistics
Matches: 376, Mismatches: 25, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
135 249 0.66
136 5 0.01
137 1 0.00
138 3 0.01
139 3 0.01
140 1 0.00
141 114 0.30
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (135 bp):
TAAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATT
GGACT
Found at i:2122503 original size:21 final size:21
Alignment explanation
Indices: 2122479--2122546 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2122469 ATTGGACTTA
2122479 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
2122500 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
2122522 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
2122543 AAGG
1 AAGG
2122547 CCAGTTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:2122530 original size:24 final size:24
Alignment explanation
Indices: 2122460--2122530 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
2122450 CTGATTCAAG
2122460 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
2122484 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
2122503 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
2122527 GCCA
1 GCCA
2122531 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:2122841 original size:33 final size:33
Alignment explanation
Indices: 2122797--2122900 Score: 167
Period size: 33 Copynumber: 3.2 Consensus size: 33
2122787 TATTGGGCTT
*
2122797 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
2122830 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
2122863 AG-AGGGTTGCCACCAACTTGTGTGGGCTGT-G
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
2122894 AGAAGGG
1 AGAAGGG
2122901 AGGTACCACG
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
31 3 0.05
32 30 0.45
33 33 0.50
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:2122970 original size:35 final size:34
Alignment explanation
Indices: 2122906--2122992 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 34
2122896 AAGGGAGGTA
* *
2122906 CCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTG
*
2122940 CTACGGAGTTGT-GAGCTTACAAAAGAAAAAGAGTG
1 CCACGGAGTTGTGGA-CTTA-AAAAGAAAAAGAGTG
*
2122975 CCACAGAGTTGTGGACTT
1 CCACGGAGTTGTGGACTT
2122993 TGGAAAAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.04
34 14 0.31
35 27 0.60
36 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.20
Consensus pattern (34 bp):
CCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTG
Found at i:2123015 original size:29 final size:29
Alignment explanation
Indices: 2122966--2123137 Score: 213
Period size: 29 Copynumber: 5.9 Consensus size: 29
2122956 TTACAAAAGA
* * *
2122966 AAAAGAGTGCCACAGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
2122996 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
2123025 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
2123054 -AAAGTTGCCACTGACTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
2123082 AAAAGATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
2123111 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
2123138 TGAAGGGTGA
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
27 20 0.16
28 3 0.02
29 77 0.62
30 25 0.20
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:2123141 original size:86 final size:86
Alignment explanation
Indices: 2122973--2123137 Score: 251
Period size: 86 Copynumber: 1.9 Consensus size: 86
2122963 AGAAAAAGAG
* * * *
2122973 TGCCACAGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
*
2123038 TGATTTGTGGGCTTTGAAAGT
66 TGACTTGTGGGCTTTGAAAGT
* * *
2123059 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTT-TGAAAAAGATGCCAC
1 TGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
2123123 TGACTTGTGGGCTTT
66 TGACTTGTGGGCTTT
2123138 TGAAGGGTGA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 26 0.37
86 45 0.63
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (86 bp):
TGCCACAGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
TGACTTGTGGGCTTTGAAAGT
Found at i:2127054 original size:21 final size:22
Alignment explanation
Indices: 2127012--2127054 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2127002 TTTTAACCGA
* *
2127012 TTATCAAGGGGGAGAATATTTT
1 TTATCAAGAGGGAAAATATTTT
2127034 TTATCAA-AGGGAAAAT-TTTT
1 TTATCAAGAGGGAAAATATTTT
2127054 T
1 T
2127055 AACGAGAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (22 bp):
TTATCAAGAGGGAAAATATTTT
Found at i:2129344 original size:29 final size:30
Alignment explanation
Indices: 2129241--2129585 Score: 174
Period size: 29 Copynumber: 11.5 Consensus size: 30
2129231 AATCTTTTTA
*
2129241 TCAAAGTCCATGACTTAGTGGCATCC-CTTC
1 TCAAAGTCCATGACTCAGTGGCA-CCTCTTC
* * * *
2129271 TTAAAGTCCACGACTCAATGGCATCTCTTC
1 TCAAAGTCCATGACTCAGTGGCACCTCTTC
* *
2129301 TCAAAGTCTA-CACTCAGTGGCACCT-TTC
1 TCAAAGTCCATGACTCAGTGGCACCTCTTC
* * *
2129329 TTAAAGTCCATGACTCTGTGGCATCTCTTC
1 TCAAAGTCCATGACTCAGTGGCACCTCTTC
**
2129359 -CAAAGTCCATGACTCAGTGGCATTTCTT-
1 TCAAAGTCCATGACTCAGTGGCACCTCTTC
* * * *
2129387 TGCAAAGTCCACGACTCCA-TGGTACCCTTTTTTT
1 T-CAAAGTCCATGACT-CAGTGGCA-CC--TCTTC
* * * * *
2129421 TTAAAGTCCATAACTCTGTGACACCTTCTTTT
1 TCAAAGTCCATGACTCAGTGGCACC-TC-TTC
** *
2129453 TCAAAGTCCACAACTTC-GTGGCATCTCTT-
1 TCAAAGTCCATGAC-TCAGTGGCACCTCTTC
* * * *
2129482 TTAAAGTTCATAACTTC-GTGGCATCTCTT-
1 TCAAAGTCCATGAC-TCAGTGGCACCTCTTC
* * * ** *
2129511 TTAAAGTTCATAACTTTGTGGCATCTCTTC
1 TCAAAGTCCATGACTCAGTGGCACCTCTTC
**
2129541 -CAAAGTCCATGACTCAGTGGCATTTCTT-
1 TCAAAGTCCATGACTCAGTGGCACCTCTTC
*
2129569 TGCAAAGTCCACGACTC
1 T-CAAAGTCCATGACTC
2129586 CGTGTTACCC
Statistics
Matches: 253, Mismatches: 45, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
28 12 0.05
29 124 0.49
30 67 0.26
31 6 0.02
32 24 0.09
33 19 0.08
34 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (30 bp):
TCAAAGTCCATGACTCAGTGGCACCTCTTC
Found at i:2129533 original size:58 final size:61
Alignment explanation
Indices: 2129419--2129678 Score: 210
Period size: 58 Copynumber: 4.3 Consensus size: 61
2129409 TACCCTTTTT
2129419 TTTTAAAGTCCATAACTCTGTGACACCTTCTTTTTCAAAGTCCACAACTTCGTGGCATCTC
1 TTTTAAAGTCCATAACTCTGTGACACCTTCTTTTTCAAAGTCCACAACTTCGTGGCATCTC
* * * * * *
2129480 TTTTAAAGTTCATAACT-TCGTGGCATC-TC-TTTT-AAAGTTCATAACTTTGTGGCATCTC
1 TTTTAAAGTCCATAACTCT-GTGACACCTTCTTTTTCAAAGTCCACAACTTCGTGGCATCTC
** * * * * * * * * * * *
2129538 TTCCAAAGTCCATGACTCAGTGGCA-TTTC-TTTGCAAAGTCCACGACTCCGTGTTACCCTTTTT
1 TTTTAAAGTCCATAACTCTGTGACACCTTCTTTTTCAAAGTCCACAACTTCGTG----GCATCTC
* * *
2129601 TTTTAAAGTCCATAACTCTATGGCACCTTTTTTTTCAAAGTCCACAACTTCGTGGCATC-C
1 TTTTAAAGTCCATAACTCTGTGACACCTTCTTTTTCAAAGTCCACAACTTCGTGGCATCTC
*
2129661 TTTTTAAAGTTCATAACT
1 -TTTTAAAGTCCATAACT
2129679 TCGTGGCACT
Statistics
Matches: 151, Mismatches: 37, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
58 46 0.30
59 17 0.11
60 3 0.02
61 40 0.26
63 23 0.15
64 2 0.01
65 20 0.13
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (61 bp):
TTTTAAAGTCCATAACTCTGTGACACCTTCTTTTTCAAAGTCCACAACTTCGTGGCATCTC
Found at i:2129580 original size:182 final size:182
Alignment explanation
Indices: 2129329--2129686 Score: 628
Period size: 182 Copynumber: 2.0 Consensus size: 182
2129319 GGCACCTTTC
*
2129329 TTAAAGTCCATGACTCTGTGGCATCTCTTCCAAAGTCCATGACTCAGTGGCATTTCTTTGCAAAG
1 TTAAAGTCCATAACTCTGTGGCATCTCTTCCAAAGTCCATGACTCAGTGGCATTTCTTTGCAAAG
*
2129394 TCCACGACTCCATGGTACCCTTTTTTTTTAAAGTCCATAACTCTGTGACACCTTCTTTTTCAAAG
66 TCCACGACTCCATGGTACCCTTTTTTTTTAAAGTCCATAACTCTATGACACCTTCTTTTTCAAAG
2129459 TCCACAACTTCGTGGCAT-CTCTTTTAAAGTTCATAACTTCGTGGCATCTCTT
131 TCCACAACTTCGTGGCATCCT-TTTTAAAGTTCATAACTTCGTGGCATCTCTT
* *
2129511 TTAAAGTTCATAACTTTGTGGCATCTCTTCCAAAGTCCATGACTCAGTGGCATTTCTTTGCAAAG
1 TTAAAGTCCATAACTCTGTGGCATCTCTTCCAAAGTCCATGACTCAGTGGCATTTCTTTGCAAAG
* * * *
2129576 TCCACGACTCCGTGTTACCCTTTTTTTTTAAAGTCCATAACTCTATGGCACCTTTTTTTTCAAAG
66 TCCACGACTCCATGGTACCCTTTTTTTTTAAAGTCCATAACTCTATGACACCTTCTTTTTCAAAG
2129641 TCCACAACTTCGTGGCATCCTTTTTAAAGTTCATAACTTCGTGGCA
131 TCCACAACTTCGTGGCATCCTTTTTAAAGTTCATAACTTCGTGGCA
2129687 CTTTCTCATC
Statistics
Matches: 167, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
182 165 0.99
183 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (182 bp):
TTAAAGTCCATAACTCTGTGGCATCTCTTCCAAAGTCCATGACTCAGTGGCATTTCTTTGCAAAG
TCCACGACTCCATGGTACCCTTTTTTTTTAAAGTCCATAACTCTATGACACCTTCTTTTTCAAAG
TCCACAACTTCGTGGCATCCTTTTTAAAGTTCATAACTTCGTGGCATCTCTT
Found at i:2129657 original size:32 final size:32
Alignment explanation
Indices: 2129412--2129687 Score: 147
Period size: 29 Copynumber: 9.0 Consensus size: 32
2129402 TCCATGGTAC
* *
2129412 CCTTTTTTTTTAAAGTCCATAAC-TCTGTGACA
1 CCTTTTTTTTCAAAGTCCATAACTTC-GTGGCA
* *
2129444 CCTTCTTTTTCAAAGTCCACAACTTCGTGGCA
1 CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
* * *
2129476 --TCTCTTTT-AAAGTTCATAACTTCGTGGCA
1 CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
* * * *
2129505 --TCTCTTTT-AAAGTTCATAACTTTGTGGCA
1 CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
* * * *
2129534 ---TCTCTTCCAAAGTCCATGAC-TCAGTGGCA
1 CCTTTTTTTTCAAAGTCCATAACTTC-GTGGCA
* * ** * **
2129563 --TTTCTTTGCAAAGTCCACGACTCCGTGTTA
1 CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
* *
2129593 CCCTTTTTTTTTAAAGTCCATAAC-TCTATGGCA
1 -CCTTTTTTTTCAAAGTCCATAACTTC-GTGGCA
*
2129626 CCTTTTTTTTCAAAGTCCACAACTTCGTGGCA
1 CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
*
2129658 TCC---TTTTT-AAAGTTCATAACTTCGTGGCA
1 -CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
2129687 C
1 C
2129688 TTTCTCATCA
Statistics
Matches: 193, Mismatches: 40, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.02
29 82 0.42
30 29 0.15
31 1 0.01
32 52 0.27
33 25 0.13
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (32 bp):
CCTTTTTTTTCAAAGTCCATAACTTCGTGGCA
Found at i:2129840 original size:52 final size:52
Alignment explanation
Indices: 2129716--2130261 Score: 250
Period size: 52 Copynumber: 10.2 Consensus size: 52
2129706 AATGTCACTA
* * * * * *
2129716 GCCTTGAATCAGCACATAGGCACCTTTGTCATCTTTAAGTTTGATATTGCTG
1 GCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCTGATATCGCTG
*
2129768 GCCTTAAATCAGCATATTGGCACCTTTATCATTTTTAAGTCTGATATCGCTG
1 GCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCTGATATCGCTG
** * * * * *
2129820 GCCTTGAATCAGTGTGTTGGCACCTTTAT--TTTCTGTAAGCCTAATGTCGTTG
1 GCCTTGAATCAGCATATTGGCACCTTTATCATTT-T-TAAGTCTGATATCGCTG
* * * * ** *
2129872 GCCTTGAATCAACACATTGGCA-TTTGTCAAATCTTTTTTCTTTAAGTCCAATATTGCTG
1 GCCTTGAATCAGCATATTGGCACCTT-T---ATC---ATT-TTTAAGTCTGATATCGCTG
* * * * ** * *
2129931 GCTTTGAATCAGCATATTGGTAACTTTATC-TCCTTTTAAGCCCAATGTTGCTG
1 GCCTTGAATCAGCATATTGGCACCTTTATCAT--TTTTAAGTCTGATATCGCTG
* * **
2129984 GCCTTAAATCAGTATATTGATACCTTTATCATTTTTAAGT-TCGATATCGCTG
1 GCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCT-GATATCGCTG
* * * * ** * * *
2130036 GCCTTGAAGT-AGCGTATTGGCACTTTTAT-TTTCTTTAAGCCCAATGTTGTTG
1 GCCTTGAA-TCAGCATATTGGCACCTTTATCATT-TTTAAGTCTGATATCGCTG
* * * * *
2130088 GCCTTGAATCAACACATTGGCA--TTTGACAAATCTTCTTTCTTTAAGTCGGATATTGCTG
1 GCCTTGAATCAGCATATTGGCACCTTT-----A---TCATT-TTTAAGTCTGATATCGCTG
* * * * *
2130147 GCCTTGAATTAGCATATTGGCACCTTTATC-TCCTTTTAAGCCTAATGTC-ATCG
1 GCCTTGAATCAGCATATTGGCACCTTTATCAT--TTTTAAGTCTGATATCGCT-G
* * ** * *
2130200 GCCTTGAATCAGCACATTAGCACCTTTATCATTTTTAAGTCCAATATTGCTA
1 GCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCTGATATCGCTG
2130252 GCCTTGAATC
1 GCCTTGAATC
2130262 GACACATTGG
Statistics
Matches: 375, Mismatches: 82, Indels: 74
0.71 0.15 0.14
Matches are distributed among these distances:
50 6 0.02
51 6 0.02
52 190 0.51
53 84 0.22
54 4 0.01
55 3 0.01
56 4 0.01
58 1 0.00
59 68 0.18
60 5 0.01
61 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (52 bp):
GCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCTGATATCGCTG
Found at i:2130032 original size:216 final size:216
Alignment explanation
Indices: 2129762--2130328 Score: 711
Period size: 216 Copynumber: 2.6 Consensus size: 216
2129752 AAGTTTGATA
*
2129762 TTGCTGGCCTTAAATCAGCATATTGGCACCTTTATCATTTTTAAG-TCTGATATCGCTGGCCTTG
1 TTGCTGGCCTTAAATCAGCATATTGACACCTTTATCATTTTTAAGTTC-GATATCGCTGGCCTTG
* * *
2129826 AATCAGTGTGTTGGCACCTTTATTTTCTGTAAGCCTAATGTCGTTGGCCTTGAATCAACACATTG
65 AATCAGCGTATTGGCACCTTTATTTTCTGTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTG
* * * *
2129891 GCATTTGTCAAATCTTTTTTCTTTAAGTCCAATATTGCTGGCTTTGAATCAGCATATTGGTAACT
130 GCATTTGACAAATCTTCTTTCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAACT
2129956 TTATCTCCTTTTAAGCCCAATG
195 TTATCTCCTTTTAAGCCCAATG
* *
2129978 TTGCTGGCCTTAAATCAGTATATTGATACCTTTATCATTTTTAAGTTCGATATCGCTGGCCTTGA
1 TTGCTGGCCTTAAATCAGCATATTGACACCTTTATCATTTTTAAGTTCGATATCGCTGGCCTTGA
* * *
2130043 AGT-AGCGTATTGGCACTTTTATTTTCTTTAAGCCCAATGTTGTTGGCCTTGAATCAACACATTG
66 A-TCAGCGTATTGGCACCTTTATTTTCTGTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTG
** * *
2130107 GCATTTGACAAATCTTCTTTCTTTAAGTCGGATATTGCTGGCCTTGAATTAGCATATTGGCACCT
130 GCATTTGACAAATCTTCTTTCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAACT
*
2130172 TTATCTCCTTTTAAGCCTAATG
195 TTATCTCCTTTTAAGCCCAATG
* * * * * *
2130194 -T-CATCGGCCTTGAATCAGCACATT-AGCACCTTTATCATTTTTAAGTCCAATATTGCTAGCCT
1 TTGC-T-GGCCTTAAATCAGCATATTGA-CACCTTTATCATTTTTAAGTTCGATATCGCTGGCCT
** * * * * *
2130256 TGAATC-GACACATTGGCA---TTCTTTTCATCGTCAAGTCCAATGTCATTGGCCTTGAATTAGC
63 TGAATCAG-CGTATTGGCACCTTTATTTTC-T-GT-AAGCCCAATGTCGTTGGCCTTGAATCAAC
2130317 ACATTGGCATTT
124 ACATTGGCATTT
2130329 TTCTCTTCCT
Statistics
Matches: 306, Mismatches: 35, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
213 7 0.02
214 2 0.01
215 6 0.02
216 288 0.94
217 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (216 bp):
TTGCTGGCCTTAAATCAGCATATTGACACCTTTATCATTTTTAAGTTCGATATCGCTGGCCTTGA
ATCAGCGTATTGGCACCTTTATTTTCTGTAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGG
CATTTGACAAATCTTCTTTCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAACTT
TATCTCCTTTTAAGCCCAATG
Found at i:2144411 original size:18 final size:18
Alignment explanation
Indices: 2144381--2144427 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
2144371 ATCTTCTTCT
2144381 CTCCTC-CTCCTATCATCC
1 CTCCTCTCT-CTATCATCC
* *
2144399 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATCATCC
*
2144417 CTCCTTTCTCT
1 CTCCTCTCTCT
2144428 CCTTCTATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.09, C:0.47, G:0.00, T:0.45
Consensus pattern (18 bp):
CTCCTCTCTCTATCATCC
Found at i:2144448 original size:33 final size:33
Alignment explanation
Indices: 2144411--2144493 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
2144401 CCTCTCTCTA
* *
2144411 TTATCTCTCCTTTCTCTCCTTC-TATCATCCTTT
1 TTATCTCTACTTTCTCTCC-TCATATCATCCCTT
*
2144444 TTATCTCTACTATCTCTCCTCATATCATCCCTT
1 TTATCTCTACTTTCTCTCCTCATATCATCCCTT
* *
2144477 CTATCTCTTCTTTCTCT
1 TTATCTCTACTTTCTCT
2144494 TTGAGGGCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 2 0.05
33 41 0.95
ACGTcount: A:0.12, C:0.36, G:0.00, T:0.52
Consensus pattern (33 bp):
TTATCTCTACTTTCTCTCCTCATATCATCCCTT
Found at i:2144493 original size:42 final size:42
Alignment explanation
Indices: 2144384--2144463 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
2144374 TTCTTCTCTC
* * * * *
2144384 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTTTCT
1 CTCCTTCTATCATCCTTCTTATCTCTACTATCTCTCCTTTCT
*
2144426 CTCCTTCTATCATCCTTTTTATCTCTACTATCTCTCCT
1 CTCCTTCTATCATCCTTCTTATCTCTACTATCTCTCCT
2144464 CATATCATCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.11, C:0.41, G:0.00, T:0.47
Consensus pattern (42 bp):
CTCCTTCTATCATCCTTCTTATCTCTACTATCTCTCCTTTCT
Found at i:2158521 original size:20 final size:20
Alignment explanation
Indices: 2158492--2158530 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2158482 GAGATGCTGG
*
2158492 ACATATTAAAAATGCATGAA
1 ACATAGTAAAAATGCATGAA
2158512 ACATAGTAAAAATGCATGA
1 ACATAGTAAAAATGCATGA
2158531 TCAAAGGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (20 bp):
ACATAGTAAAAATGCATGAA
Found at i:2160077 original size:31 final size:31
Alignment explanation
Indices: 2160042--2160153 Score: 127
Period size: 32 Copynumber: 3.5 Consensus size: 31
2160032 CGACATTAGG
* *
2160042 TTTAGAAGGGTTGCCACCAACTCATGTGGCC
1 TTTAGAAGGGTTGCCACCAACTCGTGTGGGC
* * *
2160073 TTTAGAGAAGGTTGCCACTAACTTGTGTGGGC
1 TTTAGA-AGGGTTGCCACCAACTCGTGTGGGC
* *
2160105 TTTAGAAGGGTTACCACCGAC-CTGTGTGGGC
1 TTTAGAAGGGTTGCCACCAACTC-GTGTGGGC
2160136 TTTAGAAGAGGTTGCCAC
1 TTTAGAAG-GGTTGCCAC
2160154 TGACTTGTGG
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
31 33 0.49
32 34 0.51
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (31 bp):
TTTAGAAGGGTTGCCACCAACTCGTGTGGGC
Found at i:2160087 original size:32 final size:31
Alignment explanation
Indices: 2160042--2160181 Score: 119
Period size: 32 Copynumber: 4.5 Consensus size: 31
2160032 CGACATTAGG
* * *
2160042 TTTAGAAGGGTTGCCACCAACTCATGTGGCC
1 TTTAGAAAGGTTGCCACCAACTCGTGTGGGC
* *
2160073 TTTAGAGAAGGTTGCCACTAACTTGTGTGGGC
1 TTTAGA-AAGGTTGCCACCAACTCGTGTGGGC
* * *
2160105 TTTAGAAGGGTTACCACCGAC-CTGTGTGGGC
1 TTTAGAAAGGTTGCCACCAACTC-GTGTGGGC
**
2160136 TTTAGAAGAGGTTGCCACTGACT--TGTGGGC
1 TTTAGAA-AGGTTGCCACCAACTCGTGTGGGC
2160166 TTT-GAAAAGG-TGCCAC
1 TTTAG-AAAGGTTGCCAC
2160182 TGACTTGTAG
Statistics
Matches: 91, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.07
29 4 0.04
30 12 0.13
31 32 0.35
32 37 0.41
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (31 bp):
TTTAGAAAGGTTGCCACCAACTCGTGTGGGC
Found at i:2160141 original size:63 final size:63
Alignment explanation
Indices: 2160042--2160162 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
2160032 CGACATTAGG
*
2160042 TTTAGAAGGGTTGCCACCAACTCATGTGGCCTTTAG-AGAAGGTTGCCACTAACTTGTGTGGGC
1 TTTAGAAGGGTTACCACCAACTCATGTGGCCTTTAGAAG-AGGTTGCCACTAACTTGTGTGGGC
* * * *
2160105 TTTAGAAGGGTTACCACCGAC-CTGTGTGGGCTTTAGAAGAGGTTGCCACTGACTTGTG
1 TTTAGAAGGGTTACCACCAACTC-ATGTGGCCTTTAGAAGAGGTTGCCACTAACTTGTG
2160163 GGCTTTGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.94
64 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (63 bp):
TTTAGAAGGGTTACCACCAACTCATGTGGCCTTTAGAAGAGGTTGCCACTAACTTGTGTGGGC
Found at i:2160185 original size:28 final size:28
Alignment explanation
Indices: 2160129--2160637 Score: 514
Period size: 28 Copynumber: 18.0 Consensus size: 28
2160119 CACCGACCTG
*
2160129 TGTGGGCTTTAGAAGAGGTTGCCACTGACT
1 TGTGGGCTTT-GAAAAGG-TGCCACTGACT
2160159 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
2160187 TGTAGGTTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* **
2160215 TATGGGCTTTGAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
2160243 TGTGGGCCTTG-AAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
2160271 TGCGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
2160299 TGTGGGCATTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
2160327 TGTGGGTTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
2160355 TGCGGGCTTTGAAAAGGTGCCACT-AGCT
1 TGTGGGCTTTGAAAAGGTGCCACTGA-CT
* *
2160383 TGTGGGCTCTG-AAAGGACGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * * *
2160411 TATGGGCTCTG-AAAGTATGCCATTGACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
2160439 TGTGGGCTCTG-AAAGCATGCCACTAACT
1 TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
2160467 TGTGGACTCTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
2160495 TGTGGGCTCTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * ** *
2160523 TATGGGCTCTT-AAAGGGTTTCATTGACT
1 TGTGGGCT-TTGAAAAGGTGCCACTGACT
* *
2160551 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
2160579 TGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
2160607 TGTGGGCTTCGAAAAGGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GG-TGCCACTGACT
2160637 T
1 T
2160638 AAGGGTTCTA
Statistics
Matches: 410, Mismatches: 55, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
27 15 0.04
28 350 0.85
29 24 0.06
30 21 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:2161977 original size:8 final size:8
Alignment explanation
Indices: 2161964--2162010 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
2161954 TTGTATTATT
2161964 TTTTTTTC
1 TTTTTTTC
2161972 TTTTTTTC
1 TTTTTTTC
2161980 TTTTTTTGC
1 TTTTTTT-C
2161989 GTTTTTTT-
1 -TTTTTTTC
*
2161997 TTGTTTTGC
1 TT-TTTTTC
2162006 TTTTT
1 TTTTT
2162011 GAGAAGGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 2 0.06
8 22 0.65
9 3 0.09
10 7 0.21
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:2161985 original size:17 final size:16
Alignment explanation
Indices: 2161962--2162010 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
2161952 TTTTGTATTA
2161962 TTTTTTTTT-CTTTTT
1 TTTTTTTTTGCTTTTT
2161977 TTCTTTTTTTGCGTTTTT
1 TT-TTTTTTTGC-TTTTT
*
2161995 TTTTGTTTTGCTTTTT
1 TTTTTTTTTGCTTTTT
2162011 GAGAAGGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.07
16 12 0.40
17 9 0.30
18 7 0.23
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTGCTTTTT
Found at i:2167756 original size:15 final size:15
Alignment explanation
Indices: 2167717--2167761 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
2167707 GTGTATCAAC
*
2167717 GATTTTGTGGTGGGT
1 GATTTTGTGGTGGAT
* **
2167732 AATTAGGTGGTGGAT
1 GATTTTGTGGTGGAT
2167747 GATTTTGTGGTGGAT
1 GATTTTGTGGTGGAT
2167762 TTGGTGGAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATTTTGTGGTGGAT
Found at i:2173415 original size:27 final size:27
Alignment explanation
Indices: 2173377--2173450 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
2173367 TTGATTGAAA
2173377 AATGGGGTTAGAGTATCCCCTCAGAGG
1 AATGGGGTTAGAGTATCCCCTCAGAGG
*
2173404 AATGGGGTTAGAGTATCCCCTCGGAGG
1 AATGGGGTTAGAGTATCCCCTCAGAGG
* * *
2173431 AATAGGGTTGGAGTGTCCCC
1 AATGGGGTTAGAGTATCCCC
2173451 AATGATGACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (27 bp):
AATGGGGTTAGAGTATCCCCTCAGAGG
Found at i:2176214 original size:80 final size:80
Alignment explanation
Indices: 2175960--2176207 Score: 243
Period size: 80 Copynumber: 3.1 Consensus size: 80
2175950 GAATTTTAGT
* * * * ** * *
2175960 GTAAAAATGGGGTTAGAGTATACCTTTAGAGATGGTAGGGTTTGAA-TATCCCCAAAGGTGAAAA
1 GTAAAAATGAGGTTGGAGTATCCCCTCGGAGATGGTAGGG-TTAAAGTATCCTCAAAGGTGAAAA
* *** *
2176024 ATTCAATGTTTTGGAG
65 TTTTGGTGTTTTGGAA
*
2176040 GTAAAAATGAGGTTGGAGTATCCCCTCGGAGATGGTAGGGTTAAAGTATCTTCAAAGGTGAAAAT
1 GTAAAAATGAGGTTGGAGTATCCCCTCGGAGATGGTAGGGTTAAAGTATCCTCAAAGGTGAAAAT
2176105 TTTGGTGTTTT-GATA
66 TTTGGTGTTTTGGA-A
* * * * ** *
2176120 GTAAAAATGAGGTTGGAGTATCCCCTTGGATATGGTGGGGTTGGAA-TATCC-CTGGAGTTGAAA
1 GTAAAAATGAGGTTGGAGTATCCCCTCGGAGATGGTAGGGTT-AAAGTATCCTC-AAAGGTGAAA
2176183 ATTTTGGTGTTTTGGAA
64 ATTTTGGTGTTTTGGAA
2176200 GTAAAAAT
1 GTAAAAAT
2176208 TGGGTTGAAG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
79 7 0.05
80 130 0.92
81 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (80 bp):
GTAAAAATGAGGTTGGAGTATCCCCTCGGAGATGGTAGGGTTAAAGTATCCTCAAAGGTGAAAAT
TTTGGTGTTTTGGAA
Found at i:2178425 original size:52 final size:52
Alignment explanation
Indices: 2178340--2178464 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
2178330 ATATGAAAAG
*
2178340 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2178392 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2178444 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2178465 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2178477 original size:52 final size:51
Alignment explanation
Indices: 2178340--2178484 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 51
2178330 ATATGAAAAG
2178340 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2178392 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2178444 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2178485 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2178491 original size:13 final size:13
Alignment explanation
Indices: 2178473--2178497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2178463 CAAAGATCAG
2178473 TGTATCGATACAA
1 TGTATCGATACAA
2178486 TGTATCGATACA
1 TGTATCGATACA
2178498 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2178564 original size:19 final size:18
Alignment explanation
Indices: 2178540--2178637 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
2178530 TAGCTTAAAT
2178540 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2178559 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2178572 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2178591 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2178604 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
2178624 TGTATCGATACAAA
1 TGTATCGATACAAA
2178638 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2178577 original size:13 final size:13
Alignment explanation
Indices: 2178559--2178615 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2178549 ACAAAACTTA
2178559 TGTATCGATACAT
1 TGTATCGATACAT
2178572 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2178590 ATGTATCGATACAT
1 -TGTATCGATACAT
2178604 TGTATCGATACA
1 TGTATCGATACA
2178616 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2178579 original size:32 final size:32
Alignment explanation
Indices: 2178538--2178635 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
2178528 AGTAGCTTAA
*
2178538 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
2178570 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
2178602 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
2178635 A
1 A
2178636 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:2181299 original size:79 final size:79
Alignment explanation
Indices: 2181168--2181325 Score: 253
Period size: 79 Copynumber: 2.0 Consensus size: 79
2181158 TTATAATAAG
* *
2181168 CATAAGCCTGAAATTTGTTTCAAATACATCCTACCACATGAGGCCTACTTAGGCTGCCTTCTAGC
1 CATAAGCCTGAAATTTGTTTCAAATACATCCTACCACATGAGGCCTAATTAGGCTGCCTTCTAAC
*
2181233 ATCTAGCTTAAGAA
66 ACCTAGCTTAAGAA
* * *
2181247 CATAAGCCTGAAATTTGTTTCAAATACATCCTATCATATGAGGCTTAATTAGGCTGCCTTCTAAC
1 CATAAGCCTGAAATTTGTTTCAAATACATCCTACCACATGAGGCCTAATTAGGCTGCCTTCTAAC
*
2181312 ACCTGGCTTAAGAA
66 ACCTAGCTTAAGAA
2181326 TAATTCCTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (79 bp):
CATAAGCCTGAAATTTGTTTCAAATACATCCTACCACATGAGGCCTAATTAGGCTGCCTTCTAAC
ACCTAGCTTAAGAA
Found at i:2182044 original size:79 final size:79
Alignment explanation
Indices: 2181910--2182067 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
2181900 CTATGCAACT
*
2181910 CTTAGATCAGTTAGGTGGTAACTCTTTACCTAAATGCAATGTATGCATTTTGCCTAACAACCACT
1 CTTAGATCAGTTAGGTGGTAACTCTTTACCTAAATGCAATGTATGCATTTCGCCTAACAACCACT
2181975 TCCAATACTATACG
66 TCCAATACTATACG
*
2181989 CTTAGATCAGTTAGGTGGTAACTCTTTGCCTAAATGCAATGTATGCATTTCGCCTAACAACCACT
1 CTTAGATCAGTTAGGTGGTAACTCTTTACCTAAATGCAATGTATGCATTTCGCCTAACAACCACT
2182054 TCCAATACTATACG
66 TCCAATACTATACG
2182068 ATCAACTTGT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (79 bp):
CTTAGATCAGTTAGGTGGTAACTCTTTACCTAAATGCAATGTATGCATTTCGCCTAACAACCACT
TCCAATACTATACG
Found at i:2183842 original size:13 final size:13
Alignment explanation
Indices: 2183826--2183856 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2183816 ACAATTCATC
2183826 ATGTATCGATACA
1 ATGTATCGATACA
2183839 ATGTATCGATACA
1 ATGTATCGATACA
2183852 ATGTA
1 ATGTA
2183857 CCATGTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2183844 original size:33 final size:33
Alignment explanation
Indices: 2183804--2183872 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
2183794 CCGTTACAAG
*
2183804 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGT-ACCATGTATCGATA
* *
2183837 CAATGTATCGATACAATGTACCATGTATTGATA
1 CAATGTATCAATACAATGTACCATGTATCGATA
2183870 CAA
1 CAA
2183873 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCATGTATCGATA
Found at i:2183951 original size:32 final size:32
Alignment explanation
Indices: 2183900--2183978 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
2183890 ACTGCTAGTT
*
2183900 TCATGTATCGATACCATGTATCGATACAATGA
1 TCATGTATCGATACAATGTATCGATACAATGA
* *
2183932 TCATTTATCGATACAATGTATCGATACAAAGCA
1 TCATGTATCGATACAATGTATCGATACAATG-A
* *
2183965 TAATGTATTGATAC
1 TCATGTATCGATAC
2183979 TTTTGGGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 28 0.70
33 12 0.30
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
TCATGTATCGATACAATGTATCGATACAATGA
Found at i:2183955 original size:13 final size:13
Alignment explanation
Indices: 2183902--2183960 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
2183892 TGCTAGTTTC
*
2183902 ATGTATCGATACC
1 ATGTATCGATACA
2183915 ATGTATCGATACA
1 ATGTATCGATACA
2183928 ATG-ATC-AT---
1 ATGTATCGATACA
2183936 -T-TATCGATACA
1 ATGTATCGATACA
2183947 ATGTATCGATACA
1 ATGTATCGATACA
2183960 A
1 A
2183961 AGCATAATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
7 4 0.11
8 2 0.05
11 2 0.05
12 4 0.11
13 26 0.68
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2191877 original size:20 final size:20
Alignment explanation
Indices: 2191852--2191905 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2191842 GTTACAAGCA
* *
2191852 ATGTATCAATACAAT-TCATC
1 ATGTATCGATACAATAT-ACC
*
2191872 ATGTATCGACACAATATACC
1 ATGTATCGATACAATATACC
2191892 ATGTATCGATACAA
1 ATGTATCGATACAA
2191906 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:2191978 original size:19 final size:18
Alignment explanation
Indices: 2191933--2191990 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
2191923 ACTGCCAGTT
2191933 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
*
2191952 TCCATGTATTGATACAATG
1 T-CATGTATCGATACAATG
2191971 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
2191990 T
1 T
2191991 ATCGATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.54
20 15 0.43
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:2191992 original size:13 final size:13
Alignment explanation
Indices: 2191974--2192000 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2191964 TACAATGATC
2191974 ATGTATCGATACA
1 ATGTATCGATACA
2191987 ATGTATCGATACA
1 ATGTATCGATACA
2192000 A
1 A
2192001 AGGATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2192016 original size:33 final size:32
Alignment explanation
Indices: 2191955--2192018 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2191945 ACAATTGTCC
* * *
2191955 ATGTATTGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAGGATAATGTATCGATACA
2191987 ATGTATCGATACAAAGGATAATGTATCGATAC
1 ATGTATCGATAC-AAGGATAATGTATCGATAC
2192019 TTCTGGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAAGGATAATGTATCGATACA
Found at i:2199338 original size:20 final size:21
Alignment explanation
Indices: 2199313--2199363 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2199303 TTCAAGCATC
*
2199313 TATCGATACATTCACTTA-TG
1 TATCGATACATTAACTTATTG
* *
2199333 TGTCGATATATTAACTTATTG
1 TATCGATACATTAACTTATTG
2199354 TATCGATACA
1 TATCGATACA
2199364 AATTGTAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (21 bp):
TATCGATACATTAACTTATTG
Found at i:2202353 original size:33 final size:32
Alignment explanation
Indices: 2202291--2202363 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
2202281 ATAGCCGTTT
2202291 GAAACAATGTATCGATACAATTCATCATGTATC
1 GAAACAATGTATCGATACAATTCA-CATGTATC
*
2202324 GAAACATTGTATCGATACAATGTGC-CATGTATC
1 GAAACAATGTATCGATACAAT-T-CACATGTATC
*
2202357 GATACAA
1 GAAACAA
2202364 ACAGTGGTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 33 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (32 bp):
GAAACAATGTATCGATACAATTCACATGTATC
Found at i:2202436 original size:19 final size:20
Alignment explanation
Indices: 2202392--2202437 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
2202382 CTGCCAGTTT
* **
2202392 CATGTATCGATACAATTGTC
1 CATGTATCGACACAATTGAA
2202412 CATGTATCGACACAA-TGAA
1 CATGTATCGACACAATTGAA
2202431 CATGTAT
1 CATGTAT
2202438 TGATACAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGACACAATTGAA
Found at i:2207516 original size:33 final size:32
Alignment explanation
Indices: 2207474--2207537 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2207464 TGCAAGCCAA
**
2207474 TGTATCGATACATTTTTTGGTGTATCAATACAT
1 TGTATCGATACATACTTT-GTGTATCAATACAT
*
2207507 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCAATACA
2207538 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCAATACAT
Found at i:2210007 original size:13 final size:13
Alignment explanation
Indices: 2209989--2210014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2209979 ATAATCCCCC
2209989 TGTATCGATACAA
1 TGTATCGATACAA
2210002 TGTATCGATACAA
1 TGTATCGATACAA
2210015 AGAATAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2210025 original size:20 final size:21
Alignment explanation
Indices: 2209996--2210078 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 21
2209986 CCCTGTATCG
2209996 ATACAATGTATCGATACAAAGA
1 ATAC-ATGTATCGATACAAAGA
**
2210018 ATA-ATGTATCGATACATTGA
1 ATACATGTATCGATACAAAGA
* *
2210038 ATTTCCAGATGTATCGATACACAGA
1 A--T--ACATGTATCGATACAAAGA
2210063 A-ACATGTATCGATACA
1 ATACATGTATCGATACA
2210079 TTTTGGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
20 30 0.59
22 4 0.08
24 1 0.02
25 16 0.31
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (21 bp):
ATACATGTATCGATACAAAGA
Found at i:2216214 original size:13 final size:13
Alignment explanation
Indices: 2216196--2216221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2216186 CATTTTTTGG
2216196 TGTATCGATACAT
1 TGTATCGATACAT
2216209 TGTATCGATACAT
1 TGTATCGATACAT
2216222 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2216236 original size:32 final size:33
Alignment explanation
Indices: 2216176--2216239 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2216166 TGCAAGCCAA
**
2216176 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
2216209 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2216240 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2221117 original size:20 final size:19
Alignment explanation
Indices: 2221092--2221144 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
2221082 CTACCAATTT
* *
2221092 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGA-A
*
2221112 CATGTATCGACACAATGAA
1 CATGTATCGATACAATGAA
2221131 CATGTATCGATACA
1 CATGTATCGATACA
2221145 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2221151 original size:13 final size:13
Alignment explanation
Indices: 2221133--2221157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2221123 ACAATGAACA
2221133 TGTATCGATACAT
1 TGTATCGATACAT
2221146 TGTATCGATACA
1 TGTATCGATACA
2221158 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2225186 original size:26 final size:26
Alignment explanation
Indices: 2225109--2225187 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
2225099 AAACAAGTGT
* *
2225109 AAATAA-ATTAAAATTAATTTTTATA
1 AAATAATATAAAAAATAATTTTTATA
* * ***
2225134 CAAATTATATGAAAAAAGAA-GCATATA
1 -AAATAATAT-AAAAAATAATTTTTATA
2225161 AAATAATATAAAAAATAATTTTTATA
1 AAATAATATAAAAAATAATTTTTATA
2225187 A
1 A
2225188 CAAAAAAAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
25 8 0.21
26 18 0.47
27 6 0.16
28 6 0.16
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
AAATAATATAAAAAATAATTTTTATA
Found at i:2225868 original size:97 final size:97
Alignment explanation
Indices: 2225694--2225889 Score: 295
Period size: 97 Copynumber: 2.0 Consensus size: 97
2225684 TAACTCTCAG
*
2225694 GTATTGTAATCTAAAGTTAAATCAATTCCTGAACACACTTGGTGAGAGGCACCAAAGGCTCCATA
1 GTATTGTAATCTAAAGTTAAATCAATTCCTGAACACACTTGATGAGAGGCACCAAAGGCTCCATA
* *
2225759 AAAAGATCTCCAAGATTATGAGTAGCATAAAT
66 AAAAGATCTCCAAGATCATGAGCAGCATAAAT
* * *
2225791 GTATTGTAATCTAAAGTTAAATCAATTCCTGAACGCACTTGATGAGAGGCAGCGAAGGCTTCC-T
1 GTATTGTAATCTAAAGTTAAATCAATTCCTGAACACACTTGATGAGAGGCACCAAAGGC-TCCAT
* * *
2225855 GAAAGGATTTCCAAGATCATGAGCAGCATAAAT
65 AAAAAGATCTCCAAGATCATGAGCAGCATAAAT
2225888 GT
1 GT
2225890 CCTATCTTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 86 0.97
98 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (97 bp):
GTATTGTAATCTAAAGTTAAATCAATTCCTGAACACACTTGATGAGAGGCACCAAAGGCTCCATA
AAAAGATCTCCAAGATCATGAGCAGCATAAAT
Found at i:2234646 original size:2 final size:2
Alignment explanation
Indices: 2234639--2234668 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2234629 GCCAGCCAGC
2234639 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2234669 AAAGGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2237964 original size:14 final size:14
Alignment explanation
Indices: 2237945--2237972 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2237935 GAAAAATAAA
2237945 TAATTATAATATTT
1 TAATTATAATATTT
2237959 TAATTATAATATTT
1 TAATTATAATATTT
2237973 ATAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:2238388 original size:19 final size:19
Alignment explanation
Indices: 2238364--2238403 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2238354 AAATAATATT
2238364 TTATATATTT-AAAAATTAA
1 TTATAT-TTTCAAAAATTAA
*
2238383 TTATATTTTCACAAATTAA
1 TTATATTTTCAAAAATTAA
2238402 TT
1 TT
2238404 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATATTTTCAAAAATTAA
Found at i:2238632 original size:12 final size:12
Alignment explanation
Indices: 2238615--2238652 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2238605 AATATTTAAA
2238615 AATTTAAAAATT
1 AATTTAAAAATT
2238627 AATTTAAAATATT
1 AATTTAAAA-ATT
*
2238640 -ATTTAAAATTT
1 AATTTAAAAATT
2238651 AA
1 AA
2238653 GGATTACGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.78
13 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTTAAAAATT
Found at i:2238635 original size:19 final size:19
Alignment explanation
Indices: 2238590--2238636 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
2238580 ATTAATATAA
2238590 AATTTAAAA-TTAAAGAAT
1 AATTTAAAATTTAAAGAAT
2238608 -ATTTAAAAATTTAAA-AATT
1 AATTT-AAAATTTAAAGAA-T
2238627 AATTTAAAAT
1 AATTTAAAAT
2238637 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 11 0.44
20 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTTAAAATTTAAAGAAT
Found at i:2250928 original size:18 final size:18
Alignment explanation
Indices: 2250907--2250977 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
2250897 CCTGTCATCC
2250907 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATTATCT
*
2250925 CTCCTGTCTCTCCTCTTATCAT
1 CTCC--TCTCT-CTATTATC-T
* *
2250947 CCCTCCTATCTCTACTATCT
1 --CTCCTCTCTCTATTATCT
*
2250967 CTCCTGTCTCT
1 CTCCTCTCTCT
2250978 CCTCCTATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
18 14 0.33
20 6 0.14
21 13 0.31
22 5 0.12
24 4 0.10
ACGTcount: A:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (18 bp):
CTCCTCTCTCTATTATCT
Found at i:2250947 original size:42 final size:42
Alignment explanation
Indices: 2250892--2251010 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
2250882 TTCTTCTCTC
* *
2250892 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2250934 CTCCTCTTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2250976 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2251011 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2250958 original size:24 final size:23
Alignment explanation
Indices: 2250910--2251001 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 23
2250900 GTCATCCCTC
* *
2250910 CTCT-CTCTATTATCTCTCCTGT
1 CTCTCCTCTATCATCCCTCCTGT
*
2250932 CTCTCCTCTTATCATCCCTCCTAT
1 CTCTCCTC-TATCATCCCTCCTGT
*
2250956 CTCT--ACTATC-T--CTCCTGT
1 CTCTCCTCTATCATCCCTCCTGT
*
2250974 CTCTCCTCCTATCATCCCTCCTCT
1 CTCTCCT-CTATCATCCCTCCTGT
2250998 CTCT
1 CTCT
2251002 TCTTTCTCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
18 10 0.18
20 1 0.02
21 9 0.16
22 6 0.11
23 3 0.05
24 26 0.47
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.43
Consensus pattern (23 bp):
CTCTCCTCTATCATCCCTCCTGT
Found at i:2262484 original size:33 final size:33
Alignment explanation
Indices: 2262441--2262511 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
2262431 TTCTTCTCTC
* * * *
2262441 CTCCTCCTATCATCCCTTCTCTCTTTATTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
*
2262474 CTCCTTCTATCATCCCTCCTATCTCTACTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
2262507 CTCCT
1 CTCCT
2262512 ATCTCTCCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.13, C:0.42, G:0.00, T:0.45
Consensus pattern (33 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCT
Found at i:2262498 original size:24 final size:24
Alignment explanation
Indices: 2262469--2262541 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 24
2262459 CTCTCTTTAT
2262469 TATCTCTCCTTCTATCATCCCTCC
1 TATCTCTCCTTCTATCATCCCTCC
*
2262493 TA--TCT-CTACTATC-T--CTCC
1 TATCTCTCCTTCTATCATCCCTCC
*
2262511 TATCTCTCC-TCATATCATCCTTCC
1 TATCTCTCCTTC-TATCATCCCTCC
2262535 TATCTCT
1 TATCTCT
2262542 TCTTTCTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
18 6 0.15
20 5 0.13
21 12 0.31
22 4 0.10
24 12 0.31
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (24 bp):
TATCTCTCCTTCTATCATCCCTCC
Found at i:2262518 original size:9 final size:9
Alignment explanation
Indices: 2262469--2262520 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
2262459 CTCTCTTTAT
2262469 TATCTCTCC
1 TATCTCTCC
*
2262478 T-TCTAT-C
1 TATCTCTCC
*
2262485 -ATCCCTCC
1 TATCTCTCC
*
2262493 TATCTCTAC
1 TATCTCTCC
2262502 TATCTCTCC
1 TATCTCTCC
2262511 TATCTCTCC
1 TATCTCTCC
2262520 T
1 T
2262521 CATATCATCC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 4 0.12
8 5 0.15
9 25 0.74
ACGTcount: A:0.13, C:0.42, G:0.00, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:2262520 original size:42 final size:42
Alignment explanation
Indices: 2262469--2262550 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
2262459 CTCTCTTTAT
2262469 TATCTCTCCTTC-TATCATCCCTCCTATCTCTACTATCTCTCC
1 TATCTCTCC-TCATATCATCCCTCCTATCTCTACTATCTCTCC
* * *
2262511 TATCTCTCCTCATATCATCCTTCCTATCTCTTCTTTCTCT
1 TATCTCTCCTCATATCATCCCTCCTATCTCTACTATCTCT
2262551 TTGAGGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.46
Consensus pattern (42 bp):
TATCTCTCCTCATATCATCCCTCCTATCTCTACTATCTCTCC
Found at i:2264958 original size:28 final size:28
Alignment explanation
Indices: 2264918--2264975 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
2264908 GCCATATATG
2264918 AACTAATTGTGTAGGTAACTTAGTTATT
1 AACTAATTGTGTAGGTAACTTAGTTATT
2264946 AACTAATTGTGTAGGTAACTTAGTTATT
1 AACTAATTGTGTAGGTAACTTAGTTATT
2264974 AA
1 AA
2264976 TTGTATCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (28 bp):
AACTAATTGTGTAGGTAACTTAGTTATT
Found at i:2266043 original size:20 final size:21
Alignment explanation
Indices: 2266001--2266051 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2265991 TTCTACAATT
* *
2266001 TGTATGAATACAACAAGTTAA
1 TGTATCAATACAACAAGTGAA
*
2266022 TGTATCAATAC-ATAAGTGAA
1 TGTATCAATACAACAAGTGAA
2266042 TGTATCAATA
1 TGTATCAATA
2266052 TTGGACCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (21 bp):
TGTATCAATACAACAAGTGAA
Found at i:2273941 original size:45 final size:45
Alignment explanation
Indices: 2273824--2273923 Score: 191
Period size: 45 Copynumber: 2.2 Consensus size: 45
2273814 CAGAAATATT
*
2273824 TATTTGGTTTATTTCCTTTTTATTGATTTTGATGATGTGTTAAGA
1 TATTTGGTTTATTTCCTTTTTATTGATTTTAATGATGTGTTAAGA
2273869 TATTTGGTTTATTTCCTTTTTATTGATTTTAATGATGTGTTAAGA
1 TATTTGGTTTATTTCCTTTTTATTGATTTTAATGATGTGTTAAGA
2273914 TATTTGGTTT
1 TATTTGGTTT
2273924 GTTTTTTGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.20, C:0.04, G:0.17, T:0.59
Consensus pattern (45 bp):
TATTTGGTTTATTTCCTTTTTATTGATTTTAATGATGTGTTAAGA
Found at i:2277995 original size:128 final size:128
Alignment explanation
Indices: 2277767--2278024 Score: 489
Period size: 128 Copynumber: 2.0 Consensus size: 128
2277757 GCTATTCTTG
*
2277767 GATATGCCTTTGAATTAGCATTAAGATAAACTTAATAATGTGGGAAAAGTCAATAGAGTTTGGCC
1 GATATGCCTTTGAATTAGCATTAAGATAAACTTAACAATGTGGGAAAAGTCAATAGAGTTTGGCC
2277832 CTTTAAACTTATTAACTACTTAATGACAATTCACTAGTCATGTTTTGTTTATATCCAATATGA
66 CTTTAAACTTATTAACTACTTAATGACAATTCACTAGTCATGTTTTGTTTATATCCAATATGA
2277895 GATATGCCTTTGAATTAGCATTAAGATAAACTTAACAATGTGGGAAAAGTCAATAGAGTTTGGCC
1 GATATGCCTTTGAATTAGCATTAAGATAAACTTAACAATGTGGGAAAAGTCAATAGAGTTTGGCC
**
2277960 CTTTAAACTTATTAACTACTTAATGACAATTCACTAGTTGTGTTTTGTTTATATCCAATATGA
66 CTTTAAACTTATTAACTACTTAATGACAATTCACTAGTCATGTTTTGTTTATATCCAATATGA
2278023 GA
1 GA
2278025 CAAAATATTT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (128 bp):
GATATGCCTTTGAATTAGCATTAAGATAAACTTAACAATGTGGGAAAAGTCAATAGAGTTTGGCC
CTTTAAACTTATTAACTACTTAATGACAATTCACTAGTCATGTTTTGTTTATATCCAATATGA
Found at i:2278084 original size:36 final size:36
Alignment explanation
Indices: 2278042--2278113 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
2278032 TTTTTATCAT
*
2278042 TAATAATTGCAATTTGAATTGTTAAGTAAGGTTTTA
1 TAATAATTGCAATTTGAATCGTTAAGTAAGGTTTTA
*
2278078 TAATAATTGCAATTTGAATCGTTACGTAAGGTTTTA
1 TAATAATTGCAATTTGAATCGTTAAGTAAGGTTTTA
2278114 CAACTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.43
Consensus pattern (36 bp):
TAATAATTGCAATTTGAATCGTTAAGTAAGGTTTTA
Found at i:2281068 original size:23 final size:23
Alignment explanation
Indices: 2281039--2281085 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
2281029 AAAATTAAAA
2281039 ATATATATTTTAT-ATTAATATTT
1 ATATATATTTTATAATTAA-ATTT
2281062 ATATATATTTTATAATTAAATTT
1 ATATATATTTTATAATTAAATTT
2281085 A
1 A
2281086 AATAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATATATTTTATAATTAAATTT
Found at i:2282980 original size:19 final size:20
Alignment explanation
Indices: 2282960--2282995 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2282950 AATTTTACCA
2282960 AAAT-AAAA-AAAAATCACC
1 AAATCAAAACAAAAATCACC
2282978 AAATCAAAACAAAAATCA
1 AAATCAAAACAAAAATCA
2282996 ATCAAGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.25
19 4 0.25
20 8 0.50
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (20 bp):
AAATCAAAACAAAAATCACC
Found at i:2289282 original size:44 final size:44
Alignment explanation
Indices: 2289219--2289311 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
2289209 TTGTTATTTT
*
2289219 GGTTTAGTTAAGAATTGGGCTTGATAGCACAATAAGCCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGATAGCACAATAAGCCCATTAG
*
2289263 GGTTTAATTAAGAATTGGGCTTGATAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGATAGCACAATAAGCCCATTAG
2289307 GGTTT
1 GGTTT
2289312 GTGTTAATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (44 bp):
GGTTTAATTAAGAATTGGGCTTGATAGCACAATAAGCCCATTAG
Found at i:2289854 original size:12 final size:12
Alignment explanation
Indices: 2289837--2289874 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2289827 GTTTTTTTCA
2289837 AAAAAAAAGAAG
1 AAAAAAAAGAAG
*
2289849 AAAAAAAAAAAG
1 AAAAAAAAGAAG
*
2289861 AAAAAGAAGAAG
1 AAAAAAAAGAAG
2289873 AA
1 AA
2289875 GAAAGAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:2289856 original size:15 final size:15
Alignment explanation
Indices: 2289836--2289893 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
2289826 AGTTTTTTTC
2289836 AAAAAAAAAGAAGAA
1 AAAAAAAAAGAAGAA
2289851 AAAAAAAAAGAA-AA
1 AAAAAAAAAGAAGAA
* *
2289865 AGAAGAAGAAGAAAGAA
1 A-AAAAAAAAG-AAGAA
* *
2289882 TACAAAAAAGAA
1 AAAAAAAAAGAA
2289894 ACCAACATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 3 0.09
15 21 0.62
16 8 0.24
17 2 0.06
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAGAAGAA
Found at i:2289888 original size:24 final size:24
Alignment explanation
Indices: 2289837--2289890 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2289827 GTTTTTTTCA
*
2289837 AAAAAAAAGAAGAAAAAAAAAAAG
1 AAAAAAAAGAAGAAAAAAAAAAAC
* * * *
2289861 AAAAAGAAGAAGAAGAAAGAATAC
1 AAAAAAAAGAAGAAAAAAAAAAAC
2289885 AAAAAA
1 AAAAAA
2289891 GAAACCAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (24 bp):
AAAAAAAAGAAGAAAAAAAAAAAC
Found at i:2289934 original size:20 final size:20
Alignment explanation
Indices: 2289905--2289945 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2289895 CCAACATTTG
2289905 ATTCTAATCATTAATGTGTC
1 ATTCTAATCATTAATGTGTC
*
2289925 ATTCTGATCATTAATGTGTC
1 ATTCTAATCATTAATGTGTC
2289945 A
1 A
2289946 AGAGTGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (20 bp):
ATTCTAATCATTAATGTGTC
Found at i:2292546 original size:12 final size:11
Alignment explanation
Indices: 2292524--2292588 Score: 57
Period size: 12 Copynumber: 6.0 Consensus size: 11
2292514 AGAGAAAGAA
*
2292524 GAGAGAGGAGG
1 GAGATAGGAGG
2292535 GATGATAGGAGG
1 GA-GATAGGAGG
2292547 AGAGATAGGA--
1 -GAGATAGGAGG
*
2292557 GAGATAGTA--
1 GAGATAGGAGG
2292566 GAGATAGGAGG
1 GAGATAGGAGG
2292577 GATGATAGGAGG
1 GA-GATAGGAGG
2292589 AGAGGCAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 16 0.35
11 4 0.09
12 24 0.52
13 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.49, T:0.12
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2292560 original size:33 final size:30
Alignment explanation
Indices: 2292514--2292604 Score: 76
Period size: 33 Copynumber: 2.8 Consensus size: 30
2292504 TAGCCCTCAA
* *
2292514 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGG
1 AGAGATAGGAGAGAGAGGA--GA-GATAGGAGG
* *
2292547 AGAGATAGGAGAGATAGTAGAGATAGGAGG
1 AGAGATAGGAGAGAGAGGAGAGATAGGAGG
2292577 -GATGATAGGAGGAGAGGCAGGAGAGATA
1 AGA-GATAGGA-GAGA-G-AGGAGAGATA
2292605 ATAGAGAGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 2 0.04
30 16 0.33
31 6 0.12
33 24 0.50
ACGTcount: A:0.43, C:0.01, G:0.46, T:0.10
Consensus pattern (30 bp):
AGAGATAGGAGAGAGAGGAGAGATAGGAGG
Found at i:2292569 original size:11 final size:9
Alignment explanation
Indices: 2292544--2292575 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2292534 GGATGATAGG
2292544 AGGAGAGAT
1 AGGAGAGAT
2292553 AGGAGAGAT
1 AGGAGAGAT
*
2292562 AGTAGAGAT
1 AGGAGAGAT
2292571 AGGAG
1 AGGAG
2292576 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:2292575 original size:42 final size:42
Alignment explanation
Indices: 2292514--2292632 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
2292504 TAGCCCTCAA
* * *
2292514 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2292556 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGGCAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2292598 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2292633 GAGAGAAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.42, C:0.02, G:0.47, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2301915 original size:44 final size:44
Alignment explanation
Indices: 2301866--2301958 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 44
2301856 TTGCTATTTT
2301866 GGTTTAATTAAGAATTGGGCTCATTAGCACAATAAGTCCACTAG
1 GGTTTAATTAAGAATTGGGCTCATTAGCACAATAAGTCCACTAG
** *
2301910 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTCATTAGCACAATAAGTCCACTAG
2301954 GGTTT
1 GGTTT
2301959 GTGTTAATGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (44 bp):
GGTTTAATTAAGAATTGGGCTCATTAGCACAATAAGTCCACTAG
Found at i:2303584 original size:43 final size:43
Alignment explanation
Indices: 2303536--2303669 Score: 259
Period size: 43 Copynumber: 3.1 Consensus size: 43
2303526 TTGTTATTTT
2303536 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATAG
2303579 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATAG
2303622 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCA-TAG
2303666 GGTT
1 GGTT
2303670 CGTGTTAATG
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
43 83 0.92
44 7 0.08
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (43 bp):
GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATAG
Found at i:2304245 original size:25 final size:25
Alignment explanation
Indices: 2304205--2304287 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
2304195 TTTCACCAAA
*
2304205 AAAAAAAAGAAGAAGAACAAAGAATAC
1 AAAAAAAA-AA-AAGAAAAAAGAATAC
*
2304232 AAAAAAAAAAAAGAAGAAAGAATAC
1 AAAAAAAAAAAAGAAAAAAGAATAC
*
2304257 AAAAAAAAAGAAAAAAAAAAGAA-A-
1 AAAAAAAAA-AAAGAAAAAAGAATAC
2304281 AAAAAAA
1 AAAAAAA
2304288 CCAGCATTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
24 7 0.13
25 24 0.46
26 13 0.25
27 8 0.15
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAAGAAAAAAGAATAC
Found at i:2304249 original size:34 final size:33
Alignment explanation
Indices: 2304202--2304288 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
2304192 GTTTTTCACC
*
2304202 AAAAAAAAA-AAG-AAGAAGAACAAAGAATACAA-A
1 AAAAAAAAAGAAGAAAGAA-AACAAA-AA-AAAAGA
*
2304235 AAAAAAAAAGAAGAAAGAATACAAAAAAAAAGA
1 AAAAAAAAAGAAGAAAGAAAACAAAAAAAAAGA
*
2304268 AAAAAAAAAGAA-AAAAAAAAC
1 AAAAAAAAAGAAGAAAGAAAAC
2304289 CAGCATTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 10 0.21
33 24 0.51
34 8 0.17
35 5 0.11
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (33 bp):
AAAAAAAAAGAAGAAAGAAAACAAAAAAAAAGA
Found at i:2304268 original size:15 final size:13
Alignment explanation
Indices: 2304202--2304287 Score: 70
Period size: 13 Copynumber: 6.7 Consensus size: 13
2304192 GTTTTTCACC
2304202 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
* * *
2304215 AGAAGAACAAAGA
1 AAAAAAAAAAAGA
* *
2304228 ATACAAAAAAA-A
1 AAAAAAAAAAAGA
* *
2304240 AAAAGAAGAAAGA
1 AAAAAAAAAAAGA
2304253 ATACAAAAAAAAAG-
1 A-A-AAAAAAAAAGA
2304267 -AAAAAAAAAAGA
1 AAAAAAAAAAAGA
2304279 AAAAAAAAA
1 AAAAAAAAA
2304288 CCAGCATTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
11 10 0.18
12 9 0.16
13 27 0.49
14 1 0.02
15 8 0.15
ACGTcount: A:0.84, C:0.03, G:0.10, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:2304976 original size:18 final size:18
Alignment explanation
Indices: 2304949--2304998 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
2304939 TGATAGGAGG
*
2304949 AGAGATAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
*
2304967 AGAGAGAGGA-AGGATGAT
1 AGAGAGAGGAGA-GATAAT
2304985 AG-GAGAAGGAGAGA
1 AGAGAG-AGGAGAGA
2304999 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.15
18 22 0.81
19 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.42, T:0.10
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:2307520 original size:12 final size:11
Alignment explanation
Indices: 2307498--2307573 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2307488 AGAGAAAGAA
*
2307498 GAGAGAGGAGG
1 GAGATAGGAGG
2307509 GATGATAGGAGG
1 GA-GATAGGAGG
*
2307521 AGAGACAGGA--
1 -GAGATAGGAGG
*
2307531 GAGATAGTA--
1 GAGATAGGAGG
2307540 GAGATAGGAGG
1 GAGATAGGAGG
2307551 GATGATAGGAGG
1 GA-GATAGGAGG
*
2307563 AGAGACAGGAG
1 -GAGATAGGAG
2307574 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2307530 original size:24 final size:24
Alignment explanation
Indices: 2307497--2307582 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2307487 AAGAGAAAGA
*
2307497 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
2307521 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2307539 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2307563 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
2307583 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2307549 original size:42 final size:42
Alignment explanation
Indices: 2307488--2307606 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2307478 TAGCCCTCAA
* *
2307488 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2307530 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2307572 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2307607 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2314165 original size:43 final size:44
Alignment explanation
Indices: 2314104--2314195 Score: 168
Period size: 43 Copynumber: 2.1 Consensus size: 44
2314094 TTGTTATTTT
2314104 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCA-TAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
*
2314147 GGTTTCATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
2314191 GGTTT
1 GGTTT
2314196 GTGTTAATGT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 39 0.83
44 8 0.17
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (44 bp):
GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAAGTCCATTAG
Found at i:2324975 original size:12 final size:12
Alignment explanation
Indices: 2324960--2325039 Score: 80
Period size: 12 Copynumber: 6.9 Consensus size: 12
2324950 TCTATTATCT
2324960 CTCCTATCTCTC
1 CTCCTATCTCTC
2324972 CTCCTATCATC-C
1 CTCCTATC-TCTC
*
2324984 TTCCTA--TCT-
1 CTCCTATCTCTC
* *
2324993 CTACTATCTTTC
1 CTCCTATCTCTC
2325005 CTCCTATCTCTC
1 CTCCTATCTCTC
2325017 CTCCTATCATC-C
1 CTCCTATC-TCTC
2325029 CTCCTATCTCT
1 CTCCTATCTCT
2325040 ACTATCTTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
9 6 0.11
11 4 0.07
12 41 0.75
13 4 0.07
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.42
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:2324992 original size:33 final size:33
Alignment explanation
Indices: 2324955--2325039 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
2324945 CTCTCTCTAT
*
2324955 TATCTCTCCTATCTCTCCTCCTATCATC-CTTCC
1 TATCTCTCCTATCTCTCCTCCTATC-TCTCCTCC
* *
2324988 TATCTCTACTATCTTTCCTCCTATCTCTCCTCC
1 TATCTCTCCTATCTCTCCTCCTATCTCTCCTCC
2325021 TATCATCCCTCCTATCTCT
1 TATC-T--CTCCTATCTCT
2325040 ACTATCTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 2 0.05
33 31 0.72
34 1 0.02
36 9 0.21
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.44
Consensus pattern (33 bp):
TATCTCTCCTATCTCTCCTCCTATCTCTCCTCC
Found at i:2324999 original size:21 final size:20
Alignment explanation
Indices: 2324975--2325057 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 20
2324965 ATCTCTCCTC
2324975 CTATCATCCTTCCTATCTCTA
1 CTATCATCC-TCCTATCTCTA
* *
2324996 CTATCTTTCCTCCTATCTCTCCTC
1 CTATC-ATCCTCCTA--TCT-CTA
2325020 CTATCATCCCTCCTATCTCTA
1 CTATCAT-CCTCCTATCTCTA
*
2325041 CTATCTTTCCTCCTATC
1 CTATC-ATCCTCCTATC
2325058 ATACCTCTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 26 0.51
22 7 0.14
23 4 0.08
24 14 0.27
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.43
Consensus pattern (20 bp):
CTATCATCCTCCTATCTCTA
Found at i:2325009 original size:45 final size:45
Alignment explanation
Indices: 2324927--2325057 Score: 198
Period size: 45 Copynumber: 3.0 Consensus size: 45
2324917 TTCTCTTCTC
* *
2324927 CTCCTCCTATCATCCCTT-CTCTCTCTATTATC--T-CTCCTATCT
1 CTCCTCCTATCAT-CCTTCCTATCTCTACTATCTTTCCTCCTATCT
2324969 CTCCTCCTATCATCCTTCCTATCTCTACTATCTTTCCTCCTATCT
1 CTCCTCCTATCATCCTTCCTATCTCTACTATCTTTCCTCCTATCT
*
2325014 CTCCTCCTATCATCCCTCCTATCTCTACTATCTTTCCTCCTATC
1 CTCCTCCTATCATCCTTCCTATCTCTACTATCTTTCCTCCTATC
2325058 ATACCTCTTA
Statistics
Matches: 82, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
41 4 0.05
42 25 0.30
44 1 0.01
45 52 0.63
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.44
Consensus pattern (45 bp):
CTCCTCCTATCATCCTTCCTATCTCTACTATCTTTCCTCCTATCT
Found at i:2325045 original size:33 final size:33
Alignment explanation
Indices: 2325008--2325070 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
2324998 ATCTTTCCTC
*
2325008 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
1 CTATCTCTCCTCCTATCATACCTCCTATCTCTA
* *
2325041 CTATCTTTCCTCCTATCATACCTCTTATCT
1 CTATCTCTCCTCCTATCATACCTCCTATCT
2325071 TTTCTTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.16, C:0.41, G:0.00, T:0.43
Consensus pattern (33 bp):
CTATCTCTCCTCCTATCATACCTCCTATCTCTA
Found at i:2325064 original size:12 final size:10
Alignment explanation
Indices: 2324955--2325057 Score: 59
Period size: 12 Copynumber: 9.4 Consensus size: 10
2324945 CTCTCTCTAT
2324955 TATCT-CTCC
1 TATCTCCTCC
2324964 TATCTCTCCTCC
1 TA--TCTCCTCC
2324976 TATCATCCTTCC
1 TATC-TCC-TCC
*
2324988 TATCT-CTAC
1 TATCTCCTCC
2324997 TATCTTTCCTCC
1 TATC--TCCTCC
2325009 TATCTCTCCTCC
1 TA--TCTCCTCC
2325021 TATCATCCCTCC
1 TATC-T-CCTCC
*
2325033 TATCT-CTAC
1 TATCTCCTCC
2325042 TATCTTTCCTCC
1 TATC--TCCTCC
2325054 TATC
1 TATC
2325058 ATACCTCTTA
Statistics
Matches: 75, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
9 15 0.20
10 5 0.07
11 11 0.15
12 42 0.56
14 2 0.03
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.44
Consensus pattern (10 bp):
TATCTCCTCC
Found at i:2325857 original size:21 final size:21
Alignment explanation
Indices: 2325831--2325870 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2325821 TTTTTCCTCT
2325831 CTTTTTTTTTTGTATTCTTTC
1 CTTTTTTTTTTGTATTCTTTC
2325852 CTTTTTTTTTTGTATTCTT
1 CTTTTTTTTTTGTATTCTT
2325871 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.78
Consensus pattern (21 bp):
CTTTTTTTTTTGTATTCTTTC
Found at i:2327736 original size:19 final size:20
Alignment explanation
Indices: 2327709--2327746 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2327699 CTCTTATTTT
*
2327709 TCTTGTTTTT-CTTACACTC
1 TCTTCTTTTTCCTTACACTC
2327728 TCTTCTTTTTCCTTACACT
1 TCTTCTTTTTCCTTACACT
2327747 TGATCTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.11, C:0.29, G:0.03, T:0.58
Consensus pattern (20 bp):
TCTTCTTTTTCCTTACACTC
Found at i:2328233 original size:21 final size:20
Alignment explanation
Indices: 2328209--2328253 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2328199 CTACAATTCA
2328209 TATCGATAAAATAAG-GTAATG
1 TATCGAT-AAATAAGTG-AATG
*
2328230 TATCGATACATAAGTGAATG
1 TATCGATAAATAAGTGAATG
2328250 TATC
1 TATC
2328254 AATCCATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATAAATAAGTGAATG
Found at i:2336345 original size:159 final size:159
Alignment explanation
Indices: 2335745--2336503 Score: 597
Period size: 159 Copynumber: 4.8 Consensus size: 159
2335735 TGGGAAACGA
* * * * * * * *
2335745 GATATTGATGCCTTGGTTTCCAAAGAAAAGCTTTTCTTGCCATCA-TTTCCTTTAGAATCAAAGT
1 GATATTGATGCTTTGGTTTCCCAAGGAATGCTTTTCTTCCCATCATTTTCC-ATAGAATCGAATT
* * * * * * * * *
2335809 TTGTCCCTAAAAT-AAGACAAACATAGATGCACATAATAATCTCCAATATTTCTATGATTCAGCT
65 TTGTCCCTCAAATGAA-ACAAACATGGATTCTCATAATAATCTCCATTATTTTTGTGATTGAGAT
* * *
2335873 ATAAAAACAAAATCCCCTCATTGAGATACAT
129 ATAAAAACACATTCTCCTCATTGAGATACAT
* ** * * * *
2335904 GATATTAATGCTTTGGTTTCCCAAGGAACACTTTTGTTCCCATCATTTTTCATAGAATAGAAATT
1 GATATTGATGCTTTGGTTTCCCAAGGAATGCTTTTCTTCCCATCATTTTCCATAGAATCGAATTT
* * * * * * * *
2335969 TGTCCCTCAAATGAGATAAACTTGGATTGTCGA-AATAATCGCTATTGTTCTTGTGATTGAGCA-
66 TGTCCCTCAAATGAAACAAACATGGATTCTC-ATAATAATCTCCATTATTTTTGTGATTGAG-AT
** **** * * *
2336032 ACGAAAATGTGTTCTACT-ATTTAGGTTACAT
129 ATAAAAACACATTCTCCTCATTGA-GATACAT
* * * * * * * * * *
2336063 GATATTTATGTCTTT-ATTTTCTAAGGAAAAGCTTTTCTTCCTATCATTTTCCTTAAAATCAAAG
1 GATATTGATG-CTTTGGTTTCCCAAGG-AATGCTTTTCTTCCCATCATTTTCCATAGAATCGAAT
* * * * * * *
2336127 TTTGTACCTCAAATAAAATAAACATGCATTCTTATATTAATCTCCATT-TTTTTCATGATTGAGA
64 TTTGTCCCTCAAATGAAACAAACATGGATTCTCATAATAATCTCCATTATTTTT-GTGATTGAGA
*
2336191 TATAAAAACACATTCTCCTCATTGAGTTACAT
128 TATAAAAACACATTCTCCTCATTGAGATACAT
** * * * *
2336223 GATATTGACACTTTGGTTTTCCAAGGAATGTTTTTCTTTCCATCATTTTTCATAGAATCGAATTT
1 GATATTGATGCTTTGGTTTCCCAAGGAATGCTTTTCTTCCCATCATTTTCCATAGAATCGAATTT
* * * *
2336288 TGTCCCTCAAATGAAACAAAAATGGGTTCTCATAATAATCTCCATTACTTTTGTGATT-AGGCT-
66 TGTCCCTCAAATGAAACAAACATGGATTCTCATAATAATCTCCATTATTTTTGTGATTGA-GATA
*
2336351 TAAAAACACATTCTCCTCA-TGGGATACAT
130 TAAAAACACATTCTCCTCATTGAGATACAT
* * *
2336380 GATATTGATGCTTTGGTTACCCATGGAATGTTTTTCTTCCCATCATTTTCCATAGAATC-AATGT
1 GATATTGATGCTTTGGTTTCCCAAGGAATGCTTTTCTTCCCATCATTTTCCATAGAATCGAAT-T
* * * * **
2336444 TCG-CCTCTCAATTGAGACAAACATGGATTCTCATAGTAATCTTAATTATTTTTGTGATTG
65 TTGTCC-CTCAAATGAAACAAACATGGATTCTCATAATAATCTCCATTATTTTTGTGATTG
2336504 GCCTATAAAA
Statistics
Matches: 465, Mismatches: 118, Indels: 35
0.75 0.19 0.06
Matches are distributed among these distances:
156 5 0.01
157 108 0.23
158 24 0.05
159 205 0.44
160 119 0.26
161 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (159 bp):
GATATTGATGCTTTGGTTTCCCAAGGAATGCTTTTCTTCCCATCATTTTCCATAGAATCGAATTT
TGTCCCTCAAATGAAACAAACATGGATTCTCATAATAATCTCCATTATTTTTGTGATTGAGATAT
AAAAACACATTCTCCTCATTGAGATACAT
Found at i:2337022 original size:155 final size:154
Alignment explanation
Indices: 2336757--2337039 Score: 344
Period size: 155 Copynumber: 1.8 Consensus size: 154
2336747 TGAGACAAAA
*
2336757 ATGGATTCTCATTATAATCTCTATTGTTTTAGTGATTAGGGTATAAAAACATGTTCTCCTCATTA
1 ATGGATTCTCATTATAATCTCTATTGTTTTAGT-ATTAGGGTATAAAAACATGTTCTCCTCAGTA
* ** * * *
2336822 GAATACATGATATCGATACTTTGGTTTCCCAAGGAATATTTTTCTTCCCATCATTTTCCATAGAA
65 GAATACACGATATAAATACCTTGGTTTCCCAAGGAATACTGTTCTT---AT-ATTTTCCATAGAA
2336887 TTAAAGTTTATCCCTCAAATAAGATAAAC
126 TTAAAGTTTATCCCTCAAATAAGATAAAC
*
2336916 ATGGATTCTTA-TAGTAATCTCTATT-TTTT-GT-TT-GGGCTATAAAAACATGTTCTCCTCAGT
1 ATGGATTCTCATTA-TAATCTCTATTGTTTTAGTATTAGGG-TATAAAAACATGTTCTCCTCAGT
* * * *
2336976 GGGATACACGATATAAATGCCTTGGTTTCCTAAGGAACT-CTGTTCTTATATTTTCCATAGAATT
64 AGAATACACGATATAAATACCTTGGTTTCCCAAGGAA-TACTGTTCTTATATTTTCCATAGAATT
2337040 GATGTTCTCC
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
151 15 0.14
152 2 0.02
154 3 0.03
155 59 0.54
156 1 0.01
157 2 0.02
158 6 0.06
159 21 0.19
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (154 bp):
ATGGATTCTCATTATAATCTCTATTGTTTTAGTATTAGGGTATAAAAACATGTTCTCCTCAGTAG
AATACACGATATAAATACCTTGGTTTCCCAAGGAATACTGTTCTTATATTTTCCATAGAATTAAA
GTTTATCCCTCAAATAAGATAAAC
Found at i:2337342 original size:158 final size:158
Alignment explanation
Indices: 2337065--2337356 Score: 363
Period size: 158 Copynumber: 1.8 Consensus size: 158
2337055 AGGATTTATG
** * * *
2337065 ATATTGATGCTTTTGTTTGCAAAGAAAAGCTTTTCTTCCTATAATTTTCCTTAAAATCAAAGTTC
1 ATATTGATGCCGTGGTTTGCAAAGAAAAGCTTTTCTTCCTATAATTTTCATTAAAATCAAAGTAC
* * * * * * *
2337130 ATCCCTCAAATGAGACAAACATAGATTCTTGTAGTAATTTCTATTGTTTTCATGATTGGGCAATA
66 ATCCCTCAAATGAGAAAAACATAGATTCTTATAATAATTTCCATTATTTTCATGAATAGGCAATA
2337195 AAAAATATTCTTTTTGTTAGGATGCACA
131 AAAAATATTCTTTTTGTTAGGATGCACA
* * * *
2337223 ATATTGATGCCGTGGTTTGCAAAGAAAAGGTTTTCTTCTTATAATTTTTATTAGAATCAAAGTAC
1 ATATTGATGCCGTGGTTTGCAAAGAAAAGCTTTTCTTCCTATAATTTTCATTAAAATCAAAGTAC
* ** * *
2337288 ATCCCTTAAATGAGAAAAAGGTCA-ATTTTTATAATAA-TTCACATTATTTTCATGAATATGCAA
66 ATCCCTCAAATGAGAAAAACAT-AGATTCTTATAATAATTTC-CATTATTTTCATGAATAGGCAA
2337351 TAAAAA
129 TAAAAA
2337357 GCATATGTTC
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
157 3 0.03
158 107 0.96
159 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (158 bp):
ATATTGATGCCGTGGTTTGCAAAGAAAAGCTTTTCTTCCTATAATTTTCATTAAAATCAAAGTAC
ATCCCTCAAATGAGAAAAACATAGATTCTTATAATAATTTCCATTATTTTCATGAATAGGCAATA
AAAAATATTCTTTTTGTTAGGATGCACA
Found at i:2341941 original size:120 final size:120
Alignment explanation
Indices: 2341728--2341965 Score: 440
Period size: 120 Copynumber: 2.0 Consensus size: 120
2341718 AAAGAAGCAG
* *
2341728 AAAAAAATAACAAAACTAGAATAGATTAGAGATGCAGAATGGCGCCACAATCACAAGATTGATAA
1 AAAAAAATAACAAAACCAGAATAGATTAGAGATGAAGAATGGCGCCACAATCACAAGATTGATAA
2341793 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAGA
66 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAGA
* *
2341848 AAAAAAATAACAAAACCGGAATAGATTAGAGATGAAGGATGGCGCCACAATCACAAGATTGATAA
1 AAAAAAATAACAAAACCAGAATAGATTAGAGATGAAGAATGGCGCCACAATCACAAGATTGATAA
2341913 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAA
66 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAA
2341966 AATTGGCTCA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.17
Consensus pattern (120 bp):
AAAAAAATAACAAAACCAGAATAGATTAGAGATGAAGAATGGCGCCACAATCACAAGATTGATAA
GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAGA
Found at i:2343558 original size:120 final size:120
Alignment explanation
Indices: 2343428--2343665 Score: 467
Period size: 120 Copynumber: 2.0 Consensus size: 120
2343418 AAAGAAGCAG
2343428 AAAAAAATAACAAAACCGGAATAGATTAGAGATAAAGGATGGCGCCACAATCACAAGATTGATAA
1 AAAAAAATAACAAAACCGGAATAGATTAGAGATAAAGGATGGCGCCACAATCACAAGATTGATAA
2343493 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAGA
66 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAGA
*
2343548 AAAAAAATAACAAAACCGGAATAGATTAGAGATGAAGGATGGCGCCACAATCACAAGATTGATAA
1 AAAAAAATAACAAAACCGGAATAGATTAGAGATAAAGGATGGCGCCACAATCACAAGATTGATAA
2343613 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAA
66 GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAA
2343666 AATTGGCTCA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.17
Consensus pattern (120 bp):
AAAAAAATAACAAAACCGGAATAGATTAGAGATAAAGGATGGCGCCACAATCACAAGATTGATAA
GCCAAAAGGAATGATCGCCACAAGAGTCTTGGCCTCTTGATAAGATCCAGAAAGA
Found at i:2344298 original size:29 final size:29
Alignment explanation
Indices: 2344208--2344306 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
2344198 GAATAAAGGT
2344208 TGGAGCCCAATTCATATGTCCAAGAAGAG
1 TGGAGCCCAATTCATATGTCCAAGAAGAG
* * * * **
2344237 TGAAGCCCAATTTGCATATATTC-AG-GGCT
1 TGGAGCCCAA-TT-CATATGTCCAAGAAGAG
*
2344266 TGGAGCCCAATTCATATGTCCAAGAAAAG
1 TGGAGCCCAATTCATATGTCCAAGAAGAG
2344295 TGGAGCCCAATT
1 TGGAGCCCAATT
2344307 TGCATGTATT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
27 7 0.13
28 4 0.08
29 31 0.58
30 4 0.08
31 7 0.13
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (29 bp):
TGGAGCCCAATTCATATGTCCAAGAAGAG
Found at i:2344302 original size:58 final size:58
Alignment explanation
Indices: 2344207--2344316 Score: 193
Period size: 58 Copynumber: 1.9 Consensus size: 58
2344197 AGAATAAAGG
*
2344207 TTGGAGCCCAATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCAGGGC
1 TTGGAGCCCAATTCATATGTCCAAGAAAAGTGAAGCCCAATTTGCATATATTCAGGGC
* *
2344265 TTGGAGCCCAATTCATATGTCCAAGAAAAGTGGAGCCCAATTTGCATGTATT
1 TTGGAGCCCAATTCATATGTCCAAGAAAAGTGAAGCCCAATTTGCATATATT
2344317 TATGGGATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (58 bp):
TTGGAGCCCAATTCATATGTCCAAGAAAAGTGAAGCCCAATTTGCATATATTCAGGGC
Found at i:2345041 original size:174 final size:174
Alignment explanation
Indices: 2344751--2345102 Score: 578
Period size: 174 Copynumber: 2.0 Consensus size: 174
2344741 TTCGCTTGAC
* * *
2344751 TTTGAAGACGATCCTAGGGGTCCAATTCCATCCAATCGGGTTTTAGGTTGTGATTTTCAGCCTAA
1 TTTGAAGACAATCCTAGGGGTCCAATTCCATCCAATCAGGTTTTAGGTTGTGAATTTCAGCCTAA
* * * *
2344816 TGTTCCCATTATTCTTTTAGGAATGTCATTATAATTTCCACAAGCTTTATTATCTGAGCTTGCAT
66 TGTTCCCATTATTCTTTCAGGAATATCATCATAATTTCCACAAGCTTTATTATCTAAGCTTGCAT
2344881 TTTGTCTTGCTGACGATTCATCTAATCTTAAGCTTCTTTGTACA
131 TTTGTCTTGCTGACGATTCATCTAATCTTAAGCTTCTTTGTACA
*
2344925 TTTGAAGACAATCTTAGGGGTCCAATTCCATCCAATCAGGTTTTAGGTTGTGAATTTCAGCCTAA
1 TTTGAAGACAATCCTAGGGGTCCAATTCCATCCAATCAGGTTTTAGGTTGTGAATTTCAGCCTAA
** * * *
2344990 TGTTTGCATTATTCTTTCATGAATATCGTCATAATTTCCATAAGCTTTATTATCTAAGCTTGCAT
66 TGTTCCCATTATTCTTTCAGGAATATCATCATAATTTCCACAAGCTTTATTATCTAAGCTTGCAT
*
2345055 TTTGTCTTGCTGACGATTCATCTAATCTTAAGCTTTTTTGTACA
131 TTTGTCTTGCTGACGATTCATCTAATCTTAAGCTTCTTTGTACA
2345099 TTTG
1 TTTG
2345103 CTCGAGCTGC
Statistics
Matches: 164, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
174 164 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (174 bp):
TTTGAAGACAATCCTAGGGGTCCAATTCCATCCAATCAGGTTTTAGGTTGTGAATTTCAGCCTAA
TGTTCCCATTATTCTTTCAGGAATATCATCATAATTTCCACAAGCTTTATTATCTAAGCTTGCAT
TTTGTCTTGCTGACGATTCATCTAATCTTAAGCTTCTTTGTACA
Found at i:2350850 original size:18 final size:18
Alignment explanation
Indices: 2350827--2350934 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 18
2350817 ATCTTCTTCT
2350827 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
2350845 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
2350866 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
*
2350887 CTCCTATCTCTACTATC-TCTC
1 CTCC--TC-CTCCTATCATC-C
2350908 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
2350929 CTCCTC
1 CTCCTC
2350935 TCTCTTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
17 3 0.04
18 14 0.20
19 4 0.06
20 6 0.09
21 22 0.31
22 6 0.09
23 4 0.06
24 8 0.11
25 3 0.04
ACGTcount: A:0.10, C:0.48, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:2350882 original size:42 final size:42
Alignment explanation
Indices: 2350830--2350948 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
2350820 TTCTTCTCTC
*
2350830 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
2350872 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
2350914 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
2350949 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:2350889 original size:12 final size:11
Alignment explanation
Indices: 2350863--2350938 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2350853 TCTATTATCT
*
2350863 CTCCTGTCTCTC
1 CTCCTATCTC-C
2350875 CTCCTATCATCC
1 CTCCTATC-TCC
2350887 CTCCTATCT--
1 CTCCTATCTCC
*
2350896 CTACTATCT--
1 CTCCTATCTCC
*
2350905 CTCCTGTCTCTC
1 CTCCTATCTC-C
2350917 CTCCTATCATCC
1 CTCCTATC-TCC
*
2350929 CTCCTCTCTC
1 CTCCTATCTC
2350939 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:2355903 original size:11 final size:10
Alignment explanation
Indices: 2355876--2355906 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2355866 TCATAAACAA
2355876 GATAAAAAAG
1 GATAAAAAAG
2355886 GATAAAAAAG
1 GATAAAAAAG
*
2355896 GATGAAAAAG
1 GATAAAAAAG
2355906 G
1 G
2355907 GGTTATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.10
Consensus pattern (10 bp):
GATAAAAAAG
Found at i:2358765 original size:53 final size:51
Alignment explanation
Indices: 2358640--2358766 Score: 148
Period size: 53 Copynumber: 2.4 Consensus size: 51
2358630 GAGGGTATGA
* * * *
2358640 TGCCAATGCGCTATTTCAAGGGCAGCAACATTAGTTTTAAAGATGATAAGGG
1 TGCCAATGTGCTA-TTCAAGGCCAACAACATTAGTTCTAAAGATGATAAGGG
* *
2358692 TGCCAATGTGTTAATCCAAGGCCAACAACATTAGACTTCTAAAGA-GATAAGGG
1 TGCCAATGTGCT-ATTCAAGGCCAACAACATTAG--TTCTAAAGATGATAAGGG
2358745 TGCCAATGTGCTGATTCAAGGC
1 TGCCAATGTGCT-ATTCAAGGC
2358767 TAGTGACATT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
52 27 0.43
53 28 0.44
54 8 0.13
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (51 bp):
TGCCAATGTGCTATTCAAGGCCAACAACATTAGTTCTAAAGATGATAAGGG
Found at i:2358776 original size:53 final size:52
Alignment explanation
Indices: 2358675--2358834 Score: 164
Period size: 52 Copynumber: 3.0 Consensus size: 52
2358665 CAACATTAGT
* * * * ** *
2358675 TTTAAAGATGATAAGGGTGCCAATGTGTTAATCCAAGGCCAACAACATTAGAC
1 TTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAGG-CTAGTACATTGGAC
2358728 TTCTAAAGA-GATAAGGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGAC
1 TT-TAAAGATGATAAGGGTGCCAATGTGCTGATTCAAGGCTAGT-ACATTGGAC
** *
2358781 -TTAAAGATG-GGAGGAATGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAC
1 TTTAAAGATGATAAGG-GTGCCAATGTGCTGATTCAAGGCTAG-TACATTGGAC
2358833 TT
1 TT
2358835 AGAAGGAGAT
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
51 9 0.10
52 38 0.42
53 38 0.42
54 6 0.07
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
TTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAGGCTAGTACATTGGAC
Found at i:2358946 original size:111 final size:111
Alignment explanation
Indices: 2358744--2358946 Score: 259
Period size: 111 Copynumber: 1.8 Consensus size: 111
2358734 AGAGATAAGG
* * *
2358744 GTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGGGAGGAATGCCAATGTGCT
1 GTGCCAATGTGCAGATTCAAGGCTAGTGACATTGGACTTAAAGATGGAAGG-ATACCAATGTGCT
* * * *
2358809 GATTCAAGGCTAGCTACATTGGACTTAGAAGGAGATTTTTGACAAAT
65 GATCCAAGGCTAGCGACATCGAACTTAGAAGGAGATTTTTGACAAAT
*
2358856 GTGCCAATGTGCAGATTCAAGGTCTA-TGACATT-GTCTTAAAGATGATGAAGG-TACCAATGTG
1 GTGCCAATGTGCAGATTCAAGG-CTAGTGACATTGGACTTAAAGATG--GAAGGATACCAATGTG
* *
2358918 TTGATCCAAGGCTAGCGATATCGAACTTA
63 CTGATCCAAGGCTAGCGACATCGAACTTA
2358947 AAGATGATGA
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
111 43 0.55
112 28 0.36
113 7 0.09
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (111 bp):
GTGCCAATGTGCAGATTCAAGGCTAGTGACATTGGACTTAAAGATGGAAGGATACCAATGTGCTG
ATCCAAGGCTAGCGACATCGAACTTAGAAGGAGATTTTTGACAAAT
Found at i:2359239 original size:33 final size:33
Alignment explanation
Indices: 2359136--2359362 Score: 253
Period size: 33 Copynumber: 6.9 Consensus size: 33
2359126 CTTAGAAGGA
* *
2359136 GATGCCACCGACTTGTGTGGGCTTTTG-AGAGG
1 GATGCCACCGACTTGTGTGGGCTTTTGAAAAAG
* * **
2359168 GTTGCCACCAACTTGTGTGGGC-TTTGAAAGGG
1 GATGCCACCGACTTGTGTGGGCTTTTGAAAAAG
* * *
2359200 GTTGCCACCAACTTGTGTGGTCTTTTGAAAAAG
1 GATGCCACCGACTTGTGTGGGCTTTTGAAAAAG
*
2359233 GATGCCACCGACTTGTGTGGG-TTTTGAAAAAAAA
1 GATGCCACCGACTTGTGTGGGCTTTTG--AAAAAG
* * *
2359267 GTTGCCACCGACTTATGTGGGCTTTGGAAAAAG
1 GATGCCACCGACTTGTGTGGGCTTTTGAAAAAG
* *
2359300 GATGCCACCAACTTGTGTGGGCTTTTGAAAAAA
1 GATGCCACCGACTTGTGTGGGCTTTTGAAAAAG
* * *
2359333 AATGCCACCGACTTATGTGGGCCTTTGAAA
1 GATGCCACCGACTTGTGTGGGCTTTTGAAA
2359363 GGGTGCCACA
Statistics
Matches: 166, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
31 4 0.02
32 49 0.30
33 85 0.51
34 24 0.14
35 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (33 bp):
GATGCCACCGACTTGTGTGGGCTTTTGAAAAAG
Found at i:2359303 original size:67 final size:67
Alignment explanation
Indices: 2359138--2359359 Score: 265
Period size: 67 Copynumber: 3.4 Consensus size: 67
2359128 TAGAAGGAGA
* * * * * * ***
2359138 TGCCACCGACTTGTGTGGGCTTTTG-AGAGGGTTGCCACCAACTTGTGTGGGCTTTG--AAAGGG
1 TGCCACCGACTTATGTGGGCTTTGGAAAAAGGATGCCACCAACTTGTGTGGGTTTTGAAAAAAAA
2359200 GT
66 GT
* * * * *
2359202 TGCCACCAACTTGTGTGGTCTTTTGAAAAAGGATGCCACCGACTTGTGTGGGTTTTGAAAAAAAA
1 TGCCACCGACTTATGTGGGCTTTGGAAAAAGGATGCCACCAACTTGTGTGGGTTTTGAAAAAAAA
2359267 GT
66 GT
2359269 TGCCACCGACTTATGTGGGCTTTGGAAAAAGGATGCCACCAACTTGTGTGGGCTTTTGAAAAAAA
1 TGCCACCGACTTATGTGGGCTTTGGAAAAAGGATGCCACCAACTTGTGTGGG-TTTTGAAAAAAA
2359334 A--
65 AGT
2359335 TGCCACCGACTTATGTGGGCCTTTG
1 TGCCACCGACTTATGTGGG-CTTTG
2359360 AAAGGGTGCC
Statistics
Matches: 138, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
64 23 0.17
65 26 0.19
66 19 0.14
67 57 0.41
68 13 0.09
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (67 bp):
TGCCACCGACTTATGTGGGCTTTGGAAAAAGGATGCCACCAACTTGTGTGGGTTTTGAAAAAAAA
GT
Found at i:2359709 original size:52 final size:52
Alignment explanation
Indices: 2359653--2359766 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
2359643 AAGCTGGATT
* * *
2359653 TTAAAGATGATAAAGGTATCAACATGCTA-ATTCAAGGCCAGCAACATTGGAC
1 TTAAAGATGAGAAAGGTACCAACATGC-AGATCCAAGGCCAGCAACATTGGAC
* * ** **
2359705 TTAAATATGAGAAAGGTGCCAATGTGCAGATCCAAGGCCAGTGACATTGGAC
1 TTAAAGATGAGAAAGGTACCAACATGCAGATCCAAGGCCAGCAACATTGGAC
2359757 TTAAAGATGA
1 TTAAAGATGA
2359767 CAAATTTTGA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 1 0.02
52 50 0.98
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (52 bp):
TTAAAGATGAGAAAGGTACCAACATGCAGATCCAAGGCCAGCAACATTGGAC
Done.