Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 34 of 141
Found at i:10249542 original size:25 final size:25
Alignment explanation
Indices: 10249493--10249664 Score: 177
Period size: 25 Copynumber: 6.9 Consensus size: 25
10249483 GAACACACCA
* **
10249493 TAGCTCTCACGAGCTTCTTGATATT
1 TAGCTCTCATGAGCTTCCCGATATT
* * *
10249518 TAGCACTCACGAGCTTCCCGTTATT
1 TAGCTCTCATGAGCTTCCCGATATT
* *
10249543 TAGCTCTTATGAGCATCCCGATATT
1 TAGCTCTCATGAGCTTCCCGATATT
* * *
10249568 TGGCTCTCACGAGCTTTCC-ATTATT
1 TAGCTCTCATGAGCTTCCCGA-TATT
*
10249593 TAGCTCTTATGAGCATT-CCGATATT
1 TAGCTCTCATGAGC-TTCCCGATATT
* *
10249618 TGGCTTTCATGAGCTTCCCGATATT
1 TAGCTCTCATGAGCTTCCCGATATT
*
10249643 TGGCTCTCATGAGCTTCCCGAT
1 TAGCTCTCATGAGCTTCCCGAT
10249665 TAACGGCTCT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
24 3 0.02
25 116 0.95
26 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (25 bp):
TAGCTCTCATGAGCTTCCCGATATT
Found at i:10249577 original size:50 final size:50
Alignment explanation
Indices: 10249512--10249664 Score: 207
Period size: 50 Copynumber: 3.1 Consensus size: 50
10249502 CGAGCTTCTT
* *
10249512 GATATTTAGCACTCACGAGCTTCCCGTTATTTAGCTCTTATGAGCATCCC
1 GATATTTGGCTCTCACGAGCTTCCCGTTATTTAGCTCTTATGAGCATCCC
* * *
10249562 GATATTTGGCTCTCACGAGCTTTCCATTATTTAGCTCTTATGAGCATTCC
1 GATATTTGGCTCTCACGAGCTTCCCGTTATTTAGCTCTTATGAGCATCCC
* * * * * *
10249612 GATATTTGGCTTTCATGAGCTTCCCGATATTTGGCTCTCATGAGCTTCCC
1 GATATTTGGCTCTCACGAGCTTCCCGTTATTTAGCTCTTATGAGCATCCC
10249662 GAT
1 GAT
10249665 TAACGGCTCT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (50 bp):
GATATTTGGCTCTCACGAGCTTCCCGTTATTTAGCTCTTATGAGCATCCC
Found at i:10249618 original size:75 final size:75
Alignment explanation
Indices: 10249495--10249659 Score: 201
Period size: 75 Copynumber: 2.2 Consensus size: 75
10249485 ACACACCATA
** *
10249495 GCTCTCACGAGCTTCTTGATATTTAGCACTCACGAGCTTCCCGTTATTTAGCTCTT-ATGAGCAT
1 GCTCTCACGAGCTTCTCCATATTTAGCACTCACGAGCTTCCCGATATTTAGCT-TTCATGAGCAT
10249559 CCCGATATTTG
65 CCCGATATTTG
* * * * *
10249570 GCTCTCACGAGCTT-TCCATTATTTAGCTCTTATGAGCATT-CCGATATTTGGCTTTCATGAGCT
1 GCTCTCACGAGCTTCTCCA-TATTTAGCACTCACGAGC-TTCCCGATATTTAGCTTTCATGAGCA
10249633 TCCCGATATTTG
64 TCCCGATATTTG
*
10249645 GCTCTCATGAGCTTC
1 GCTCTCACGAGCTTC
10249660 CCGATTAACG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
74 4 0.05
75 71 0.92
76 2 0.03
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.38
Consensus pattern (75 bp):
GCTCTCACGAGCTTCTCCATATTTAGCACTCACGAGCTTCCCGATATTTAGCTTTCATGAGCATC
CCGATATTTG
Found at i:10249672 original size:25 final size:25
Alignment explanation
Indices: 10249545--10249684 Score: 79
Period size: 25 Copynumber: 5.6 Consensus size: 25
10249535 CCGTTATTTA
* * **
10249545 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATACG
* * ***
10249570 GCTCTCACGAGCTTTCC-ATTATTTA
1 GCTCTCATGAGCTTCCCGA-TATACG
* **
10249595 GCTCTTATGAGCATT-CCGATATTTG
1 GCTCTCATGAGC-TTCCCGATATACG
* **
10249620 GCTTTCATGAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATACG
10249645 GCTCTCATGAGCTTCCCGAT-TAACG
1 GCTCTCATGAGCTTCCCGATAT-ACG
**
10249670 GCTCTTTTGAGCTTC
1 GCTCTCATGAGCTTC
10249685 TAGATAATTG
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
24 4 0.04
25 88 0.93
26 3 0.03
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATACG
Found at i:10249696 original size:75 final size:75
Alignment explanation
Indices: 10249551--10249697 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 75
10249541 TTTAGCTCTT
* ** *
10249551 ATGAGCATCCCGATATTTGGCTCTCACGAGCTTTCCATTATTTAGCTCTTATGAGCATTCCGATA
1 ATGAGCATCCCGATATTTGGCTCTCACGAGCTTCCCATTATACAGCTCTTATGAGCATTCAGATA
*
10249616 TTTGGCTTTC
66 ATTGGCTTTC
* * * *
10249626 ATGAGCTTCCCGATATTTGGCTCTCATGAGCTTCCCGATTA-ACGGCTCTTTTGAGC-TTCTAGA
1 ATGAGCATCCCGATATTTGGCTCTCACGAGCTTCCC-ATTATACAGCTCTTATGAGCATTC-AGA
10249689 TAATTGGCT
64 TAATTGGCT
10249698 CGTATAAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
74 3 0.05
75 54 0.89
76 4 0.07
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (75 bp):
ATGAGCATCCCGATATTTGGCTCTCACGAGCTTCCCATTATACAGCTCTTATGAGCATTCAGATA
ATTGGCTTTC
Found at i:10255796 original size:50 final size:50
Alignment explanation
Indices: 10255673--10255809 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
10255663 ACATACCATA
* * **
10255673 GCTCTCACGAGCTTTCCGTTATTTAGAGCTTATGAGCATCCCGATATTTG
1 GCTCTCACGAGCTTCCCGATATTTAGCTCTTATGAGCATCCCGATATTTG
*
10255723 GCTCTCACAAGCTTCCC-ATTATTTAGCTCTTATGAGCATCCCGATATTTG
1 GCTCTCACGAGCTTCCCGA-TATTTAGCTCTTATGAGCATCCCGATATTTG
* * * *
10255773 GCTTTCATGAGCTTCCCGATATTTGGCTCTCATGAGC
1 GCTCTCACGAGCTTCCCGATATTTAGCTCTTATGAGC
10255810 TTCTCGATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
50 74 0.99
51 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (50 bp):
GCTCTCACGAGCTTCCCGATATTTAGCTCTTATGAGCATCCCGATATTTG
Found at i:10255810 original size:25 final size:25
Alignment explanation
Indices: 10255673--10255817 Score: 143
Period size: 25 Copynumber: 5.8 Consensus size: 25
10255663 ACATACCATA
* * *
10255673 GCTCTCACGAGCTTTCCGTTATTTAG
1 GCTCTCATGAGCTTCCCGATATTT-G
*
10255699 AGCT-T-ATGAGCATCCCGATATTTG
1 -GCTCTCATGAGCTTCCCGATATTTG
** *
10255723 GCTCTCACAAGCTTCCC-ATTATTTA
1 GCTCTCATGAGCTTCCCGA-TATTTG
* *
10255748 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
*
10255773 GCTTTCATGAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATATTTG
*
10255798 GCTCTCATGAGCTTCTCGAT
1 GCTCTCATGAGCTTCCCGAT
10255818 TAACGGCTCT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
23 3 0.03
24 3 0.03
25 85 0.89
26 2 0.02
27 3 0.03
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATATTTG
Found at i:10255827 original size:75 final size:75
Alignment explanation
Indices: 10255704--10255843 Score: 174
Period size: 75 Copynumber: 1.9 Consensus size: 75
10255694 TTTAGAGCTT
** *
10255704 ATGAGCATCCCGATATTTGGCTCTCACAAGCTTCCCATTATTTAGCTCTTATGAGCATCCCGATA
1 ATGAGCATCCCGATATTTGGCTCTCACAAGCTTCCCATTATACAGCTCTTATGAGCATCCAGATA
10255769 TTTGGCTTTC
66 TTTGGCTTTC
* ** * * * *
10255779 ATGAGCTTCCCGATATTTGGCTCTCATGAGCTTCTCGATTA-ACGGCTCTTTTGAGCTTCCAGAT
1 ATGAGCATCCCGATATTTGGCTCTCACAAGCTTC-CCATTATACAGCTCTTATGAGCATCCAGAT
10255843 A
65 A
10255844 ATTGACTCGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 49 0.91
76 5 0.09
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (75 bp):
ATGAGCATCCCGATATTTGGCTCTCACAAGCTTCCCATTATACAGCTCTTATGAGCATCCAGATA
TTTGGCTTTC
Found at i:10255915 original size:25 final size:25
Alignment explanation
Indices: 10255860--10255915 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10255850 TCGTGCTCAC
*
10255860 ATGAGCTTCCTGTTATATGGCTCGG
1 ATGAGCTTCCTGTTACATGGCTCGG
* *
10255885 AAGAGCTTCCTGTTTACAT-GCTCGT
1 ATGAGCTTCCTG-TTACATGGCTCGG
10255910 ATGAGC
1 ATGAGC
10255916 ATACATGTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCTCGG
Found at i:10260906 original size:9 final size:9
Alignment explanation
Indices: 10260892--10260924 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10260882 TAAGTATAAA
10260892 AATTAACCG
1 AATTAACCG
*
10260901 AATTAACCA
1 AATTAACCG
10260910 AATTAACCG
1 AATTAACCG
10260919 AATTAA
1 AATTAA
10260925 AGCATTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:10264952 original size:20 final size:20
Alignment explanation
Indices: 10264927--10264972 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10264917 CTATGTCTAT
10264927 GTTTTAGTTTTAGACTTTTA
1 GTTTTAGTTTTAGACTTTTA
*
10264947 GTTTTAGTTTTAGATTTTTA
1 GTTTTAGTTTTAGACTTTTA
*
10264967 TTTTTA
1 GTTTTA
10264973 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.13, T:0.65
Consensus pattern (20 bp):
GTTTTAGTTTTAGACTTTTA
Found at i:10267646 original size:6 final size:6
Alignment explanation
Indices: 10267635--10267664 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10267625 GTTATTCATG
10267635 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
10267665 CAAAGCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:10270652 original size:17 final size:17
Alignment explanation
Indices: 10270630--10270662 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10270620 AGGCGTTGCC
10270630 TCATCA-CATCACACAAA
1 TCATCATCATCA-ACAAA
10270647 TCATCATCATCAACAA
1 TCATCATCATCAACAA
10270663 GGGTAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (17 bp):
TCATCATCATCAACAAA
Found at i:10271121 original size:41 final size:42
Alignment explanation
Indices: 10271068--10271159 Score: 161
Period size: 41 Copynumber: 2.2 Consensus size: 42
10271058 GCATGATGTA
*
10271068 CACT-CATGAAATCAACCTAGAAATTTAAAGCAAACAGCCTT
1 CACTGCATGAAATCAACCTAGAAATTTAAAGCAAAAAGCCTT
10271109 CACTGCAT-AAATCAACCTAGAAATTTAAAGCAAAAAGCCTT
1 CACTGCATGAAATCAACCTAGAAATTTAAAGCAAAAAGCCTT
10271150 CACTGCATGA
1 CACTGCATGA
10271160 TTGATATTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (42 bp):
CACTGCATGAAATCAACCTAGAAATTTAAAGCAAAAAGCCTT
Found at i:10272501 original size:97 final size:95
Alignment explanation
Indices: 10272298--10272621 Score: 499
Period size: 97 Copynumber: 3.4 Consensus size: 95
10272288 GATTTTATGG
* * * * *
10272298 TTTTAAGGAAAAAAT-AAATAAATAAGGGTTTAGGGTTTCTTAATTCAATTAATTATAAATTTT-
1 TTTTAA-GAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
10272361 AAAAAATTAGATTAGGGTTTAGTGTTTATGGT
65 AAAAAATTAGATTAGGGTTTAGTGTTTA-GGT
*
10272393 TTTTAAGAAAAAATCAAATAAATTAGTGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
1 TTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTTA
*
10272458 AAAAAATTAGATTAGGGTTTAGGGTTTAGGTT
65 AAAAAATTAGATTAGGGTTTAGTGTTTAGG-T
*
10272490 TTTTAAGAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
* *
10272555 AAAAATTAGATTAGGGTTTAGTATTTAGGG
66 AAAAATTAGATTAGGGTTTAGTGTTTAGGT
*
10272585 TTTTAAGAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTT
10272622 TAGGGTTAAT
Statistics
Matches: 211, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
94 8 0.04
95 79 0.37
96 39 0.18
97 85 0.40
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (95 bp):
TTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
AAAAATTAGATTAGGGTTTAGTGTTTAGGT
Found at i:10272654 original size:95 final size:95
Alignment explanation
Indices: 10272291--10272655 Score: 461
Period size: 97 Copynumber: 3.8 Consensus size: 95
10272281 GTTTTTAGAT
* * *
10272291 TTTATGGTTTTAAGGAAAAAAT-AAATAAATAAGGGTTTAGGGTTT-CTTAATTCAATTAATTAT
1 TTTAGGGTTTTAA-GAAAAAATCAAATAAATTAGGGTTTAGGGTTTACTTAATTAAATTAATTAT
10272354 AAATTTTAAAAAATTAGATTAGGGTTTAGTG
65 AAATTTTAAAAAATTAGATTAGGGTTTAGTG
* * * *
10272385 TTTATGGTTTTTAAGAAAAAATCAAATAAATTAGTGTTTAGGG-TTACTTGAGTAAATTAATTAT
1 TTTA-GGGTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTTACTTAATTAAATTAATTAT
*
10272449 AAATTTTTAAAAAAATTAGATTAGGGTTTAGGG
65 AAA-TTTT-AAAAAATTAGATTAGGGTTTAGTG
* * * *
10272482 TTTAGGTTTTTTAAGAAAAAATCAAATAAATTAAGGTTTAGGG-TTACTTGAGTAAATTAATTAT
1 TTTAGG-GTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTTACTTAATTAAATTAATTAT
*
10272546 AAATTTTAAAAAAATTAGATTAGGGTTTAGTA
65 AAATTTT-AAAAAATTAGATTAGGGTTTAGTG
* * * *
10272578 TTTAGGGTTTTAAGAAAAAATCAAATAAATTAGGGTTTGGGGTTTAGGGTTAATTAAATTATTTG
1 TTTAGGGTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTTA--CTTAATTAAATTAATTA
*
10272643 TTAA-TTTAAAAAA
64 TAAATTTTAAAAAA
10272656 GCTCCCACGT
Statistics
Matches: 241, Mismatches: 21, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
94 14 0.06
95 76 0.32
96 48 0.20
97 88 0.37
98 15 0.06
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (95 bp):
TTTAGGGTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTTACTTAATTAAATTAATTATA
AATTTTAAAAAATTAGATTAGGGTTTAGTG
Found at i:10272826 original size:126 final size:126
Alignment explanation
Indices: 10272654--10272945 Score: 451
Period size: 126 Copynumber: 2.3 Consensus size: 126
10272644 TAATTTAAAA
* *
10272654 AAGCTCCCACGTGGACGCTATTTTACTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTT
** * * *
10272719 CTGAGCAAATAGTGTCAAAAACGTTTTAAG-CAGGATGCATTGTCAACAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCCTCAAGTC-GGATGCAATGTCAACAAAAGTACAGAAAG
* * * * *
10272780 AAGCTCCCACATGGACGTTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTT
*
10272845 CTGAGCAAATAGTGTCAAAAACGCCTCAAGTCGGATGCAATGTCAGCAAAAGTACAGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCCTCAAGTCGGATGCAATGTCAACAAAAGTACAGAAAG
10272906 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTA
10272946 TTTGGCCTGA
Statistics
Matches: 148, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 147 0.99
127 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTT
CTGAGCAAATAGTGTCAAAAACGCCTCAAGTCGGATGCAATGTCAACAAAAGTACAGAAAG
Found at i:10277067 original size:7 final size:7
Alignment explanation
Indices: 10277057--10277088 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10277047 TTATATACAT
10277057 AATACTA
1 AATACTA
10277064 AATACTA
1 AATACTA
10277071 AATA-TA
1 AATACTA
10277077 AATACTA
1 AATACTA
10277084 AATAC
1 AATAC
10277089 GAATCAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:10277080 original size:13 final size:14
Alignment explanation
Indices: 10277057--10277088 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
10277047 TTATATACAT
10277057 AATACTAAATACTA
1 AATACTAAATACTA
10277071 AATA-TAAATACTA
1 AATACTAAATACTA
10277084 AATAC
1 AATAC
10277089 GAATCAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (14 bp):
AATACTAAATACTA
Found at i:10282544 original size:18 final size:20
Alignment explanation
Indices: 10282507--10282544 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
10282497 TACCCATGCA
*
10282507 TCGCCTTATTTCTTTTTCTC
1 TCGCCTTATTTCTATTTCTC
10282527 TCGCCTT-TTT-TATTTCTC
1 TCGCCTTATTTCTATTTCTC
10282545 CATATAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.05, C:0.29, G:0.05, T:0.61
Consensus pattern (20 bp):
TCGCCTTATTTCTATTTCTC
Found at i:10292216 original size:12 final size:13
Alignment explanation
Indices: 10292184--10292208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10292174 AAACAAACAA
10292184 ACAAAAATTAAGT
1 ACAAAAATTAAGT
10292197 ACAAAAATTAAG
1 ACAAAAATTAAG
10292209 AATAAAATAT
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:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
ACAAAAATTAAGT
Found at i:10294021 original size:50 final size:50
Alignment explanation
Indices: 10293966--10294107 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 50
10293956 TTAAGGGAAT
* *
10293966 GAGGTCCCATGTAAGACCATGTCTGGGTCATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
* * *
10294016 GAGGTCCCATGTAGGACCATGTCTGGGACATGGCATAGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
10294066 GAACATCTCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 G-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10294108 TGTTATTATC
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 46 0.58
51 33 0.42
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:10303269 original size:286 final size:286
Alignment explanation
Indices: 10302757--10303331 Score: 1105
Period size: 286 Copynumber: 2.0 Consensus size: 286
10302747 TTGTTATAGA
10302757 TGTTTAGGTGATAAATCATGCATAGAAATCATGAAAGAGTAAAATTTGCAAAGAAACAGATTTCA
1 TGTTTAGGTGATAAATCATGCATAGAAATCATGAAAGAGTAAAATTTGCAAAGAAACAGATTTCA
* * *
10302822 AGCAGCAACAGTGACGTGACTTTGAAAAATCACCTAGGATTGTATAAAATTTATTAGAAGGTGAA
66 AGCAGCAACAGTGACGTGACTTTGAAAAATCACCTAGGATAGTATAAAATTAATTAGAAAGTGAA
10302887 TGATATATAGAATTAAATCTTATTGAGTCTAATTTCATAGAAAAATAATGGTGTAGCAAAATGAA
131 TGATATATAGAATTAAATCTTATTGAGTCTAATTTCATAGAAAAATAATGGTGTAGCAAAATGAA
10302952 TTTTATATTTTAAGATATGTTAATTTTAGTGAGACAGGGTCAGAACTATTTTTGGAGTCCTCTAT
196 TTTTATATTTTAAGATATGTTAATTTTAGTGAGACAGGGTCAGAACTATTTTTGGAGTCCTCTAT
10303017 TCTGAGTTTAGAATATCATTAAAAAT
261 TCTGAGTTTAGAATATCATTAAAAAT
*
10303043 TGTTTAGGTGATAAATCATGCATAGAAATCATGAAAGAGTAAAATTTGCAAAGAAACATATTTCA
1 TGTTTAGGTGATAAATCATGCATAGAAATCATGAAAGAGTAAAATTTGCAAAGAAACAGATTTCA
*
10303108 AGTAGCAACAGTGACGTGACTTTGAAAAATCACCTAGGATAGTATAAAATTAATTAGAAAGTGAA
66 AGCAGCAACAGTGACGTGACTTTGAAAAATCACCTAGGATAGTATAAAATTAATTAGAAAGTGAA
10303173 TGATATATAGAATTAAATCTTATTGAGTCTAATTTCATAGAAAAATAATGGTGTAGCAAAATGAA
131 TGATATATAGAATTAAATCTTATTGAGTCTAATTTCATAGAAAAATAATGGTGTAGCAAAATGAA
10303238 TTTTATATTTTAAGATATGTTAATTTTAGTGAGACAGGGTCAGAACTATTTTTGGAGTCCTCTAT
196 TTTTATATTTTAAGATATGTTAATTTTAGTGAGACAGGGTCAGAACTATTTTTGGAGTCCTCTAT
10303303 TCTGAGTTTAGAATATCATTAAAAAT
261 TCTGAGTTTAGAATATCATTAAAAAT
10303329 TGT
1 TGT
10303332 ACAAAAATGG
Statistics
Matches: 284, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 284 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.34
Consensus pattern (286 bp):
TGTTTAGGTGATAAATCATGCATAGAAATCATGAAAGAGTAAAATTTGCAAAGAAACAGATTTCA
AGCAGCAACAGTGACGTGACTTTGAAAAATCACCTAGGATAGTATAAAATTAATTAGAAAGTGAA
TGATATATAGAATTAAATCTTATTGAGTCTAATTTCATAGAAAAATAATGGTGTAGCAAAATGAA
TTTTATATTTTAAGATATGTTAATTTTAGTGAGACAGGGTCAGAACTATTTTTGGAGTCCTCTAT
TCTGAGTTTAGAATATCATTAAAAAT
Found at i:10310278 original size:22 final size:22
Alignment explanation
Indices: 10310250--10310292 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10310240 ATCGATATCC
10310250 TTGGCCTTCTTGATGGTTGTTG
1 TTGGCCTTCTTGATGGTTGTTG
10310272 TTGGCCTTCTTGATGGTTGTT
1 TTGGCCTTCTTGATGGTTGTT
10310293 ACTTTGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.05, C:0.14, G:0.30, T:0.51
Consensus pattern (22 bp):
TTGGCCTTCTTGATGGTTGTTG
Found at i:10319737 original size:20 final size:20
Alignment explanation
Indices: 10319698--10319737 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10319688 GGCGGGCGGG
* *
10319698 CGGGCGGGTGGCTGGGTGGA
1 CGGGCGGGTGGATGGATGGA
10319718 CGGGCGGGTGGATGGATGGA
1 CGGGCGGGTGGATGGATGGA
10319738 TGATTGCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.12, G:0.62, T:0.15
Consensus pattern (20 bp):
CGGGCGGGTGGATGGATGGA
Found at i:10326753 original size:18 final size:18
Alignment explanation
Indices: 10326709--10326753 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
10326699 TCTAGTATAT
*
10326709 CCAAATTTCTAATGAATA
1 CCAAAATTCTAATGAATA
10326727 CCAAAAATTCT-ATGGAATA
1 CC-AAAATTCTAAT-GAATA
10326746 CCAAAATT
1 CCAAAATT
10326754 TTTAATGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.29
Consensus pattern (18 bp):
CCAAAATTCTAATGAATA
Found at i:10326874 original size:19 final size:19
Alignment explanation
Indices: 10326846--10326904 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
10326836 AGACCAATAG
10326846 CATG-TACTAAATTTCTAA
1 CATGATACTAAATTTCTAA
10326864 CATGATACTAAAATTTCTAA
1 CATGATACT-AAATTTCTAA
*
10326884 CA-GATACCAAAATTTCTAA
1 CATGATA-CTAAATTTCTAA
10326903 CA
1 CA
10326905 AAATACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 4 0.11
19 20 0.54
20 13 0.35
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (19 bp):
CATGATACTAAATTTCTAA
Found at i:10326879 original size:20 final size:20
Alignment explanation
Indices: 10326854--10326959 Score: 115
Period size: 20 Copynumber: 5.3 Consensus size: 20
10326844 AGCATGTACT
*
10326854 AAATTTCTAACATGATACTA
1 AAATTTCTAACATGATACCA
10326874 AAATTTCTAACA-GATACCA
1 AAATTTCTAACATGATACCA
**
10326893 AAATTTCTAACAAAATACCA
1 AAATTTCTAACATGATACCA
* *
10326913 AAATTTCTGACACGATACCA
1 AAATTTCTAACATGATACCA
* * * **
10326933 ATATATGTAATGTGATACCA
1 AAATTTCTAACATGATACCA
10326953 AAATTTC
1 AAATTTC
10326960 ATGTTCTTCA
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
19 18 0.26
20 52 0.74
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (20 bp):
AAATTTCTAACATGATACCA
Found at i:10326916 original size:39 final size:40
Alignment explanation
Indices: 10326854--10326933 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
10326844 AGCATGTACT
** *
10326854 AAATTTCTAACATGATACTAAAATTTCTAACA-GATACCA
1 AAATTTCTAACAAAATACCAAAATTTCTAACACGATACCA
*
10326893 AAATTTCTAACAAAATACCAAAATTTCTGACACGATACCA
1 AAATTTCTAACAAAATACCAAAATTTCTAACACGATACCA
10326933 A
1 A
10326934 TATATGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (40 bp):
AAATTTCTAACAAAATACCAAAATTTCTAACACGATACCA
Found at i:10331492 original size:23 final size:23
Alignment explanation
Indices: 10331465--10331521 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
10331455 AAAGGGAGAA
*
10331465 ATGATGTTGATTTTTTAAGAAAG
1 ATGATGTTGATTTTTTAAAAAAG
10331488 ATGATGTTGATTTTTTAAAAAAG
1 ATGATGTTGATTTTTTAAAAAAG
10331511 ATGATGTTGAT
1 ATGATGTTGAT
10331522 ATGCTATTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (23 bp):
ATGATGTTGATTTTTTAAAAAAG
Found at i:10332489 original size:13 final size:13
Alignment explanation
Indices: 10332462--10332494 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10332452 CCAATATTTA
10332462 ATTTA-TTATCCT
1 ATTTATTTATCCT
*
10332474 ATTTATTTATCTT
1 ATTTATTTATCCT
10332487 ATTTATTT
1 ATTTATTT
10332495 GTTTGTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATTTATCCT
Found at i:10334345 original size:12 final size:13
Alignment explanation
Indices: 10334316--10334348 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10334306 ATAAATATTA
10334316 GATTTATTCAAGG
1 GATTTATTCAAGG
*
10334329 GATTTTTTCAA-G
1 GATTTATTCAAGG
10334341 GATTTATT
1 GATTTATT
10334349 TGTTGATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (13 bp):
GATTTATTCAAGG
Found at i:10335440 original size:30 final size:30
Alignment explanation
Indices: 10335406--10335492 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
10335396 TATAAAACTT
* *
10335406 ATTTTATTGTTAATTTAAAGGCATTTGTTA
1 ATTTTGTTATTAATTTAAAGGCATTTGTTA
10335436 ATTTTGTTATT-ATTTCAAAGGCATTTGTTA
1 ATTTTGTTATTAATTT-AAAGGCATTTGTTA
* *
10335466 ATTTTGTTATTATTTTAGAGGCATTTG
1 ATTTTGTTATTAATTTAAAGGCATTTG
10335493 CTTGTTAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (30 bp):
ATTTTGTTATTAATTTAAAGGCATTTGTTA
Found at i:10336783 original size:10 final size:11
Alignment explanation
Indices: 10336763--10336791 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10336753 CAAATATCAA
10336763 ATATCAAACAT
1 ATATCAAACAT
10336774 ATAT-AAACAT
1 ATATCAAACAT
10336784 ATATCAAA
1 ATATCAAA
10336792 TTTGCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATCAAACAT
Found at i:10336916 original size:30 final size:30
Alignment explanation
Indices: 10336875--10336931 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
10336865 ACGGGAAAAA
* *
10336875 GTTGTTCACACAAGCTGACAATATATCAGG
1 GTTGCTCACACAAGCTAACAATATATCAGG
*
10336905 GTTGCTCACACAAGCTAACAGTATATC
1 GTTGCTCACACAAGCTAACAATATATC
10336932 GAGGTTACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACAATATATCAGG
Found at i:10342323 original size:19 final size:17
Alignment explanation
Indices: 10342281--10342324 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
10342271 CAAATTAGGC
10342281 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
*
10342298 CGCGTGGGCCTCACACGGG
1 CGTGTGGG-C-CACACGGG
*
10342317 TGTGTGGG
1 CGTGTGGG
10342325 AATATTGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 1 0.05
19 14 0.64
ACGTcount: A:0.09, C:0.27, G:0.48, T:0.16
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:10346212 original size:20 final size:19
Alignment explanation
Indices: 10346189--10346257 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
10346179 TATTGCCTTT
*
10346189 AAAATATTAGTATCCATTA
1 AAAATATTAGTATACATTA
*
10346208 GAAAAT-TTGGTATTACATTA
1 -AAAATATTAGTA-TACATTA
* *
10346228 AAAATATTTGTATTACGTTA
1 AAAATATTAGTA-TACATTA
10346248 AAAAT-TTAGT
1 AAAATATTAGT
10346258 TTTTTTCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 14 0.33
20 28 0.67
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (19 bp):
AAAATATTAGTATACATTA
Found at i:10346251 original size:21 final size:21
Alignment explanation
Indices: 10346203--10346252 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
10346193 TATTAGTATC
*
10346203 CATTAGAAA-ATTTGGTATTA
1 CATTAAAAATATTTGGTATTA
10346223 CATTAAAAATATTT-GTATTA
1 CATTAAAAATATTTGGTATTA
*
10346243 CGTTAAAAAT
1 CATTAAAAAT
10346253 TTAGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (21 bp):
CATTAAAAATATTTGGTATTA
Found at i:10349424 original size:30 final size:30
Alignment explanation
Indices: 10349378--10349621 Score: 461
Period size: 30 Copynumber: 8.1 Consensus size: 30
10349368 TTTTATTATG
*
10349378 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10349409 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10349439 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10349469 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
10349499 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10349529 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10349559 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10349589 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10349619 CCA
1 CCA
10349622 NNNNNNNNNN
Statistics
Matches: 210, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
30 203 0.97
31 7 0.03
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10354291 original size:30 final size:30
Alignment explanation
Indices: 10354245--10354338 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
10354235 TTTTATTATA
*
10354245 CCAATATCTAGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10354276 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
10354306 CTATTATTTGATACCCATGTCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10354336 CCA
1 CCA
10354339 TAAATATGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10354300 original size:15 final size:15
Alignment explanation
Indices: 10354242--10354332 Score: 53
Period size: 15 Copynumber: 6.1 Consensus size: 15
10354232 AGATTTTATT
* *
10354242 ATACCAATATC-TAG
1 ATACCCATATCTTTG
10354256 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
10354271 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
10354286 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** * *
10354301 ACTTTCTAT-TATTTG
1 A-TACCCATATCTTTG
*
10354316 ATACCCATGTCTTTG
1 ATACCCATATCTTTG
10354331 AT
1 AT
10354333 TTTCCATAAA
Statistics
Matches: 56, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
14 18 0.32
15 30 0.54
16 8 0.14
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (15 bp):
ATACCCATATCTTTG
Found at i:10355486 original size:57 final size:57
Alignment explanation
Indices: 10355418--10355601 Score: 278
Period size: 57 Copynumber: 3.2 Consensus size: 57
10355408 GAGTGAATAA
*
10355418 GAAATATTCTCTGGCGAAAATAGTAAATATTCTCTGCAAGAAAAGATAAATGAACAG
1 GAAATATTCTCTGGCGAAAATAGTAAATATTCCCTGCAAGAAAAGATAAATGAACAG
* * *
10355475 GAAATATTCTCTGGCAAAAATAGTAAATATTCCCTACAAGAAAAGATAAGTGAACAG
1 GAAATATTCTCTGGCGAAAATAGTAAATATTCCCTGCAAGAAAAGATAAATGAACAG
* ** *
10355532 GAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGATGCATGAATAG
1 GAAATATTCTCTGGCGAAAATAGTAAATATTCCCTGCAAGAAAAGATAAATGAACAG
* *
10355589 TAAATGTTCTCTG
1 GAAATATTCTCTG
10355602 TAGTTTGTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (57 bp):
GAAATATTCTCTGGCGAAAATAGTAAATATTCCCTGCAAGAAAAGATAAATGAACAG
Found at i:10362635 original size:22 final size:22
Alignment explanation
Indices: 10362595--10362639 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10362585 CAGAAATCCT
*
10362595 ACTCATCCAGCCTCTACACTCC
1 ACTCATCCAGCCTCAACACTCC
10362617 ACTCAGTCCAGCC-CAACACTCC
1 ACTCA-TCCAGCCTCAACACTCC
10362639 A
1 A
10362640 TGTGGCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.27, C:0.49, G:0.07, T:0.18
Consensus pattern (22 bp):
ACTCATCCAGCCTCAACACTCC
Found at i:10368249 original size:57 final size:57
Alignment explanation
Indices: 10368161--10368329 Score: 275
Period size: 57 Copynumber: 3.0 Consensus size: 57
10368151 GAAAAAATGA
* *
10368161 TGCAAGAAAAGACGAGTGAACAGGAAATATTCTTTGGCGAAAACAGTAAATATTCCC
1 TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCC
* * *
10368218 TGCAAGAAAAGATAAGTGAACAGGAAATATTCTCTAGCGAAAAAAGTAAATATTCCC
1 TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCC
* *
10368275 TGCAAGAAAAGACAAGTGAATAGGAAATATTCTCTGGTGAAAACAGTAAATATTC
1 TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTC
10368330 TCTGTAGTTT
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 102 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.22
Consensus pattern (57 bp):
TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCC
Found at i:10368577 original size:15 final size:16
Alignment explanation
Indices: 10368542--10368581 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
10368532 CAGAGTTCCA
10368542 AAGTTTCTCAAAATTTTT
1 AAGTTT-TCAAAA-TTTT
10368560 AAGTTTTCAAAA-TTT
1 AAGTTTTCAAAATTTT
10368575 AAGTTTT
1 AAGTTTT
10368582 AAATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
17 6 0.27
18 6 0.27
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (16 bp):
AAGTTTTCAAAATTTT
Found at i:10375705 original size:33 final size:33
Alignment explanation
Indices: 10375668--10375733 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10375658 AGTATTAGTT
* *
10375668 TGGGCCTGAGCCCTATATAGTAACAGTACAATG
1 TGGGCCTGAGCCCAATACAGTAACAGTACAATG
* **
10375701 TGGGCCTTAGCCCAATACAGTATTAGTACAATG
1 TGGGCCTGAGCCCAATACAGTAACAGTACAATG
10375734 CAGTAATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (33 bp):
TGGGCCTGAGCCCAATACAGTAACAGTACAATG
Found at i:10376112 original size:27 final size:27
Alignment explanation
Indices: 10376073--10376387 Score: 273
Period size: 27 Copynumber: 11.7 Consensus size: 27
10376063 TCATCATCTT
** * *
10376073 GGGGTATAACAGTCATTCTATCCTAT-G
1 GGGGTATTTCAGTCATTTTACCCT-TCG
* * *
10376100 GGGGTATTTCAGTTATTTTACCATAT-A
1 GGGGTATTTCAGTCATTTTACCCT-TCG
** * * **
10376127 GGGGTATTT-TTTTATTTTACACTTTA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
10376153 GGGGTATTTCGGTCATTTTACCCTTCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
10376180 GGGGTA-TTCTGATCATTTTACCCTTTG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
*
10376207 GGGGTATTTTAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
10376234 AGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
10376261 AGGGTATTTC-GATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* *
10376288 AGGGTATTT-TGATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* * *
10376315 GGGGTATTTTAGTCATTCTACCATTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* * * *
10376342 GGGGTATTTCGGTTATTCTACCCTTCA
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
10376369 GGGGTATTTCAGTTATTTT
1 GGGGTATTTCAGTCATTTT
10376388 CCCACGAATC
Statistics
Matches: 246, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 25 0.10
27 216 0.88
28 4 0.02
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:10376146 original size:26 final size:26
Alignment explanation
Indices: 10376112--10376161 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
10376102 GGTATTTCAG
10376112 TTATTTTAC-CATATAGGGGTATTTTT
1 TTATTTTACAC-TATAGGGGTATTTTT
*
10376138 TTATTTTACACTTTAGGGGTATTT
1 TTATTTTACACTATAGGGGTATTT
10376162 CGGTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (26 bp):
TTATTTTACACTATAGGGGTATTTTT
Found at i:10380926 original size:43 final size:43
Alignment explanation
Indices: 10380876--10381010 Score: 252
Period size: 43 Copynumber: 3.1 Consensus size: 43
10380866 GTTTCCAAGG
10380876 CTTCTTAGGACTTCCACACGCCACGTTCTATCTTTCCATTTAT
1 CTTCTTAGGACTTCCACACGCCACGTTCTATCTTTCCATTTAT
10380919 CTTCTTAGGACTTCCACACGCCACGTTCTATCTTTCCATTTAT
1 CTTCTTAGGACTTCCACACGCCACGTTCTATCTTTCCATTTAT
**
10380962 CTTCTTAGGACTTCCACACTTCACGTTCTATCTTTCCATTTAT
1 CTTCTTAGGACTTCCACACGCCACGTTCTATCTTTCCATTTAT
10381005 CTTCTT
1 CTTCTT
10381011 TATTCGCTTC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.18, C:0.32, G:0.08, T:0.42
Consensus pattern (43 bp):
CTTCTTAGGACTTCCACACGCCACGTTCTATCTTTCCATTTAT
Found at i:10386874 original size:25 final size:23
Alignment explanation
Indices: 10386830--10386881 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
10386820 GCTCTTATTA
10386830 TTTT-ATTATTATATTCTAATTT
1 TTTTAATTATTATATTCTAATTT
*
10386852 TTTTAATTATTAAGTATTTTAATTT
1 TTTTAATTATT-A-TATTCTAATTT
*
10386877 ATTTA
1 TTTTA
10386882 GGAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 1 0.04
25 14 0.56
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAATTATTATATTCTAATTT
Found at i:10387329 original size:14 final size:13
Alignment explanation
Indices: 10387306--10387347 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10387296 TAATCTTTGA
10387306 TTTATTATTTTAT
1 TTTATTATTTTAT
10387319 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
10387332 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
10387346 TT
1 TT
10387348 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:10387688 original size:44 final size:44
Alignment explanation
Indices: 10387618--10387719 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
10387608 ACATCTATTT
* * *
10387618 CATTCAACCAAATACAATAATACTATTACAGATCTATTCAATTG
1 CATTCAACCAAACACAAAAATACTATTACAGATCTATTCAATTC
* * * * *
10387662 CATTCAACTAAACACAAAAATGCTATTATATATCTATTCCATTC
1 CATTCAACCAAACACAAAAATACTATTACAGATCTATTCAATTC
*
10387706 CATTCAACCGAACA
1 CATTCAACCAAACA
10387720 ACTGAATAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAAAATACTATTACAGATCTATTCAATTC
Found at i:10394293 original size:5 final size:5
Alignment explanation
Indices: 10394285--10394319 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
10394275 AATAAAAGAA
10394285 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
10394320 TAGGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:10394483 original size:17 final size:17
Alignment explanation
Indices: 10394461--10394493 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10394451 ATAAAACAAG
10394461 AAATAAAAGAAAGAAAT
1 AAATAAAAGAAAGAAAT
10394478 AAATAAAAGAAAGAAA
1 AAATAAAAGAAAGAAA
10394494 GAGAGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AAATAAAAGAAAGAAAT
Found at i:10395707 original size:45 final size:46
Alignment explanation
Indices: 10395642--10395744 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 46
10395632 ATGTATCGAC
* * *
10395642 TACTGTTATTGTTACCGATTCGGCACTTTGTGTGTCG-AATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAATACTGT
*
10395687 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAATACTGT
10395733 TACTGTTACTGT
1 TACTGTTACTGT
10395745 CACTGCTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 33 0.62
46 20 0.38
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (46 bp):
TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAAATACTGT
Found at i:10396877 original size:17 final size:17
Alignment explanation
Indices: 10396852--10396902 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
10396842 ACGTGGCATG
*
10396852 TACCTAAGTGATGTATA
1 TACCCAAGTGATGTATA
10396869 TACCCAAGTGATGTATA
1 TACCCAAGTGATGTATA
*
10396886 TGCCCAAGTGATGTATA
1 TACCCAAGTGATGTATA
10396903 GGTTAAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (17 bp):
TACCCAAGTGATGTATA
Found at i:10411656 original size:13 final size:13
Alignment explanation
Indices: 10411638--10411663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10411628 TAGTTTAGGG
10411638 ATGTTTTGTGCAA
1 ATGTTTTGTGCAA
10411651 ATGTTTTGTGCAA
1 ATGTTTTGTGCAA
10411664 CTAACTCAAT
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
ATGTTTTGTGCAA
Found at i:10411886 original size:70 final size:69
Alignment explanation
Indices: 10411730--10411864 Score: 204
Period size: 70 Copynumber: 2.0 Consensus size: 69
10411720 TATGGATCTT
*
10411730 GAAGGAACCTCAAAATATATAATGAAAACTACTCCATTGACAAGATATAAATTATTAAGCCTTGA
1 GAAGGAACCACAAAATATATAATGAAAACTACTCCATTGACAAGATATAAA-TATTAAGCCTTGA
*
10411795 AATTT
65 AATTA
* *
10411800 GAAGGAACCTCAAAATATATAATGAAAACTACTCCATTGACAATATAT-AA-ATT-AGCCTTGAA
1 GAAGGAACCACAAAATATATAATGAAAACTACTCCATTGACAAGATATAAATATTAAGCCTTGAA
10411862 ATT
66 ATT
10411865 CCAGACATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
66 12 0.19
67 3 0.05
69 2 0.03
70 47 0.73
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (69 bp):
GAAGGAACCACAAAATATATAATGAAAACTACTCCATTGACAAGATATAAATATTAAGCCTTGAA
ATTA
Found at i:10413716 original size:17 final size:16
Alignment explanation
Indices: 10413685--10413719 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
10413675 ATATTATATA
10413685 TAAAATTACATAAAAT
1 TAAAATTACATAAAAT
*
10413701 TAAAATTTATATAAAAT
1 TAAAA-TTACATAAAAT
10413718 TA
1 TA
10413720 TATATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAATTACATAAAAT
Found at i:10418989 original size:14 final size:13
Alignment explanation
Indices: 10418950--10418997 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 13
10418940 CATATTGCAA
*
10418950 TTTTATATTATTT
1 TTTTATAATATTT
10418963 ATTTATAATAATATTCT
1 -TTT-T-ATAATATT-T
10418980 TTTTATAATATTT
1 TTTTATAATATTT
10418993 TTTTA
1 TTTTA
10418998 ACTTAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 6 0.20
14 11 0.37
15 2 0.07
16 10 0.33
17 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATAATATTT
Found at i:10421053 original size:24 final size:24
Alignment explanation
Indices: 10421022--10421114 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
10421012 TATACCAATC
10421022 ACAGACAAATCAATCATTTAAATT
1 ACAGACAAATCAATCATTTAAATT
* * * *
10421046 ACATACAAATTAGTCATTTACATCT
1 ACAGACAAATCAATCATTTAAAT-T
* * * *
10421071 -CGGACAAATCAATCACTTACATC
1 ACAGACAAATCAATCATTTAAATT
**
10421094 ACAGATGAATCAATCATTTAA
1 ACAGACAAATCAATCATTTAA
10421115 CCTCGAGGGG
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
24 51 0.98
25 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.29
Consensus pattern (24 bp):
ACAGACAAATCAATCATTTAAATT
Found at i:10421217 original size:26 final size:26
Alignment explanation
Indices: 10421174--10421302 Score: 152
Period size: 27 Copynumber: 4.8 Consensus size: 26
10421164 TTCACCTAAT
*
10421174 AGGGGTATTACAGTCATTTTACCTAC
1 AGGGGCATTACAGTCATTTTACCTAC
* * *
10421200 AAGGGCATCACAGTCATTTTACCTTGC
1 AGGGGCATTACAGTCATTTTACC-TAC
*
10421227 AGGGGCATTACGGTCATTTTACCCTAC
1 AGGGGCATTACAGTCATTTTA-CCTAC
* *
10421254 ATGGGCATTACGGTCATTTTACTCTAC
1 AGGGGCATTACAGTCATTTTAC-CTAC
10421281 AGGGGCATTAC-GATCATTTTAC
1 AGGGGCATTACAG-TCATTTTAC
10421303 AAATTTTGGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
26 22 0.25
27 65 0.73
28 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (26 bp):
AGGGGCATTACAGTCATTTTACCTAC
Found at i:10421274 original size:54 final size:54
Alignment explanation
Indices: 10421174--10421302 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
10421164 TTCACCTAAT
* * *
10421174 AGGGGTATTACAGTCATTTTA-CCTACAAGGGCATCACAGTCATTTTAC-CTTGC
1 AGGGGCATTACGGTCATTTTACCCTACAAGGGCATCACAGTCATTTTACTC-TAC
* * *
10421227 AGGGGCATTACGGTCATTTTACCCTACATGGGCATTACGGTCATTTTACTCTAC
1 AGGGGCATTACGGTCATTTTACCCTACAAGGGCATCACAGTCATTTTACTCTAC
*
10421281 AGGGGCATTACGATCATTTTAC
1 AGGGGCATTACGGTCATTTTAC
10421303 AAATTTTGGA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 19 0.28
54 47 0.70
55 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (54 bp):
AGGGGCATTACGGTCATTTTACCCTACAAGGGCATCACAGTCATTTTACTCTAC
Found at i:10428130 original size:21 final size:21
Alignment explanation
Indices: 10428106--10428148 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10428096 AATAATAACT
10428106 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
10428127 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
10428148 A
1 A
10428149 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:10428280 original size:25 final size:23
Alignment explanation
Indices: 10428236--10428296 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
10428226 ATTTTGATTT
*
10428236 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
10428260 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
10428284 ATATAAATTATAT
1 AT-TTAATTATAT
10428297 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:10428299 original size:35 final size:35
Alignment explanation
Indices: 10428244--10428323 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
10428234 TTATTTAATA
* *
10428244 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
10428278 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
10428313 ATATAAT-TAAA
1 ATATAATATAAA
10428324 CAAATAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:10429523 original size:20 final size:19
Alignment explanation
Indices: 10429494--10429544 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
10429484 TTGGATCAAG
* *
10429494 AATATCGATACCTTAGGAA
1 AATATTGATACCTTAAGAA
*
10429513 ATATATTGATACTTTAAGAA
1 A-ATATTGATACCTTAAGAA
10429533 AAGTATTGATAC
1 AA-TATTGATAC
10429545 TAGATCGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (19 bp):
AATATTGATACCTTAAGAA
Found at i:10429731 original size:19 final size:21
Alignment explanation
Indices: 10429688--10429733 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
10429678 TCTGACTTAT
*
10429688 TTGAAAATGGTTAAAACACAT
1 TTGAAAATGGTTAAAACACAA
*
10429709 TTGAAAAT-GTT-TAACACAA
1 TTGAAAATGGTTAAAACACAA
10429728 TTGAAA
1 TTGAAA
10429734 CTTTTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (21 bp):
TTGAAAATGGTTAAAACACAA
Found at i:10431401 original size:26 final size:26
Alignment explanation
Indices: 10431370--10431445 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
10431360 TCTCATCCCT
* *
10431370 ATTTTACCCCCAATAAAGTTTTGATG
1 ATTTTACCCCCAGTAAAATTTTGATG
* *
10431396 ATTTTA-CCCCTGTAAAATTTTTGGTG
1 ATTTTACCCCCAGTAAAA-TTTTGATG
*
10431422 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCCAGTAAAATTTTGA
10431446 GAAAATATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 8 0.20
26 24 0.59
27 9 0.22
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCCAGTAAAATTTTGATG
Found at i:10433285 original size:28 final size:29
Alignment explanation
Indices: 10433247--10433306 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
10433237 GTATCAGTAT
* *
10433247 AGTGTGGGCCTTAGCCCATTACAGTAA-C
1 AGTGTGGGCCTTAGCCCAATACAATAATC
10433275 AGTGTGGGCCTTAGCCCAATACAATAATC
1 AGTGTGGGCCTTAGCCCAATACAATAATC
10433304 AGT
1 AGT
10433307 ACAATGCAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (29 bp):
AGTGTGGGCCTTAGCCCAATACAATAATC
Found at i:10433441 original size:26 final size:26
Alignment explanation
Indices: 10433412--10433488 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
10433402 ACACCAATAT
* *
10433412 TGCAGCAAAGCTGCTAGTAATAGTGA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
* * *
10433438 TGCAACAAAGTTGCCATTAATAGTAA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
* *
10433464 TGTAGCAAAGCTGCCAGTAACAGTA
1 TGCAGCAAAGCTGCCAGTAATAGTA
10433489 TATGTGGTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (26 bp):
TGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:10433701 original size:27 final size:27
Alignment explanation
Indices: 10433654--10433795 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
10433644 GGGTATGACA
* *
10433654 GTCATTTTA-CCTTATGAGGGTATTTCG
1 GTCATTTTACCCTT-CGAGGGTAATTCG
* *
10433681 GTCATTTTACCCTTCGGGGGTAATTTG
1 GTCATTTTACCCTTCGAGGGTAATTCG
* * *
10433708 ATCATTTTACCTTTCGGGGGTAATTCG
1 GTCATTTTACCCTTCGAGGGTAATTCG
* * *
10433735 ATCATTTTACCCTTTGAGGGTAATTCA
1 GTCATTTTACCCTTCGAGGGTAATTCG
10433762 GTCATTTTACCCTTCGAGGGTAATTCG
1 GTCATTTTACCCTTCGAGGGTAATTCG
10433789 GTCATTT
1 GTCATTT
10433796 GTCCATGATT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 96 0.96
28 4 0.04
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTAATTCG
Found at i:10450832 original size:22 final size:22
Alignment explanation
Indices: 10450804--10450847 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10450794 AACATGATCT
*
10450804 GTTGATTGTTAAAATATATTCA
1 GTTGATTATTAAAATATATTCA
*
10450826 GTTGATTATTAAGATATATTCA
1 GTTGATTATTAAAATATATTCA
10450848 AGAATTGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
GTTGATTATTAAAATATATTCA
Found at i:10457646 original size:41 final size:41
Alignment explanation
Indices: 10457601--10457707 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
10457591 CACCGGCACA
10457601 AAGCCTGCTAGACATAAAGTCTGAAGAAATTCAACGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGAAATTCAACGACATC
* *
10457642 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGAAATTCAACGACATC
* * * *
10457683 AAGTCTGCTAGGCATTAAGCCTGAA
1 AAGCCTGCTAGACATAAAGTCTGAA
10457708 AATCTCAGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAGAAATTCAACGACATC
Found at i:10458002 original size:64 final size:64
Alignment explanation
Indices: 10457823--10458071 Score: 229
Period size: 64 Copynumber: 3.8 Consensus size: 64
10457813 GCAAACAAAA
10457823 ATTCGAACCACATATGTATA-AT--TTACA-ACATTAAATTTCAGCTCAAAGAA-TTTGTAACCT
1 ATTCGAACCACATATGTATATATAATT-CATACATTAAA-TTCAGCTC-AAGAACTTTGTAACCT
10457883 AT
63 AT
* * * * *
10457885 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCCGCGCAAAAACTTTGTAACCTAT
1 ATTCGAACCACATATGTATATATAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* ** * ** **
10457949 ATTTGAACCACATATGTATATATAATTCATACATTAAAAACAACTCAAGAACTTTAAATATATAT
1 ATTCGAACCACATATGTATATATAATTCATACATTAAATTCAGCTCAAGAACTTTGTA-ACCTAT
* * * **
10458014 ATTCGAACCATATGTGCATATATATAATTCATAATATTATGTTCAGCTCAAAGAACTT
1 ATTCGAACCACATATG--TATATATAATTCAT-ACATTAAATTCAGCTC-AAGAACTT
10458072 ATATCATACA
Statistics
Matches: 150, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
62 19 0.13
63 5 0.03
64 67 0.45
65 27 0.18
67 14 0.09
68 10 0.07
69 8 0.05
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (64 bp):
ATTCGAACCACATATGTATATATAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:10461494 original size:30 final size:29
Alignment explanation
Indices: 10461458--10461522 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
10461448 ATTAATTAAT
*
10461458 TTTTTAA-ATTTAAAAATATTTTTTTTATAA
1 TTTTTAATATTTAAAAATA--ATTTTTATAA
*
10461488 TTTTTAATTTTTTAAAAATAATTTTTATAA
1 TTTTTAA-TATTTAAAAATAATTTTTATAA
10461518 TTTTT
1 TTTTT
10461523 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 21 0.68
32 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTAATATTTAAAAATAATTTTTATAA
Found at i:10462406 original size:3 final size:3
Alignment explanation
Indices: 10462398--10462431 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
10462388 GCTGAAGGAA
*
10462398 AAG AAG AAG AAA AATG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG
10462432 GAGGAGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.93
4 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:10465857 original size:77 final size:77
Alignment explanation
Indices: 10465769--10466340 Score: 991
Period size: 77 Copynumber: 7.4 Consensus size: 77
10465759 TGTAATGTTG
* *
10465769 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTAAGCTTATGCTTATGCTTAAATTGTATT
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10465834 CAAATTAAGTTA
66 CAAATTAAGTTA
* * * *
10465846 TAAAAAATATAATTTATTTGGAATAATTAAAATTATTCAGTTTATACTTATGCTTAAATTGTATC
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10465911 CAAATTAAGTTA
66 CAAATTAAGTTA
* *
10465923 TGAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTTTATC
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10465988 CAAATTAAGTTA
66 CAAATTAAGTTA
* *
10466000 TGAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGTTTATGCTTAAATTGTATC
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10466065 CAAATTAAGTTA
66 CAAATTAAGTTA
*
10466077 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGTTTATGCTTATGCTTAAATTGTATC
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10466142 CAAATTAAGTTA
66 CAAATTAAGTTA
* *
10466154 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTAAGCTTATGCTTATGCTTAAATTGTATT
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10466219 CAAATTAAGTTA
66 CAAATTAAGTTA
* * * *
10466231 TAAAAAATATAATTTATTTGGAATAATTAAAATTATTCAGTTTATACTTATGCTTAAATTGTATC
1 TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
10466296 CAAATTAAGTTA
66 CAAATTAAGTTA
10466308 TAAAAAGTATAATTCATTTGGAATAATTAAAAT
1 TAAAAAGTATAATTCATTTGGAATAATTAAAAT
10466341 GATATCGAAA
Statistics
Matches: 467, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 467 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (77 bp):
TAAAAAGTATAATTCATTTGGAATAATTAAAATTATTCAGCTTATGCTTATGCTTAAATTGTATC
CAAATTAAGTTA
Found at i:10467559 original size:259 final size:259
Alignment explanation
Indices: 10467100--10467625 Score: 989
Period size: 259 Copynumber: 2.0 Consensus size: 259
10467090 TTAACCCTCG
10467100 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGAGCC
1 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGAGCC
* *
10467165 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCGATCCCTGTGATACCACTCGACTACATT
66 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
*
10467230 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGTATGCAGACGAGGGTATCA
131 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
*
10467295 CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGGTTAT
196 CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
*
10467359 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGATCC
1 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGAGCC
10467424 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
66 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
10467489 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
131 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
*
10467554 CAACTATAATTTCTGGGCGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
196 CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
*
10467618 AATTTAAC
1 AATCTAAC
10467626 ACGGTGTGAG
Statistics
Matches: 260, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
259 260 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (259 bp):
AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGAGCC
GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
Found at i:10468329 original size:77 final size:77
Alignment explanation
Indices: 10468208--10468518 Score: 595
Period size: 77 Copynumber: 4.0 Consensus size: 77
10468198 AATTTCAAGC
*
10468208 AATTATTCAGCTTATGCTTATGCTTAAATTTTATCCAAATTAAGTTATAAAAAGTATAATTCATT
1 AATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
10468273 TGGAATAATTAA
66 TGGAATAATTAA
*
10468285 AATTATTCAGTTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
1 AATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
10468350 TGGAATAATTAA
66 TGGAATAATTAA
*
10468362 AATTATTCAGTTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
1 AATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
10468427 TGGAATAATTAA
66 TGGAATAATTAA
10468439 AATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
1 AATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
10468504 TGGAATAATTAA
66 TGGAATAATTAA
10468516 AAT
1 AAT
10468519 GATATCGAAA
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 231 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (77 bp):
AATTATTCAGCTTATGCTTATGCTTAAATTGTATCCAAATTAAGTTATAAAAAGTATAATTCATT
TGGAATAATTAA
Found at i:10469737 original size:259 final size:259
Alignment explanation
Indices: 10469278--10469803 Score: 1016
Period size: 259 Copynumber: 2.0 Consensus size: 259
10469268 TTAACCCTCG
10469278 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGATCC
1 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGATCC
10469343 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
66 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
*
10469408 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGTATGCAGACGAGGGTATCA
131 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
*
10469473 CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGGTTAT
196 CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
10469537 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGATCC
1 AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGATCC
10469602 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
66 GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
10469667 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
131 GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
*
10469732 CAACTATAATTTCTGGGCGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
196 CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
*
10469796 AATTTAAC
1 AATCTAAC
10469804 ACGGTGTGAG
Statistics
Matches: 263, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
259 263 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (259 bp):
AATCTAACTGCAGTTTTCCTCTCTTATTGATGCCGTGAACCGCCCCCACATCGCATGGCTGATCC
GGGATATATTGGATGCAACCAAACTATCGTAGCATTCAATCCCCGTGATACCACTCGACTACATT
GAAATTTATAATTGGTGTGCTAGTGCACCACATTTCAAAATGAACGCATGCAGACGAGGGTATCA
CAACTATAATTTCTGGGAGACGATATGGCATCCATATAAACTGCATGATTAATAACATGATTAT
Found at i:10470679 original size:154 final size:153
Alignment explanation
Indices: 10470469--10471200 Score: 888
Period size: 153 Copynumber: 4.8 Consensus size: 153
10470459 TGAACTTATT
**
10470469 CTCGTATTTTTTTCTCCGCCTTTTATTACTTT--A-AAAAATATCA-TATTTTC-TAATTTTATT
1 CTCGTA-TTTTTTC-CCGAATTTTATTACTTTCAATAAAAATAT-ATTATTTTCAT-ATTTTATT
* *
10470529 ATTTTACATTATTTTAGTACATTATGTTCGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAA
62 ATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATTAATTTAGTGTGTTTTTTAAATAAA
* * * *
10470594 TTAAAAAAACTCTTTTTTCGGCACTTTG
127 GT-AAAAAACCCTTATTTCGGCCCTTTG
10470622 CTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
1 CTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
** * * **
10470687 TATTTTATCTTAGTACATTATGTTTGAAATTTATTAATTAATTCTA-T-T-TTTTTAAAATTTAG
66 TACATTATTTTAGTACATTATGTTTGAAATTTA--AATTAATT-TAGTGTGTTTTTTAAATAAAG
10470749 TAAAAAACCCTTATTTCGGCCCTTTG
128 TAAAAAACCCTTATTTCGGCCCTTTG
*
10470775 TTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
1 CTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
** * * *
10470840 TATTTTATCTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTTA
66 TACATTATTTTAGTACATTATGTTTGAAATTTAAATTAATTTAGTGTGTTTTTTAAATAAA-GT-
*
10470905 AAAAAACCCTCATTTCGGCCCTTTG
129 AAAAAACCCTTATTTCGGCCCTTTG
* * *
10470930 CTCGTATTTTTTCCCGATTTTTACTACTTTCAATAAAAATATATTATTTTCCTATTTTATT-TTT
1 CTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
* * **
10470994 TACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTT--TGTTTTTTTTAAATTTAGT
66 TACATTATTTTAGTACATTATGTTTGAAAT-T-TAAATTAATTTAGTGTGTTTTTTAAATAAAGT
* *
10471057 AAAAAACCCTTACTTCGGCCATTTG
129 AAAAAACCCTTATTTCGGCCCTTTG
* ** * *
10471082 TTCGTATTTTTTCTCCTCATTTTATTACTTT-AAAAAAAATCATA-T-TTTTGA-ATTTTATTAT
1 CTCGTATTTTTTC-CCGAATTTTATTACTTTCAATAAAAAT-ATATTATTTTCATATTTTATTAT
*
10471143 TTTACATTATTTTAGTACATTATGTTTTAAATTT--ATTAATTTAGTGTG-TTTTTAAATA
64 TTTACATTATTTTAGTACATTATGTTTGAAATTTAAATTAATTTAGTGTGTTTTTTAAATA
10471201 TATAATTTTT
Statistics
Matches: 511, Mismatches: 48, Indels: 45
0.85 0.08 0.07
Matches are distributed among these distances:
147 8 0.02
148 9 0.02
149 4 0.01
150 11 0.02
151 59 0.12
152 51 0.10
153 154 0.30
154 112 0.22
155 84 0.16
156 17 0.03
157 2 0.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (153 bp):
CTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
TACATTATTTTAGTACATTATGTTTGAAATTTAAATTAATTTAGTGTGTTTTTTAAATAAAGTAA
AAAACCCTTATTTCGGCCCTTTG
Found at i:10471056 original size:307 final size:305
Alignment explanation
Indices: 10470470--10471200 Score: 1084
Period size: 307 Copynumber: 2.4 Consensus size: 305
10470460 GAACTTATTC
*
10470470 TCGTATTTTTTTCTCCGCCTTTTATTACTTT-AAAAAATATCATATTTTC-TAATTTTATTATTT
1 TCGTA-TTTTTTCTCCGCATTTTATTACTTTAAAAAAATAT-ATATTTTCAT-ATTTTATTATTT
*
10470533 TACATTATTTTAGTACATTATGTTCGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAA
63 TACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAA
* ** *
10470598 AAAAACTCTTTTTTCGGCACTTTGCTCGTATTTTTTCCCGAATTTTATTACTTTCAATAAAAATA
128 AAAAACCCTCATTTCGGCACTTTGCTCGTATTTTTTCCCGAATTTTACTACTTTCAATAAAAATA
** *
10470663 TATTATTTTCATATTTTATTATTTTATTTTATCTTAGTACATTATGTTTGAAATTTATTAATTAA
193 TATTATTTTCATATTTTATTATTTTACATTATCTTAGTACATTATGTTTGAAATGTATTAATTAA
* *
10470728 TTCTATTTTTTTAAAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGT
258 TTCTATTTTTTTAAAATTTAGTAAAAAACCCTTACTTCGGCCATTTGT
*
10470776 TCGTATTTTTTC-CCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTT
1 TCGTATTTTTTCTCCGCATTTTATTACTTT-AA-AAAAATATA-TATTTTCATATTTTATTATTT
** *
10470840 TATTTTATCTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTTA
63 TACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAA-TTA
* *
10470905 AAAAAACCCTCATTTCGGCCCTTTGCTCGTATTTTTTCCCGATTTTTACTACTTTCAATAAAAAT
127 AAAAAACCCTCATTTCGGCACTTTGCTCGTATTTTTTCCCGAATTTTACTACTTTCAATAAAAAT
* *
10470970 ATATTATTTTCCTATTTTATT-TTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTA
192 ATATTATTTTCATATTTTATTATTTTACATTATCTTAGTACATTATGTTTGAAATGTATTAATTA
* * *
10471034 ATTTTGTTTTTTTTAAATTTAGTAAAAAACCCTTACTTCGGCCATTTGT
257 ATTCTATTTTTTTAAAATTTAGTAAAAAACCCTTACTTCGGCCATTTGT
* *
10471083 TCGTATTTTTTCTCCTCATTTTATTACTTTAAAAAAA-ATCATATTTTTGA-ATTTTATTATTTT
1 TCGTATTTTTTCTCCGCATTTTATTACTTTAAAAAAATAT-ATA-TTTTCATATTTTATTATTTT
* *
10471146 ACATTATTTTAGTACATTATGTTTTAAATTT--ATTAATTTAGTGTG-TTTTTAAATA
64 ACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATA
10471201 TATAATTTTT
Statistics
Matches: 386, Mismatches: 30, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
302 10 0.03
303 13 0.03
304 15 0.04
305 51 0.13
306 18 0.05
307 181 0.47
308 98 0.25
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (305 bp):
TCGTATTTTTTCTCCGCATTTTATTACTTTAAAAAAATATATATTTTCATATTTTATTATTTTAC
ATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAAATAAATTAAAAA
AACCCTCATTTCGGCACTTTGCTCGTATTTTTTCCCGAATTTTACTACTTTCAATAAAAATATAT
TATTTTCATATTTTATTATTTTACATTATCTTAGTACATTATGTTTGAAATGTATTAATTAATTC
TATTTTTTTAAAATTTAGTAAAAAACCCTTACTTCGGCCATTTGT
Found at i:10471529 original size:33 final size:33
Alignment explanation
Indices: 10471487--10471563 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
10471477 CGCTATTGAC
10471487 AACGCCGCTAACTTTAGCGGCGTTTATGTGAAA
1 AACGCCGCTAACTTTAGCGGCGTTTATGTGAAA
10471520 AACGCCGCTAACTTTAGCGGCGTTTATGTGAAA
1 AACGCCGCTAACTTTAGCGGCGTTTATGTGAAA
10471553 AACGCCGCTAA
1 AACGCCGCTAA
10471564 AGAACATGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (33 bp):
AACGCCGCTAACTTTAGCGGCGTTTATGTGAAA
Found at i:10471599 original size:43 final size:43
Alignment explanation
Indices: 10471531--10471749 Score: 230
Period size: 43 Copynumber: 5.1 Consensus size: 43
10471521 ACGCCGCTAA
* * *
10471531 CTTTAGCGGCG-TTTATGTGAAAAACGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGCTTTA-GTCACAAACGCCGCTAAAGATCATGAC
** * *
10471574 CTTTAGCAACGCTTTTGTCACAAACGCCGCTAAAGATCTTGAC
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGATCATGAC
** * *
10471617 CTTTAGCGGCATTTTTA-TCACAAACACCGCTAAAGATCGTGAC
1 CTTTAGCGGC-GCTTTAGTCACAAACGCCGCTAAAGATCATGAC
* * * *
10471660 CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAATATCGTGAT
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGATCATGAC
* *
10471703 CTTTAGCGGCGCTTTAGAT-ACAAACGCCGCTAAA-AACATAAC
1 CTTTAGCGGCGCTTTAG-TCACAAACGCCGCTAAAGATCATGAC
10471745 CTTTA
1 CTTTA
10471750 AAAAATATTT
Statistics
Matches: 147, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
42 13 0.09
43 128 0.87
44 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGATCATGAC
Found at i:10476604 original size:21 final size:22
Alignment explanation
Indices: 10476574--10476627 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
10476564 TTCAAGCAAT
*
10476574 TAACCTTTAACCT-CTAACCTC
1 TAACCCTTAACCTCCTAACCTC
*
10476595 TAACCCTTAA-TTCCTAACCTC
1 TAACCCTTAACCTCCTAACCTC
*
10476616 TAACCCCTAACC
1 TAACCCTTAACC
10476628 CCTCTTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (22 bp):
TAACCCTTAACCTCCTAACCTC
Found at i:10476624 original size:14 final size:14
Alignment explanation
Indices: 10476581--10476627 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10476571 AATTAACCTT
*
10476581 TAACCTCTAACCTC
1 TAACCTCTAACCCC
**
10476595 TAACC-CTTAATTCC
1 TAACCTC-TAACCCC
10476609 TAACCTCTAACCCC
1 TAACCTCTAACCCC
10476623 TAACC
1 TAACC
10476628 CCTCTTTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.28
Consensus pattern (14 bp):
TAACCTCTAACCCC
Found at i:10476773 original size:34 final size:34
Alignment explanation
Indices: 10476726--10476793 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
10476716 ATTTTTAAAC
* * * **
10476726 CCTAAATCACTAACTCTTAACTTTTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
*
10476760 CCTAAACCCCTAACCCCTAACTACTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
10476794 ACCTTATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (34 bp):
CCTAAACCACTAACCCCTAACTACTAACCCCTAA
Found at i:10476775 original size:20 final size:20
Alignment explanation
Indices: 10476750--10476793 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
10476740 TCTTAACTTT
10476750 TAACCCCTAACCTA-AACCCC
1 TAACCCCTAA-CTACAACCCC
10476770 TAACCCCTAACTACTAACCCC
1 TAACCCCTAACTAC-AACCCC
10476791 TAA
1 TAA
10476794 ACCTTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
21 9 0.41
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (20 bp):
TAACCCCTAACTACAACCCC
Found at i:10476911 original size:62 final size:63
Alignment explanation
Indices: 10476783--10476913 Score: 160
Period size: 62 Copynumber: 2.1 Consensus size: 63
10476773 CCCCTAACTA
* * * *
10476783 CTAACCCCTAAACCTTATCTAATATATAAATTCAAAAACATTAATTAATCTAAACTTGAATCC
1 CTAACCCCTAAACCTTATCTAATATAAAAATTCAAAAACACTAATTAATCTAAACCTGAAACC
* * *
10476846 CTAACCCCTAAACCTTATTTCATA-AAAAATT-AAAACACACTAATTAATCTAAACCCT-AAAGC
1 CTAACCCCTAAACCTTATCTAATATAAAAATTCAAAA-ACACTAATTAATCTAAA-CCTGAAACC
10476908 CTAACC
1 CTAACC
10476914 TGACATCGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
61 4 0.07
62 31 0.53
63 24 0.41
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (63 bp):
CTAACCCCTAAACCTTATCTAATATAAAAATTCAAAAACACTAATTAATCTAAACCTGAAACC
Found at i:10477459 original size:41 final size:41
Alignment explanation
Indices: 10477401--10477599 Score: 299
Period size: 41 Copynumber: 4.9 Consensus size: 41
10477391 AAATATTTTT
* *
10477401 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATTTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
10477442 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
10477483 GCGGCGCTTTTTCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
10477524 GCGGCACTTTTTGAAAAACGACGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
10477565 GCGGTGCTTTTTTAAAAACGCCGCTAAAGACCTGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGA
10477600 TAGGTCAAAA
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:10477686 original size:39 final size:40
Alignment explanation
Indices: 10477629--10477764 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
10477619 GGGCTTAGGT
* *
10477629 TTTTTTGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTCCAAAAAGCGCCGCTAATGCTTGA
* * * *
10477669 TTTTTAGCGGCGCTTTCCTAAAAGTGCCGCTAATTCTTGA
1 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGA
* ****
10477709 TCTTTAGCGGCGTTTTGTGTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGA
*
10477749 TTTTTAGCGGCATTTT
1 TTTTTAGCGGCGTTTT
10477765 TTGTCCAAAC
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 21 0.27
40 58 0.73
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGA
Found at i:10478030 original size:24 final size:24
Alignment explanation
Indices: 10478003--10478064 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
10477993 TTCCCTCTTC
*
10478003 TTCTTCTCCTTTCTTTTTCTTTCT
1 TTCTTCTCCTTTCCTTTTCTTTCT
10478027 TTCTTCTCCTTTCCTTTTCTTTCT
1 TTCTTCTCCTTTCCTTTTCTTTCT
*
10478051 TTCCTCTCCTTTCC
1 TTCTTCTCCTTTCC
10478065 CTCTCCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (24 bp):
TTCTTCTCCTTTCCTTTTCTTTCT
Found at i:10486999 original size:50 final size:50
Alignment explanation
Indices: 10486918--10487054 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 50
10486908 GGTAAAGAGA
* **
10486918 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAAG-ATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG--GTATGAGAAC
* *
10486968 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGGTATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGGTATGAGAAC
* * * *
10487018 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
10487055 GTACAGAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 71 0.96
51 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGGTATGAGAAC
Found at i:10487320 original size:12 final size:12
Alignment explanation
Indices: 10487303--10487341 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10487293 ATGAGTTATT
10487303 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
10487315 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
10487327 TAAGTGAGTAAG
1 TAAGTAAGCAAG
10487339 TAA
1 TAA
10487342 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:10509396 original size:21 final size:21
Alignment explanation
Indices: 10509372--10509412 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10509362 AATGCTCACT
10509372 CTTGCCTCCTATTGAAATTAC
1 CTTGCCTCCTATTGAAATTAC
* * *
10509393 CTTGTCTTCTGTTGAAATTA
1 CTTGCCTCCTATTGAAATTA
10509413 TTGTGTTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (21 bp):
CTTGCCTCCTATTGAAATTAC
Found at i:10509934 original size:9 final size:9
Alignment explanation
Indices: 10509920--10509950 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10509910 GTTAAACGAA
10509920 TCGAGTTAT
1 TCGAGTTAT
*
10509929 TCGAGTTAA
1 TCGAGTTAT
10509938 TCGAGTTAT
1 TCGAGTTAT
10509947 TCGA
1 TCGA
10509951 ATAAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:10510021 original size:9 final size:9
Alignment explanation
Indices: 10510004--10510040 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10509994 TGAGTTTTCG
10510004 AATTCGAAT
1 AATTCGAAT
*
10510013 AACTCGAAT
1 AATTCGAAT
10510022 AATTCGAAT
1 AATTCGAAT
10510031 AATTCGAAT
1 AATTCGAAT
10510040 A
1 A
10510041 CCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10510292 original size:26 final size:26
Alignment explanation
Indices: 10510254--10510303 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10510244 AAACCTTTTA
*
10510254 TTTTCCCCCAAAATTTTTACTCTCAC
1 TTTTCCCCCAAAACTTTTACTCTCAC
** *
10510280 TTTTCCCTTAAAACTTTTATTCTC
1 TTTTCCCCCAAAACTTTTACTCTC
10510304 TTCCATCTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTTCCCCCAAAACTTTTACTCTCAC
Found at i:10514479 original size:19 final size:19
Alignment explanation
Indices: 10514457--10514493 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10514447 TTATACGGTT
10514457 TTTTATATATATATTTTAA
1 TTTTATATATATATTTTAA
* *
10514476 TTTTTTATGTATATTTTA
1 TTTTATATATATATTTTA
10514494 CTATTCACAT
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:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATATATATATTTTAA
Found at i:10518671 original size:12 final size:12
Alignment explanation
Indices: 10518654--10518679 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10518644 ACTTCACGGC
10518654 AGGATGAGATTG
1 AGGATGAGATTG
10518666 AGGATGAGATTG
1 AGGATGAGATTG
10518678 AG
1 AG
10518680 TGGTGTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (12 bp):
AGGATGAGATTG
Found at i:10521409 original size:53 final size:50
Alignment explanation
Indices: 10521328--10521452 Score: 198
Period size: 53 Copynumber: 2.4 Consensus size: 50
10521318 GTTCAGACAC
*
10521328 GAGGATGAGATTGAGTGGTGTGGGAAACAACTTCACGGCAGGA-GAGGTGT
1 GAGGATGAGATTGAGTGGTGTGGGAAACAACTTCACGGCAGGATGAGAT-T
10521378 GAGAAGGATGAGATTGAGTGGTGTGGGAAACAACTTCACGGCAGGATGAGATT
1 --G-AGGATGAGATTGAGTGGTGTGGGAAACAACTTCACGGCAGGATGAGATT
10521431 GAGGATGAGATTGAGTGGTGTG
1 GAGGATGAGATTGAGTGGTGTG
10521453 AGAAGAGTCT
Statistics
Matches: 70, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
50 21 0.30
51 1 0.01
52 1 0.01
53 43 0.61
54 4 0.06
ACGTcount: A:0.29, C:0.08, G:0.42, T:0.22
Consensus pattern (50 bp):
GAGGATGAGATTGAGTGGTGTGGGAAACAACTTCACGGCAGGATGAGATT
Found at i:10521437 original size:12 final size:12
Alignment explanation
Indices: 10521420--10521445 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10521410 ACTTCACGGC
10521420 AGGATGAGATTG
1 AGGATGAGATTG
10521432 AGGATGAGATTG
1 AGGATGAGATTG
10521444 AG
1 AG
10521446 TGGTGTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (12 bp):
AGGATGAGATTG
Found at i:10522445 original size:18 final size:17
Alignment explanation
Indices: 10522417--10522451 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10522407 ATTATTAAGA
*
10522417 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10522434 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10522452 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10522665 original size:44 final size:45
Alignment explanation
Indices: 10522616--10522706 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
10522606 ACCTCTATTC
* * *
10522616 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
10522660 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
10522705 CA
1 CA
10522707 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:10522708 original size:16 final size:16
Alignment explanation
Indices: 10522687--10522755 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
10522677 GATTAGCTAT
10522687 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
10522703 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
10522720 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
10522736 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
10522752 TACA
1 TACA
10522756 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:10522729 original size:33 final size:32
Alignment explanation
Indices: 10522687--10522755 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
10522677 GATTAGCTAT
10522687 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
10522720 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
10522752 TACA
1 TACA
10522756 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:10533341 original size:18 final size:18
Alignment explanation
Indices: 10533318--10533355 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10533308 ATTGAAAGAA
*
10533318 TGAAGACTCAAAGATGAC
1 TGAAGACTAAAAGATGAC
10533336 TGAAGACTAAAAGATGAC
1 TGAAGACTAAAAGATGAC
10533354 TG
1 TG
10533356 GATAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (18 bp):
TGAAGACTAAAAGATGAC
Found at i:10533505 original size:23 final size:23
Alignment explanation
Indices: 10533479--10533553 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
10533469 TGATTTTTAA
* *
10533479 ATTTTGAATTATTAAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
10533502 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
10533525 ATTTAGGATTATTTATTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
10533548 ATTTAG
1 ATTTAG
10533554 GAAAAATCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:10533529 original size:13 final size:13
Alignment explanation
Indices: 10533488--10533553 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
10533478 AATTTTGAAT
*
10533488 TATTAAGTGATAA
1 TATTTAGTGATAA
*
10533501 TATTTA--GA-AT
1 TATTTAGTGATAA
10533511 TATTTAGTGATAA
1 TATTTAGTGATAA
10533524 TATTTAG-GAT--
1 TATTTAGTGATAA
*
10533534 TATTTATTGATAA
1 TATTTAGTGATAA
10533547 TATTTAG
1 TATTTAG
10533554 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:10538723 original size:71 final size:72
Alignment explanation
Indices: 10538607--10538748 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 72
10538597 TCTCGGATTT
*
10538607 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
10538672 CTTGAGA
66 CTTGAGA
*
10538679 AAAAAAGG-ATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
10538743 CTTGAG
66 CTTGAG
10538749 TTTGAAAAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 60 0.88
72 8 0.12
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (72 bp):
AAAAAAGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
CTTGAGA
Found at i:10539176 original size:45 final size:44
Alignment explanation
Indices: 10539104--10539206 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 44
10539094 AAGAAAATGA
* * *
10539104 ATAAACTTATAAAATGTAAAAAGATATATGTATGTACATATATAT
1 ATAAA-TTATAAAATATAAAAAGATATATATAAGTACATATATAT
* * **
10539149 ATAAATTATAAGATATAATAAATATATATATAAGTATGTATATAT
1 ATAAATTATAAAATATAA-AAAGATATATATAAGTACATATATAT
10539194 ATAAATTATAAAA
1 ATAAATTATAAAA
10539207 AAAATATGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 11 0.22
45 38 0.78
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (44 bp):
ATAAATTATAAAATATAAAAAGATATATATAAGTACATATATAT
Found at i:10539213 original size:22 final size:23
Alignment explanation
Indices: 10539188--10539231 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
10539178 ATAAGTATGT
10539188 ATATATA-TAAATTATAAAAAAA
1 ATATATACTAAATTATAAAAAAA
* *
10539210 ATATGTACGTATATTATAAAAA
1 ATATATAC-TAAATTATAAAAA
10539232 TGTATGCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
24 12 0.67
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATATACTAAATTATAAAAAAA
Found at i:10539235 original size:47 final size:45
Alignment explanation
Indices: 10539142--10539236 Score: 102
Period size: 45 Copynumber: 2.1 Consensus size: 45
10539132 TGTATGTACA
* * **
10539142 TATATATATAAATTATAAGATATAATAAATATATATATAAGTATG
1 TATATATATAAATTATAAGAAAAAATAAATATATATATAAAAATG
**
10539187 TATATATATAAATTATAA-AAAAAATATGTACGTATATTATAAAAATG
1 TATATATATAAATTATAAGAAAAAATAAATA--TATA-TATAAAAATG
10539234 TAT
1 TAT
10539237 GCATGCATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
44 8 0.20
45 18 0.44
46 4 0.10
47 11 0.27
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (45 bp):
TATATATATAAATTATAAGAAAAAATAAATATATATATAAAAATG
Found at i:10542128 original size:23 final size:23
Alignment explanation
Indices: 10542101--10542147 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10542091 TTGCCATAAC
10542101 TCAAAATTTCCCTTTTTATCACT
1 TCAAAATTTCCCTTTTTATCACT
* *
10542124 TCAAAATTTTCTTTTTTATCACT
1 TCAAAATTTCCCTTTTTATCACT
10542147 T
1 T
10542148 TATTTCCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (23 bp):
TCAAAATTTCCCTTTTTATCACT
Found at i:10542209 original size:23 final size:23
Alignment explanation
Indices: 10542183--10542233 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
10542173 ACCTACTTTC
* *
10542183 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
10542206 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
10542229 TTACA
1 TTACA
10542234 ACCAAGCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:10543414 original size:44 final size:44
Alignment explanation
Indices: 10543366--10543455 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
10543356 ACTCCACCGT
* *
10543366 AACTTCAGGAAGATAAGA-TTGGT-ATCTTCAACCTGCTCTATTGC
1 AACTTCAGGAAGATAAGACTT-GTAAT-TTCAACCTGCCCCATTGC
** *
10543410 AACTTTGGGGAGATAAGACTTGTAATTTCAACCTGCCCCATTGC
1 AACTTCAGGAAGATAAGACTTGTAATTTCAACCTGCCCCATTGC
10543454 AA
1 AA
10543456 TTTTAGGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 35 0.90
45 4 0.10
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
AACTTCAGGAAGATAAGACTTGTAATTTCAACCTGCCCCATTGC
Found at i:10550408 original size:50 final size:50
Alignment explanation
Indices: 10550341--10550484 Score: 171
Period size: 50 Copynumber: 2.9 Consensus size: 50
10550331 TTTGTTGTAC
* **
10550341 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGATTTCTCATATCAG
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGACCTCTCATATCAG
* * ** * * *
10550391 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGACCTCTCATATCAG
* * *
10550441 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCA
1 TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGACCTCTCA
10550485 CAATCTCAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGATATGGTCTTACATGAGACCTCTCATATCAG
Found at i:10557138 original size:50 final size:50
Alignment explanation
Indices: 10557012--10557308 Score: 265
Period size: 50 Copynumber: 5.8 Consensus size: 50
10557002 GATAATAACA
* ** * ** *
10557012 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTGTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* ** * * * ** *
10557061 TACCAATGCCAAATCCTAGATATGGTCTTACATGAGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *** *
10557111 TGCCCATGCCATGCCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
10557161 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
10557211 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCACAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT--C-ATCTC---GG
* * *
10557267 TGTCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
10557309 TTACCCAAAT
Statistics
Matches: 199, Mismatches: 41, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 35 0.18
50 119 0.60
52 1 0.01
53 5 0.03
56 38 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:10565327 original size:72 final size:72
Alignment explanation
Indices: 10565210--10565352 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
10565200 TCTCAGATTT
* *
10565210 AAAAAAGGGATCATGCCCAGTAAGTTAGGACATGATCTTTTCTTAATTCCCGAGATAGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAGTTTAAAA
10565275 CTTGAGA
66 CTTGAGA
* *
10565282 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGGGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAGTTTAAAA
10565347 CTTGAG
66 CTTGAG
10565353 TTTGAAAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATAGTTTAAAA
CTTGAGA
Done.