Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 221 of 235
Found at i:74955495 original size:51 final size:51
Alignment explanation
Indices: 74955372--74955614 Score: 249
Period size: 51 Copynumber: 4.8 Consensus size: 51
74955362 CTTTTATCAT
* * *
74955372 TCGATACACGTAGTAGCCTTCACATAGTACTACACACATGATCA-AGTTT-
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
* * * * * *
74955421 TACGGTTCATGTAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 T-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
* * * * *
74955473 TCGATTCACGTAGTAGCTTTCACACAGTACTACACACGTGACCA-AAGCTTC
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAA-TTTA
* * * * * * *
74955524 TCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTAACCATTATTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
*
74955575 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
74955615 TTCATCGATG
Statistics
Matches: 152, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
49 1 0.01
50 37 0.24
51 112 0.74
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAATTTA
Found at i:74955574 original size:102 final size:101
Alignment explanation
Indices: 74955372--74955614 Score: 353
Period size: 102 Copynumber: 2.4 Consensus size: 101
74955362 CTTTTATCAT
* * * * * **
74955372 TCGATACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTACGGTTCATGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
*
74955437 GCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 GCCTTCACTTAGTACTACACATGTAACCATCATTTA
* * *
74955473 TCGATTCACGTAGTAGCTTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAG
*
74955537 TAGCCTTCACTTAGTACTACACATGTAACCATTATTTA
64 TAGCCTTCACTTAGTACTACACATGTAACCATCATTTA
74955575 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
74955615 TTCATCGATG
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 38 0.30
102 85 0.67
103 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (101 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTAACCATCATTTA
Found at i:74956136 original size:30 final size:31
Alignment explanation
Indices: 74956082--74956140 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
74956072 TCTTCGACTC
74956082 AACTTTTGTCAAAATTACGATTTTGTCCCTA
1 AACTTTTGTCAAAATTACGATTTTGTCCCTA
*
74956113 AACTTTTG-CATAATTAC-ATTTTTGTCCC
1 AACTTTTGTCAAAATTACGA-TTTTGTCCC
74956141 CAAGCTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 8 0.31
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTTTTGTCAAAATTACGATTTTGTCCCTA
Found at i:74958532 original size:23 final size:23
Alignment explanation
Indices: 74958502--74958562 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
74958492 ATTCATTAGT
74958502 CGAAGCTACCACTGAAATGTAGC
1 CGAAGCTACCACTGAAATGTAGC
74958525 CGAAGCTACCACTGAAATGTAGC
1 CGAAGCTACCACTGAAATGTAGC
74958548 CGAAGCTACCACTGA
1 CGAAGCTACCACTGA
74958563 TCAATAACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.16
Consensus pattern (23 bp):
CGAAGCTACCACTGAAATGTAGC
Found at i:74967018 original size:34 final size:36
Alignment explanation
Indices: 74966970--74967042 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 36
74966960 ATATGCGTGT
*
74966970 ATATGCATAAATATAATAAT-AA-AAAATATATAAA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
* * *
74967004 ATATGTATATATATAAAAATAAATAAAATATATATA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
74967040 ATA
1 ATA
74967043 AGATACATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 17 0.52
35 2 0.06
36 14 0.42
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (36 bp):
ATATGCATAAATATAAAAATAAATAAAATATATAAA
Found at i:74968524 original size:50 final size:50
Alignment explanation
Indices: 74968470--74968701 Score: 259
Period size: 50 Copynumber: 4.6 Consensus size: 50
74968460 GCACCGCTAA
* *
74968470 GGAAATCAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* *
74968520 GGAAATCAGATCTACCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * ** **** * * * *
74968570 GGAAATCAGATCTACCGTTGTGACTTCAATCTACTCCGCTGCACCGCCAG
1 GGAAATCAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* * *
74968620 GGAAGTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
* *
74968670 GGAAACCAGATAC-GCCGTTGTGACTTCAATCT
1 GGAAATCAGAT-CTGCCGTTGTGGCTTCAATCT
74968702 GCTCCACTGC
Statistics
Matches: 147, Mismatches: 34, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
50 146 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (50 bp):
GGAAATCAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
Found at i:74968601 original size:100 final size:99
Alignment explanation
Indices: 74968519--74968756 Score: 305
Period size: 100 Copynumber: 2.4 Consensus size: 99
74968509 TGCGCTGTCG
* * * *
74968519 GGGAAATCAGATCTACCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGGAAATCAGATCTA
1 GGGAAATAAGATCTACCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAATCAGATC-G
**
74968584 CCGTTGTGACTTCAATCTACTCCGCTGCACCGCCA
65 CCGTTGTGACTTCAATCTACTCAACTGCACCGCCA
* * *
74968619 GGGAAGTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATACG
1 GGGAAATAAGATCTACCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAATCAGAT-CG
* * *
74968684 CCGTTGTGACTTCAATCTGCTCCACTGCATCGCCA
65 CCGTTGTGACTTCAATCTACTCAACTGCACCGCCA
* * ** *
74968719 AGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
1 GGGAAATAAGATCTACCATTGTGGCTTCAATCTTTTTA
74968757 CTTTTCAACC
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
100 123 0.99
101 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (99 bp):
GGGAAATAAGATCTACCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAATCAGATCGC
CGTTGTGACTTCAATCTACTCAACTGCACCGCCA
Found at i:74968731 original size:150 final size:150
Alignment explanation
Indices: 74968458--74968751 Score: 331
Period size: 150 Copynumber: 2.0 Consensus size: 150
74968448 ACCTGTTAAA
* * * *
74968458 CTGCACCGCTAAGGAAATCAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGGA
1 CTGCACCGCCAAGGAAATAAGATCCGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* * * ** * * * ** * *
74968523 AATCAGATCTACCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGGAAATCAGATCTACCGT
66 AACCAGATCTACCGTTGTGACTTCAATCTGCTCAACTGCGCTGCCAAGGAAATAAGATCCACCGT
74968588 TGTGACTTCAATCTACTCCG
131 TGTGACTTCAATCTACTCCG
* * *
74968608 CTGCACCGCCAGGGAAGTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
1 CTGCACCGCCAAGGAAATAAGATCCGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* * * * *
74968673 AACCAGATAC-GCCGTTGTGACTTCAATCTGCTCCACTGC-ATCGCCAAGGAAGTAAGATCCGCC
66 AACCAGAT-CTACCGTTGTGACTTCAATCTGCTCAACTGCGCT-GCCAAGGAAATAAGATCCACC
*
74968736 GTTGTGGCTTCAATCT
129 GTTGTGACTTCAATCT
74968752 TTTTACTTTT
Statistics
Matches: 117, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
149 1 0.01
150 115 0.98
151 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (150 bp):
CTGCACCGCCAAGGAAATAAGATCCGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
AACCAGATCTACCGTTGTGACTTCAATCTGCTCAACTGCGCTGCCAAGGAAATAAGATCCACCGT
TGTGACTTCAATCTACTCCG
Found at i:74970293 original size:15 final size:15
Alignment explanation
Indices: 74970273--74970305 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
74970263 TCACATATTT
74970273 TTTCTTCTCTTTTTC
1 TTTCTTCTCTTTTTC
*
74970288 TTTCTTTTCTTTTTC
1 TTTCTTCTCTTTTTC
74970303 TTT
1 TTT
74970306 TTTGCGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTCTCTTTTTC
Found at i:74970796 original size:9 final size:9
Alignment explanation
Indices: 74970771--74970837 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 9
74970761 CCTAGCGAGG
74970771 TTCTTTTTCT
1 TTCTTTTT-T
74970781 TTCTTTTTT
1 TTCTTTTTT
*
74970790 TT-GTTTTT
1 TTCTTTTTT
74970798 TTCTTATTTT
1 TTCTT-TTTT
*
74970808 TCCCCTTTTTT
1 T--TCTTTTTT
*
74970819 GT-TTTTTT
1 TTCTTTTTT
74970827 TTCTTTTTT
1 TTCTTTTTT
74970836 TT
1 TT
74970838 TGGATTGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 14 0.30
9 12 0.26
10 13 0.28
11 4 0.09
12 3 0.07
ACGTcount: A:0.01, C:0.13, G:0.03, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:74970838 original size:10 final size:10
Alignment explanation
Indices: 74970774--74970838 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
74970764 AGCGAGGTTC
74970774 TTTTTCTTTCT
1 TTTTTCTTT-T
74970785 TTTTT-TTGTT
1 TTTTTCTT-TT
*
74970795 TTTTTC-TTA
1 TTTTTCTTTT
***
74970804 TTTTTCCCCT
1 TTTTTCTTTT
*
74970814 TTTTTGTTTT
1 TTTTTCTTTT
74970824 TTTTTCTTTT
1 TTTTTCTTTT
74970834 TTTTT
1 TTTTT
74970839 GGATTGAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
9 7 0.17
10 29 0.69
11 6 0.14
ACGTcount: A:0.02, C:0.12, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:74973493 original size:16 final size:16
Alignment explanation
Indices: 74973468--74973502 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
74973458 TTCTATAATG
74973468 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
* *
74973484 AAATGTCATGCATTCA
1 AAATGCCATGCAGTCA
74973500 AAA
1 AAA
74973503 CAAAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:74975151 original size:34 final size:36
Alignment explanation
Indices: 74975103--74975175 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 36
74975093 ATATGCGTGT
*
74975103 ATATGCATAAATATAATAAT-AA-AAAATATATAAA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
* * *
74975137 ATATGTATATATATAAAAATAAATAAAATATATATA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
74975173 ATA
1 ATA
74975176 AGATACATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 17 0.52
35 2 0.06
36 14 0.42
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (36 bp):
ATATGCATAAATATAAAAATAAATAAAATATATAAA
Found at i:74988604 original size:12 final size:12
Alignment explanation
Indices: 74988573--74988608 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
74988563 TAATTAATTA
*
74988573 ATTAATATTATT
1 ATTACTATTATT
74988585 ATTACTATTATT
1 ATTACTATTATT
*
74988597 ATTGCTATTATT
1 ATTACTATTATT
74988609 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:74988835 original size:17 final size:18
Alignment explanation
Indices: 74988815--74988853 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
74988805 ATATTTTTAC
74988815 ATTTTATAATT-TTATTT
1 ATTTTATAATTATTATTT
*
74988832 ATTTTATTATTATTATTT
1 ATTTTATAATTATTATTT
74988850 ATTT
1 ATTT
74988854 ATTTACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTATAATTATTATTT
Found at i:74989484 original size:22 final size:22
Alignment explanation
Indices: 74989441--74989485 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
74989431 TCGTGGACCA
* *
74989441 AAATCATTATTTTAATAAAACC
1 AAATCATTATATTAAAAAAACC
74989463 AAATCATT-TATTAAAAACAACC
1 AAATCATTATATTAAAAA-AACC
74989485 A
1 A
74989486 CTTTTTGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATCATTATATTAAAAAAACC
Found at i:74994152 original size:27 final size:27
Alignment explanation
Indices: 74994122--74994299 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
74994112 ATATTGAGTC
* * * *
74994122 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
74994149 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74994176 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
74994204 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
74994231 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
74994258 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
74994285 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
74994300 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:74994261 original size:82 final size:81
Alignment explanation
Indices: 74994143--74994298 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
74994133 TGCTATATAA
* *
74994143 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
74994208 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
74994225 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
74994289 CACTTAGTGC
65 CACTTAGTGC
74994299 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:74998729 original size:45 final size:45
Alignment explanation
Indices: 74998668--74999392 Score: 993
Period size: 45 Copynumber: 16.1 Consensus size: 45
74998658 GGAGTAGGTT
* * *
74998668 GAAGATAGCAGATCTTGTCTTCCTGTATTGACAACGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
74998713 AAAGATAGCAGGTCTTGTCTTCCTGTACTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
**
74998758 GAAGATAGCAGGCCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
74998803 GAAGATAGCAGGTTTTGTCTTCCTGCATTAGCAACAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
74998848 GAAGATAGTAGATATTGCCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
74998893 GAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTGGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
74998938 GAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
74998983 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
74999028 GAAGATAGCAAATGTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
74999073 AAACATAGTAGGTTTTATCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
74999118 GAAGATAGTAGGTCTTGTCTTCCTGTATTGACAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
74999163 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
74999208 GAAGATAGCAGGTATTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* **
74999253 GAAGATGGCAGATCTTGTCTT-CTCGTATTGGCAGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATC
* * *
74999298 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
74999343 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
74999388 GAAGA
1 GAAGA
74999393 CATCAGCCTT
Statistics
Matches: 597, Mismatches: 81, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
44 2 0.00
45 593 0.99
46 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:75002426 original size:101 final size:101
Alignment explanation
Indices: 75002260--75002578 Score: 490
Period size: 101 Copynumber: 3.2 Consensus size: 101
75002250 TGAGTACTTC
* * * *
75002260 TGATTAGTGACAAGTGATAAGTGCTAGTTTAGCTACATTTATCTGATCAGTGATAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
75002325 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
75002361 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTG---A-T--C-AGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
* *
75002419 GATAAGTGATAGCTTTAGCTGCACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* * *
75002455 TGATAAGTGACAAGTGATACGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
75002520 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
75002556 TGACAAGTGACAAGTGACAAGTG
1 TGATAAGTGACAAGTGATAAGTG
75002579 ATAAATGTGA
Statistics
Matches: 197, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
94 87 0.44
97 1 0.01
98 2 0.01
100 1 0.01
101 106 0.54
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (101 bp):
TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:75002566 original size:7 final size:7
Alignment explanation
Indices: 75002554--75002579 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
75002544 TTATCTGATC
75002554 AGTGACA
1 AGTGACA
75002561 AGTGACA
1 AGTGACA
75002568 AGTGACA
1 AGTGACA
75002575 AGTGA
1 AGTGA
75002580 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:75003079 original size:13 final size:14
Alignment explanation
Indices: 75003044--75003081 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
75003034 AAGTCCTATT
*
75003044 TATTATGAATATAA
1 TATTATGAAGATAA
*
75003058 TATTTTGAAGAT-A
1 TATTATGAAGATAA
75003071 TATTATGAAGA
1 TATTATGAAGA
75003082 ATTTTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TATTATGAAGATAA
Found at i:75003296 original size:44 final size:44
Alignment explanation
Indices: 75003222--75003988 Score: 389
Period size: 44 Copynumber: 17.2 Consensus size: 44
75003212 GGGTGTCACA
* * * * *
75003222 GGAGTAGACTGAAGATAGCAAACCTTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGT
*
75003267 GGAGCAGTTTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * *
75003311 GGAGCAGATTGAAGCA-ATTAATCCTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAG-ATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * ** *
75003355 GGACCAGATTAAAACGATA--AATCCTATAC-CTTTGAAATTGCAGT
1 GGAGCAGATT-GAA-GATACTAATCTTAT-CTCCCTGAAGTTGCAGT
* * * * *
75003399 AGG-TCGGATTAAATCTACCATAATAAGTCTTATCTCCCTGAAGTTGCAGT
1 -GGAGCAGATT-GA---A-GATACTAA-TCTTATCTCCCTGAAGTTGCAGT
** * *
75003449 GGAGCAGATTGAAGCCA-TTATCTTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * ** * * *** *
75003492 GGAGTAGATTAAAGCCACAAACCTTATCTATATGAAGTTGTAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * * * * * * *
75003536 AGAGTAGGTTAAAG-TAACAAACCTTACCCCCCTAAAGTTGCAGT
1 GGAGCAGATTGAAGAT-ACTAATCTTATCTCCCTGAAGTTGCAGT
* * * * *
75003580 GGGGCAGATTGAAGATGCGAGTTTTATCTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
75003624 GGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGT
1 GGAGCAGATTGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
75003669 GGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGTAGT
1 GGAGCAGATTGAAG--AT--ACT--A-ATCTTATCTCCCTGAAGTTGCAGT
* * * * * * *
75003720 AGAGCATA-T-CATAT-CAAACCTTATCTCCCTGAAGTTGTAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
75003761 GGAGCAGGTT--A-A-ACCAATCTTATCTTCCTGAAGTTGCAGC
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * *
75003801 GGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAAGTTACAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
* * * * * * *
75003845 GGAGCATATT-AAAACAATGAATCCTATAC-CTCTAAAGTTGCAGT
1 GGAGCAGATTGAAGATACT-AATCTTAT-CTCCCTGAAGTTGCAGT
* * * * * *
75003889 AGG-TCAGATTAAACCATAACCAATCTTATCTCTCTGAAGTTGCAGC
1 -GGAGCAGATTGAA-GAT-ACTAATCTTATCTCCCTGAAGTTGCAGT
* * *
75003935 GGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGT
1 GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
*
75003979 GGAGCGGATT
1 GGAGCAGATT
75003989 AAAACGATGA
Statistics
Matches: 555, Mismatches: 128, Indels: 79
0.73 0.17 0.10
Matches are distributed among these distances:
40 32 0.06
41 28 0.05
42 3 0.01
43 41 0.07
44 284 0.51
45 67 0.12
46 32 0.06
47 10 0.02
49 8 0.01
50 24 0.04
51 26 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
GGAGCAGATTGAAGATACTAATCTTATCTCCCTGAAGTTGCAGT
Found at i:75003579 original size:181 final size:182
Alignment explanation
Indices: 75003245--75003683 Score: 396
Period size: 181 Copynumber: 2.4 Consensus size: 182
75003235 GATAGCAAAC
* * *
75003245 CTTATCTCCCTGAAGTTGTAGTGGAGCAGTTTGAAGATACTAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
* * * * * * * *
75003310 TGGAGCAGATTGAAGCAATTAATCCTATCTCCCTGAAGTTGTAGTGGACCAGATTAAAACGATAA
66 TGGAGCAGATTAAAGCAATCAAACCTATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACAA
**
75003375 ATCCTATACCTTTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
131 ATCCTATACCCCTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
* * *
75003427 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-TTATCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
* * * ** * **
75003491 TGGAGTAGATTAAAGCCA-CAAACCTTATCTATATGAAGTTGTAGTAGAGTAGGTTAAAGTAACA
66 TGGAGCAGATTAAAGCAATCAAACC-TATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACA
* * * * * ***
75003555 AA-CCT-TACCCCCCT-AAAGTTGCAGTGGGGCAGATT-GA---A-GAT-GCGAGT
130 AATCCTATA--CCCCTGAAA-TTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
* * * * * *
75003602 TTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CTAATCTTATCTCCCTGAAGTTGCA
* *
75003667 GTGGAACAGATTGAAGC
65 GTGGAGCAGATTAAAGC
75003684 TATAAATTAC
Statistics
Matches: 207, Mismatches: 44, Indels: 17
0.77 0.16 0.06
Matches are distributed among these distances:
175 37 0.18
176 2 0.01
177 35 0.17
179 2 0.01
180 11 0.05
181 85 0.41
182 35 0.17
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (182 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAAGCAATCAAACCTATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACAA
ATCCTATACCCCTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
Found at i:75003931 original size:134 final size:134
Alignment explanation
Indices: 75003772--75004055 Score: 437
Period size: 134 Copynumber: 2.1 Consensus size: 134
75003762 GAGCAGGTTA
* *
75003772 AACCAATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAA
1 AACCAATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAA
* * *
75003837 GTTACAGTGGAGCATATTAAAACAATGAATCCTATACCTCTAAAGTTGCAGTAGGTCAGATTAAA
66 GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTACAGTAGGTCAGATTAAA
75003902 CCAT
131 CCAT
75003906 AACCAATCTTATC-TCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAA
1 AACCAATCTTATCTTC-CTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAA
* * * * *
75003970 AGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACATTTGAAGTTACAGTAGGTCAGATTAA
65 AGTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTACAGTAGGTCAGATTAA
75004035 ACCAT
130 ACCAT
**
75004040 AAGAAATCTTAT-TTCC
1 AACCAATCTTATCTTCC
75004056 CTAGCGTTAA
Statistics
Matches: 136, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
133 3 0.02
134 133 0.98
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (134 bp):
AACCAATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAA
GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTACAGTAGGTCAGATTAAA
CCAT
Found at i:75003989 original size:90 final size:85
Alignment explanation
Indices: 75003739--75003991 Score: 224
Period size: 90 Copynumber: 2.9 Consensus size: 85
75003729 CATATCAAAC
* * * * * * * *
75003739 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAA-ACCAATCTTATCTTCCTGAAGTTGCAGCGG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACACTAATCCTATCTCCCTAAAGTTGCAGTGG
* * *
75003803 AGCAGATTGAAGCTACTAAT
66 AGCAGATTAAACCTACCAAT
* * * * *
75003823 CCTATCTCTCTGAAGTTACAGTGGAGCATATTAAAACAATGAATCCTATAC-CTCTAAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AACACT-AATCCTAT-CTCCCTAAAGTTGCA
*
75003887 GTAGG-TCAGATTAAACCATAACCAAT
62 GT-GGAGCAGATTAAACC-T-ACCAAT
*
75003913 CTTATCTCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-C-ACTAATCCTATCTCCCTAAAGTTGCAG
*
75003978 TGGAGCGGATTAAA
63 TGGAGCAGATTAAA
75003992 ACGATGAATC
Statistics
Matches: 131, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
84 26 0.20
86 2 0.02
87 1 0.01
88 27 0.21
89 9 0.07
90 64 0.49
91 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (85 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACACTAATCCTATCTCCCTAAAGTTGCAGTGG
AGCAGATTAAACCTACCAAT
Found at i:75004471 original size:44 final size:44
Alignment explanation
Indices: 75004304--75004524 Score: 176
Period size: 44 Copynumber: 4.9 Consensus size: 44
75004294 AAAGCAGATC
* * *
75004304 ATAT-CAAACCTTATCTCCCTGGAGTTACAGTGGAGTAGGTTAAAA
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTT--GA
* * * * *
75004349 ATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG-A
* ** * * *
75004394 GACAGGCTACAAGTCTTATCTCTCTGAAGTTGCATTAGAGTAGGTTGA
1 -ATA---TACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGA
* * *
75004442 AGTA-ACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGA
1 A-TATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGA
* **
75004486 ATATGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAG
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAG
75004525 ACTGAAGCTG
Statistics
Matches: 136, Mismatches: 32, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
43 2 0.01
44 62 0.46
45 4 0.03
46 33 0.24
47 1 0.01
48 2 0.01
49 32 0.24
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGA
Found at i:75006045 original size:12 final size:12
Alignment explanation
Indices: 75006025--75006060 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
75006015 TTTTTAATTA
*
75006025 ATTAATATTATT
1 ATTACTATTATT
75006037 ATTACTATTATT
1 ATTACTATTATT
*
75006049 ATTGCTATTATT
1 ATTACTATTATT
75006061 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:75008649 original size:65 final size:63
Alignment explanation
Indices: 75008538--75008659 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 63
75008528 GAGAATCATT
* ** *
75008538 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTCATTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTTAGAATTTTATGTTCATTTTAAATATGTTT-ATTTTCTTGCATAA
*
75008602 AGAATAAGTTGGTTTTATTTTAGAATTTTTATG-TCATTTTAAATATGTTTATTTTCTT
1 AGAA-AAGTTGGTGTTATTTTAGAA-TTTTATGTTCATTTTAAATATGTTTATTTTCTT
75008660 TATTCAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 12 0.24
65 32 0.63
66 7 0.14
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTAGAATTTTATGTTCATTTTAAATATGTTTATTTTCTTGCATAA
Found at i:75010015 original size:11 final size:11
Alignment explanation
Indices: 75009989--75010023 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
75009979 TGAAACAGGG
75009989 GAAAAGAAAGAA
1 GAAAAGAAA-AA
75010001 GAAAAGAAAAA
1 GAAAAGAAAAA
75010012 GAAAAGGAAAAA
1 GAAAA-GAAAAA
75010024 TTAGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:75011211 original size:23 final size:23
Alignment explanation
Indices: 75011184--75011330 Score: 107
Period size: 21 Copynumber: 6.5 Consensus size: 23
75011174 TGCCGATCAA
75011184 GCACTTTATGTGTCGTATTTCAG
1 GCACTTTATGTGTCGTATTTCAG
*
75011207 GCACTTCATGTGTCG--TTTCAG
1 GCACTTTATGTGTCGTATTTCAG
75011228 GCAC-TTATGTGTCGTATACTAATCAG
1 GCACTTTATGTGTCGTAT--T--TCAG
**
75011254 ATACTATGTAT-TGT--TATTTCAG
1 GCACT-T-TATGTGTCGTATTTCAG
* *
75011276 GCACTTTATGTGTCATACTTCAG
1 GCACTTTATGTGTCGTATTTCAG
*
75011299 GCAC-TT-CGTG-CGTCATTTCAG
1 GCACTTTATGTGTCGT-ATTTCAG
75011320 GCAC-TTATGTG
1 GCACTTTATGTG
75011331 CCATTTACTG
Statistics
Matches: 99, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
20 14 0.14
21 29 0.29
22 13 0.13
23 25 0.25
24 2 0.02
26 9 0.09
28 4 0.04
29 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATTTCAG
Found at i:75011320 original size:21 final size:21
Alignment explanation
Indices: 75011269--75011325 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
75011259 ATGTATTGTT
* *
75011269 ATTTCAGGCACTTTATGTGTC
1 ATTTCAGGCACTTCATGCGTC
*
75011290 ATACTTCAGGCACTTCGTGCGTC
1 AT--TTCAGGCACTTCATGCGTC
75011313 ATTTCAGGCACTT
1 ATTTCAGGCACTT
75011326 ATGTGCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
23 18 0.58
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
ATTTCAGGCACTTCATGCGTC
Found at i:75011351 original size:92 final size:92
Alignment explanation
Indices: 75011184--75011355 Score: 245
Period size: 92 Copynumber: 1.9 Consensus size: 92
75011174 TGCCGATCAA
* * * * * *
75011184 GCACTTTATGTGTCGTATTTCAGGCACTTCATGTGTCGTTTCAGGCACTTATGTGTCGTATACTA
1 GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATGTGCCATATACTA
75011249 ATCAGATACTATGTATTGTTATTTCAG
66 ATCAGATACTATGTATTGTTATTTCAG
* * *
75011276 GCACTTTATGTGTCATACTTCAGGCACTTCGTGCGTCATTTCAGGCACTTATGTGCCATTTACTG
1 GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATGTGCCATATACTA
* *
75011341 ATTAGGTACTATGTA
66 ATCAGATACTATGTA
75011356 CCATTTTAGG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (92 bp):
GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATGTGCCATATACTA
ATCAGATACTATGTATTGTTATTTCAG
Found at i:75017940 original size:24 final size:24
Alignment explanation
Indices: 75017913--75017964 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
75017903 ATTGTTTAAA
75017913 ATTTTAAAAATTGTATATTA-AAT-T
1 ATTTTAAAAATTG-AT-TTATAATAT
*
75017937 A-TTTACAAATTGATTTATAATAT
1 ATTTTAAAAATTGATTTATAATAT
75017960 ATTTT
1 ATTTT
75017965 TTAAAGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 12 0.50
24 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTTAAAAATTGATTTATAATAT
Found at i:75024894 original size:58 final size:58
Alignment explanation
Indices: 75024832--75024955 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 58
75024822 AATTCATATT
* * * ** *
75024832 ATAATAATTACATTAAGAATGTTATTAAATTATATATTAT-TTTATTAAGTTGTATTTA
1 ATAATAATTACA-TAAAAATATGATTAAATTATATATTATCTTTATTAAAATATATTTA
* *
75024890 ATAATAATTATATAAAAATATGATTAAATTATTTATTATCTTTATTAAAATATATTTA
1 ATAATAATTACATAAAAATATGATTAAATTATATATTATCTTTATTAAAATATATTTA
75024948 ATAATAAT
1 ATAATAAT
75024956 CTTATTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 23 0.40
58 34 0.60
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (58 bp):
ATAATAATTACATAAAAATATGATTAAATTATATATTATCTTTATTAAAATATATTTA
Found at i:75025156 original size:16 final size:16
Alignment explanation
Indices: 75025135--75025186 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
75025125 TGAATTACTG
75025135 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
75025151 ATTATAGTTCTATTTC
1 ATTATAGCTCTATTCC
* * *
75025167 ATTACAACTCTATTCA
1 ATTATAGCTCTATTCC
75025183 ATTA
1 ATTA
75025187 CAGCCATATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:75029340 original size:23 final size:23
Alignment explanation
Indices: 75029308--75029383 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
75029298 AGTGTTATTA
* *
75029308 ATCAGAGGTAGCTCCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
75029331 TTCAGTGGTAGTTACGACTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
75029354 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
75029377 ATCAGTG
1 ATCAGTG
75029384 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:75040401 original size:28 final size:28
Alignment explanation
Indices: 75040338--75040799 Score: 775
Period size: 28 Copynumber: 16.5 Consensus size: 28
75040328 ATATTAAGTC
* *
75040338 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040365 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
75040393 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040421 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040449 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040477 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040505 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040533 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040561 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
75040589 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
75040617 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
75040645 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
75040673 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
75040701 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
75040729 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
75040757 CGCACACTTAGTGCTGAGCA-ATTTAAACC
1 CGCACACTTAGTGCT-A-CATAATCAAACT
75040786 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75040800 CAATCTCATG
Statistics
Matches: 425, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.05
28 380 0.89
29 21 0.05
30 2 0.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:75042743 original size:99 final size:99
Alignment explanation
Indices: 75042623--75042829 Score: 405
Period size: 99 Copynumber: 2.1 Consensus size: 99
75042613 AAACAAACCT
75042623 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
1 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
*
75042688 TGAGACATGGTATGTATGATCTGTTCTGTCACGC
66 TGAGACATGGTATGTATGATCTGTTCTATCACGC
75042722 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
1 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
75042787 TGAGACATGGTATGTATGATCTGTTCTATCACGC
66 TGAGACATGGTATGTATGATCTGTTCTATCACGC
75042821 TTAAGCATG
1 TTAAGCATG
75042830 TGTGATCTGT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 107 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (99 bp):
TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
TGAGACATGGTATGTATGATCTGTTCTATCACGC
Found at i:75050770 original size:75 final size:75
Alignment explanation
Indices: 75050587--75050759 Score: 229
Period size: 75 Copynumber: 2.3 Consensus size: 75
75050577 GCAGAGGGGT
* *
75050587 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAGCCCAGCTCTAGACGGAAAA
1 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAACCCAGCTCTAGACAGAAAA
*
75050652 ACCAGCAATG
66 ACCAACAATG
* * * ** *
75050662 TTTGAGCCCAGCGCTAGTCGGGTTAGCCGACGATATTGAATGTGAACCCAGCTCTAGTTAGATAA
1 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAACCCAGCTCTAGACAGAAAA
**
75050727 ACCAACGGTG
66 ACCAACAATG
* *
75050737 TTTGCGCCCAGTGCTAGTTGGGT
1 TTTGCGCCCAGCGCTAGTCGGGT
75050760 ATTCCGACGA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 84 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (75 bp):
TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTAAACGTGAACCCAGCTCTAGACAGAAAA
ACCAACAATG
Found at i:75055256 original size:21 final size:21
Alignment explanation
Indices: 75055218--75055257 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
75055208 AAGCCCGAAG
*
75055218 GCTAAACAGAAGCACATAAGT
1 GCTAAACAGAAACACATAAGT
* *
75055239 GCTAAACTGAAACCCATAA
1 GCTAAACAGAAACACATAA
75055258 AGGTTAAACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:75055277 original size:21 final size:21
Alignment explanation
Indices: 75055253--75055321 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
75055243 AACTGAAACC
75055253 CATAAAGGTTAAACGGAAGCT
1 CATAAAGGTTAAACGGAAGCT
* * * * *
75055274 CAT-AAGAGCTGAACGAAAACC
1 CATAAAG-GTTAAACGGAAGCT
* *
75055295 CATAATGGTTAAACAGAAGCT
1 CATAAAGGTTAAACGGAAGCT
75055316 CA-AAAG
1 CATAAAG
75055322 AGCTGAACGG
Statistics
Matches: 33, Mismatches: 13, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
20 6 0.18
21 25 0.76
22 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
CATAAAGGTTAAACGGAAGCT
Found at i:75055279 original size:42 final size:41
Alignment explanation
Indices: 75055215--75055335 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 41
75055205 CAGAAGCCCG
* * * *
75055215 AAGGCTAAACAGAAGCACATAAGTGCTAAACTGAAACCCATA
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAAC-GAAACCCATA
*
75055257 AAGGTTAAACGGAAGCTCATAAGAGCTGAACGAAAACCCATA
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAACG-AAACCCATA
* *
75055299 ATGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAAC
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAAC-GAAAC
75055336 ATATTAGGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.97
43 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (41 bp):
AAGGTTAAACAGAAGCTCATAAGAGCTGAACGAAACCCATA
Found at i:75057083 original size:30 final size:30
Alignment explanation
Indices: 75057049--75057105 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
75057039 TTTAGAACTT
*
75057049 GGGAATCCCGGGATTA-TTTTCAGACATCTC
1 GGGAATCCCGGGATAAGTTTT-AGACATCTC
*
75057079 GGGAATCCTGGGATAAGTTTTAGACAT
1 GGGAATCCCGGGATAAGTTTTAGACAT
75057106 ACTATCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (30 bp):
GGGAATCCCGGGATAAGTTTTAGACATCTC
Found at i:75063840 original size:19 final size:20
Alignment explanation
Indices: 75063816--75063857 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
75063806 GAGGCAAGAA
75063816 TTTTTCTTCTTTTTTTC-AT
1 TTTTTCTTCTTTTTTTCAAT
75063835 TTTTTCTTCTTTTTTTCAAT
1 TTTTTCTTCTTTTTTTCAAT
75063855 TTT
1 TTT
75063858 ACCTTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTCTTTTTTTCAAT
Found at i:75073236 original size:88 final size:86
Alignment explanation
Indices: 75073076--75073254 Score: 250
Period size: 88 Copynumber: 2.0 Consensus size: 86
75073066 ATTTTGTATG
75073076 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGATAGTTGCTT
1 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGATAGTTGCTT
75073141 CAACAACAAATGTGACACTATAA
66 --ACAACAAATGTGACACTATAA
* * * *
75073164 ATATGTATGAATGAACTGGATTTGATCATTTAATAGTATAAATTGAATGTAGTTTATTGTAGTTG
1 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGA---TAGTTG
*
75073229 CTTCAACAACAAATGTGGCACTATAA
63 CTT--ACAACAAATGTGACACTATAA
75073255 TAACTTGTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
88 52 0.63
91 31 0.37
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (86 bp):
ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATATAGTTGATAGTTGCTT
ACAACAAATGTGACACTATAA
Found at i:75073989 original size:20 final size:21
Alignment explanation
Indices: 75073957--75073995 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
75073947 AGGGACTAAA
75073957 GTGTATAAATTCTA-AAATTG
1 GTGTATAAATTCTATAAATTG
75073977 GTGTA-AAATTTCTATAAAT
1 GTGTATAAA-TTCTATAAAT
75073996 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (21 bp):
GTGTATAAATTCTATAAATTG
Found at i:75075918 original size:65 final size:65
Alignment explanation
Indices: 75075814--75075959 Score: 283
Period size: 65 Copynumber: 2.2 Consensus size: 65
75075804 ACGAGACATG
75075814 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
*
75075879 TTTGGTGTGTTGGAGAGTGTTAGCTTTATGCTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
75075944 TTTGGTGTGTTGGAGA
1 TTTGGTGTGTTGGAGA
75075960 TCCGTGTATC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 80 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
Found at i:75078707 original size:15 final size:15
Alignment explanation
Indices: 75078678--75078717 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
75078668 CCAAGCCAGT
75078678 AAATATTTA--ATAA
1 AAATATTTACGATAA
75078691 AAATATTTACGATAA
1 AAATATTTACGATAA
75078706 AAATATTTACGA
1 AAATATTTACGA
75078718 ATTGATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
AAATATTTACGATAA
Found at i:75089687 original size:21 final size:22
Alignment explanation
Indices: 75089658--75089700 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
75089648 ACCAAGCATA
*
75089658 ATAGGAAAA-CAACAAAAAATC
1 ATAGCAAAACCAACAAAAAATC
*
75089679 ATAGCAAAACCAACATAAAATC
1 ATAGCAAAACCAACAAAAAATC
75089701 TACCACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (22 bp):
ATAGCAAAACCAACAAAAAATC
Found at i:75100281 original size:60 final size:60
Alignment explanation
Indices: 75100184--75100301 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 60
75100174 AAATTATATA
* * * *
75100184 GTTTTTCATCATAAGGCATTCCTTGTGTCTTCAACCGCCATCATTTCATCTTCTCCTCGT
1 GTTTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCATTCCATCTTCTCCTCGT
* **
75100244 GTTTTTCATCACAAGGAATTCATTGTGTCTTCGACCGCCATTGTTCCATCTTCTCCTC
1 GTTTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCATTCCATCTTCTCCTC
75100302 ATCATGAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.41
Consensus pattern (60 bp):
GTTTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCATTCCATCTTCTCCTCGT
Found at i:75105770 original size:35 final size:36
Alignment explanation
Indices: 75105721--75105792 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
75105711 TTCAACGAGT
75105721 TAGTAGAGGAACCAATTAGACATATGT-GTTGAGGC
1 TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
* *
75105756 TAGTGGAGGGACCAATTAGACATATGTGGTTGAGGC
1 TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
75105792 T
1 T
75105793 CAAATGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 25 0.74
36 9 0.26
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (36 bp):
TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
Found at i:75107386 original size:18 final size:18
Alignment explanation
Indices: 75107351--75107385 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
75107341 TTTTCATAAT
*
75107351 TTTTAAAAACATATAAAA
1 TTTTAAAAAAATATAAAA
75107369 TTTTAAAAAAAT-TAAAA
1 TTTTAAAAAAATATAAAA
75107386 AAATTCTAAA
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:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTTTAAAAAAATATAAAA
Found at i:75113285 original size:50 final size:50
Alignment explanation
Indices: 75113201--75113347 Score: 255
Period size: 50 Copynumber: 3.0 Consensus size: 50
75113191 TTCTTTCCCT
*
75113201 ATAGCCATGTCCTAATAC-TG--TGAATTTAACATCTTAAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
75113248 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
*
75113298 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTGAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
75113348 GCTTTCTTGA
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 17 0.18
48 2 0.02
50 76 0.80
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (50 bp):
ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
Found at i:75113400 original size:26 final size:26
Alignment explanation
Indices: 75113371--75113457 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
75113361 GCTATCTATC
75113371 TTTCAAATATAGTAGTGAAAATTAGT
1 TTTCAAATATAGTAGTGAAAATTAGT
** * * * *
75113397 TTTCAAACT-TTCTTGATTAATTATCTATT
1 TTTCAAA-TATAGTAG-TGAA-AAT-TAGT
*
75113426 TTTCAAATATAGTAGTGAGAATTAGT
1 TTTCAAATATAGTAGTGAAAATTAGT
75113452 TTTCAA
1 TTTCAA
75113458 CCTCTTGAAG
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
26 19 0.44
27 6 0.14
28 5 0.12
29 13 0.30
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (26 bp):
TTTCAAATATAGTAGTGAAAATTAGT
Found at i:75113433 original size:55 final size:55
Alignment explanation
Indices: 75113349--75113457 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
75113339 TAAGCTTCAG
*
75113349 CTTTCTTGATTAGCTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
1 CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
* * *
75113404 CTTTCTTGATTAATTATCTATTTTTCAAATATAGTAGTGAGAATTAGTTTTCAA
1 CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAA
75113458 CCTCTTGAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (55 bp):
CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
Found at i:75119154 original size:19 final size:18
Alignment explanation
Indices: 75119130--75119166 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
75119120 TATTGTGGTA
75119130 AAATTTAATTAAAAAAATT
1 AAATTTAA-TAAAAAAATT
*
75119149 AAATTTAATAATAAAATT
1 AAATTTAATAAAAAAATT
75119167 CAATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTTAATAAAAAAATT
Found at i:75129199 original size:32 final size:32
Alignment explanation
Indices: 75129133--75129277 Score: 157
Period size: 32 Copynumber: 4.5 Consensus size: 32
75129123 GATATCCCAA
* ** *
75129133 ACTTAACAGACA-AGCTTGCGAACTTAATTCGC
1 ACTTAACAGACATA-CTTGTGAACACAGTTCGC
* *
75129165 ACTTAACAAACATACTTGTGAACACAGTTTGC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
* *
75129197 ACTTAACAGACATATTTGTGAACATAGTTCGC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
* * *
75129229 ATTTAACAGACATACTTGTGCACACAGTTCTC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
**
75129261 GTTTAACAGACATACTT
1 ACTTAACAGACATACTT
75129278 ACTAGAATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 95 0.99
33 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
ACTTAACAGACATACTTGTGAACACAGTTCGC
Found at i:75129204 original size:64 final size:64
Alignment explanation
Indices: 75129133--75129277 Score: 177
Period size: 64 Copynumber: 2.3 Consensus size: 64
75129123 GATATCCCAA
*
75129133 ACTTAACAGACA-AGCTTGCGAACTTAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
1 ACTTAACAGACATA-CTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
* * * * * *
75129197 ACTTAACAGACATATTTGTGAACATAGTTCGCATTTAACAGACATACTTGTGCACACAGTTCT-C
1 ACTTAACAGACATACTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTT-TGC
**
75129261 GTTTAACAGACATACTT
1 ACTTAACAGACATACTT
75129278 ACTAGAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 67 0.97
65 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (64 bp):
ACTTAACAGACATACTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
Found at i:75129920 original size:18 final size:18
Alignment explanation
Indices: 75129911--75129945 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75129901 TATTATCATG
75129911 GGTTTGCATAATAACATA
1 GGTTTGCATAATAACATA
*
75129929 GGTTTGCAGAATAACAT
1 GGTTTGCATAATAACAT
75129946 GCAACATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (18 bp):
GGTTTGCATAATAACATA
Found at i:75129952 original size:25 final size:25
Alignment explanation
Indices: 75129923--75129970 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
75129913 TTTGCATAAT
75129923 AACATAGGTTTGCAGAATAACATGC
1 AACATAGGTTTGCAGAATAACATGC
* *
75129948 AACATGGGTTTGCATAATAACAT
1 AACATAGGTTTGCAGAATAACAT
75129971 AGGTTCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (25 bp):
AACATAGGTTTGCAGAATAACATGC
Found at i:75129968 original size:43 final size:43
Alignment explanation
Indices: 75129907--75130005 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
75129897 CACATATTAT
** *
75129907 CATGGGTTTGCATAATAACATAGGTTTGCAGAATAACATGCAA
1 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
*
75129950 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATATAA
1 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
*
75129993 CATGGGTTCGCAT
1 CATGGGTTTGCAT
75130006 CAAGACCAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (43 bp):
CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
Found at i:75131906 original size:8 final size:8
Alignment explanation
Indices: 75131893--75131927 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
75131883 TTATAAACTC
75131893 TTATTATT
1 TTATTATT
75131901 TTATTATT
1 TTATTATT
75131909 TTATTATT
1 TTATTATT
*
75131917 CTATT-TT
1 TTATTATT
75131924 TTAT
1 TTAT
75131928 AATTATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:75133854 original size:28 final size:28
Alignment explanation
Indices: 75133786--75134056 Score: 400
Period size: 28 Copynumber: 9.6 Consensus size: 28
75133776 CATGAGATTG
* * *
75133786 GCACTAAGTGTGCGGGTTTAAAT-TGCTCA
1 GCACTAAGTGTGCGAGTTTGATTATG-T-A
75133815 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
75133843 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
75133871 GCACTAAGTGTGCGAGCTTCATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
75133899 GCCCTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
75133927 GCACTAAGTGTGCGAGCTTCATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* *
75133955 GCCCTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
75133983 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
75134011 GCACTAAGTGTGCGAATTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
75134039 GCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAGTT
75134057 NNNNNNNNNN
Statistics
Matches: 222, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
28 199 0.90
29 21 0.09
30 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:75142295 original size:29 final size:28
Alignment explanation
Indices: 75142259--75142336 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
75142249 TCATGAGATT
75142259 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
75142289 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
75142316 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
75142337 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:75142554 original size:174 final size:174
Alignment explanation
Indices: 75142289--75142616 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
75142279 AAATTGTACA
*
75142289 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
75142354 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
75142419 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
75142463 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
75142528 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
75142593 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
75142617 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:75145732 original size:96 final size:97
Alignment explanation
Indices: 75145579--75145758 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 97
75145569 AACTAATCTC
* * * *
75145579 TCACCTATTGTGAAATGTTACTAGTGTAGTTTAAAAGATTATGAGGGTTTTCGATGTCCAATTAA
1 TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTCGATGTCCAATTAA
75145644 ATATCCAAATAGA-AAGAATACAATTAAGCTA
66 ATATCCAAATAGAGAAGAATACAATTAAGCTA
* * * * * *
75145675 TCACCTTTTGTGCAATGCTATTGGTGTAGTTAAAAATATCATAAGGGTTTTAC-ATGTCCAATTC
1 TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTT-CGATGTCCAATTA
*
75145739 AATATCCAACTAGAGAAGAA
65 AATATCCAAATAGAGAAGAA
75145759 AGTAAGTATG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
96 65 0.92
97 6 0.08
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (97 bp):
TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTCGATGTCCAATTAA
ATATCCAAATAGAGAAGAATACAATTAAGCTA
Found at i:75151839 original size:20 final size:20
Alignment explanation
Indices: 75151816--75151884 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
75151806 TAAGTTTATT
*
75151816 ACAAACTTACTAAGCTTTAA
1 ACAAGCTTACTAAGCTTTAA
* *
75151836 ACAAGCTT-TTAAG-TTTATT
1 ACAAGCTTACTAAGCTTTA-A
*
75151855 ACGAGCTTACTAAGCTTTAA
1 ACAAGCTTACTAAGCTTTAA
75151875 ACAAGCTTAC
1 ACAAGCTTAC
75151885 CTCATTTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 20 0.51
21 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
ACAAGCTTACTAAGCTTTAA
Found at i:75151847 original size:39 final size:39
Alignment explanation
Indices: 75151804--75151882 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
75151794 TAAGTTAAAG
75151804 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
1 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
* *
75151843 TTTAAGTTTATTACGAGCTTACTAAGCTTTAAACAAGCT
1 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
75151882 T
1 T
75151883 ACCTCATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (39 bp):
TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
Found at i:75163103 original size:10 final size:10
Alignment explanation
Indices: 75163074--75163131 Score: 89
Period size: 10 Copynumber: 5.8 Consensus size: 10
75163064 GAAGGCAACC
*
75163074 TAATTTTTAT
1 TAATTTATAT
* *
75163084 TTATTAATAT
1 TAATTTATAT
75163094 TAATTTATAT
1 TAATTTATAT
75163104 TAATTTATAT
1 TAATTTATAT
75163114 TAATTTATAT
1 TAATTTATAT
75163124 TAATTTAT
1 TAATTTAT
75163132 TATTTATTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TAATTTATAT
Found at i:75165850 original size:105 final size:105
Alignment explanation
Indices: 75165659--75165860 Score: 280
Period size: 105 Copynumber: 1.9 Consensus size: 105
75165649 ATTAAACAAA
*
75165659 AAAATTAAAAGTGTGTTCGGCTGAGTAACTAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
1 AAAATTAAAAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
75165724 TCAAAAGGGCCAAAACATTCTTAACCAAAAAAAATAATAAT
66 TCAAAAGGGCCAAAACATTCTTAA-CAAAAAAAATAATAAT
* * * * * * * *
75165765 AAAA-TAAGAGTGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTTGTCATTCCTCTTCGTG
1 AAAATTAAAAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
* * *
75165829 TCAAAAGGGTCAATACATTCTTAAGAAAAAAA
66 TCAAAAGGGCCAAAACATTCTTAACAAAAAAA
75165861 TACAAAAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 7 0.08
105 73 0.87
106 4 0.05
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (105 bp):
AAAATTAAAAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
TCAAAAGGGCCAAAACATTCTTAACAAAAAAAATAATAAT
Found at i:75165878 original size:105 final size:104
Alignment explanation
Indices: 75165651--75165878 Score: 278
Period size: 105 Copynumber: 2.2 Consensus size: 104
75165641 TAACTGGAAT
* *
75165651 TAAACAAAAAAATTAAAAGTGTGTTCGGCTGAGTAACTAGGGTAGGCTGCTGGGGTTGTCATTCC
1 TAAA-AAAAAAA-TAAGAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCC
75165716 ACTTCGTGTCAAAAGGGCCAAAACATTCTTAACCAAAAAAAA
64 ACTTCGTGTCAAAAGGGCCAAAACATTCTTAA-CAAAAAAAA
* * * * * * * * *
75165758 TAATAATAAAATAAGAGTGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTTGTCATTCCTC
1 TAAAAAAAAAATAAGAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCAC
* * *
75165823 TTCGTGTCAAAAGGGTCAATACATTCTTAA-GAAAAAAA
66 TTCGTGTCAAAAGGGCCAAAACATTCTTAACAAAAAAAA
75165861 TACAAAAAAAAACTAAGA
1 TA-AAAAAAAAA-TAAGA
75165879 AAAAAAGGAA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
103 9 0.09
104 7 0.07
105 78 0.76
106 6 0.06
107 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (104 bp):
TAAAAAAAAAATAAGAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCAC
TTCGTGTCAAAAGGGCCAAAACATTCTTAACAAAAAAAA
Found at i:75169276 original size:16 final size:16
Alignment explanation
Indices: 75169255--75169290 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
75169245 TTTAGCTAGC
75169255 ATGGGTTACATTAAAA
1 ATGGGTTACATTAAAA
75169271 ATGGGTTACATTAAAA
1 ATGGGTTACATTAAAA
75169287 ATGG
1 ATGG
75169291 ATCACACGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
ATGGGTTACATTAAAA
Found at i:75179035 original size:14 final size:14
Alignment explanation
Indices: 75179016--75179043 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
75179006 TCAATTTATT
75179016 AATGAAATATTAAA
1 AATGAAATATTAAA
75179030 AATGAAATATTAAA
1 AATGAAATATTAAA
75179044 TATAACTTTA
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:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:75188345 original size:19 final size:19
Alignment explanation
Indices: 75188321--75188364 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
75188311 TAAAAGCAAC
75188321 ACAACATCAA-CCCAAATAA
1 ACAACAT-AAGCCCAAATAA
*
75188340 ACAACATAAGTCCAAATAA
1 ACAACATAAGCCCAAATAA
75188359 ACAACA
1 ACAACA
75188365 AAAACAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.59, C:0.27, G:0.02, T:0.11
Consensus pattern (19 bp):
ACAACATAAGCCCAAATAA
Found at i:75196168 original size:23 final size:23
Alignment explanation
Indices: 75196142--75196185 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
75196132 TTTGCACAAA
75196142 AAAATAATGATTTTA-TATTTTAT
1 AAAATAAT-ATTTTATTATTTTAT
*
75196165 AAAATAATTTTTTATTATTTT
1 AAAATAATATTTTATTATTTT
75196186 GAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAAATAATATTTTATTATTTTAT
Found at i:75196588 original size:180 final size:180
Alignment explanation
Indices: 75196279--75196623 Score: 457
Period size: 180 Copynumber: 1.9 Consensus size: 180
75196269 AATAGTTAAA
* * *
75196279 TTTTTTTTCTTTTCTTTTGAATTGAGAAAAATAATAATTAATTTTCAATTCTAATCTCTATACTT
1 TTTTTTTTCTTTTCTTTTGAATTGAGAAAAATAATAACTAAGTTTCAATTCTAATCTCTACACTT
* * *
75196344 TTTAAATATTATATAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTAGATCAATTTTGAGA
66 TTTAAAGATTATAGAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTAGATCAAATTTGAGA
75196409 TTTAATCTCTATACTTCAATTTTGACATAATTTAGACATTTGTCCATTCT
131 TTTAATCTCTATACTTCAATTTTGACATAATTTAGACATTTGTCCATTCT
** *
75196459 TTTTCTTTTCTTTTCTTTTGACA-TGAG-AAAATAATGGCTAAGTTTCAATTTTAATCCATCTAC
1 TTTT-TTTTCTTTTCTTTTGA-ATTGAGAAAAATAATAACTAAGTTTCAATTCTAAT-C-TCTAC
* * * * *
75196522 A-TTTTTTAAGATTATAGAA-GATGGTTGAATTTTAGTTTTGATCCTTATA-TTATGCTCAAATT
62 ACTTTTTAAAGATTATAGAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTA-GATCAAATT
* * *
75196584 TGAGATTTAATCTTTGTACTTTAATTTTGACATAATTTAG
126 TGAGATTTAATCTCTATACTTCAATTTTGACATAATTTAG
75196624 TGCCTCAACT
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
179 3 0.02
180 98 0.69
181 36 0.25
182 6 0.04
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (180 bp):
TTTTTTTTCTTTTCTTTTGAATTGAGAAAAATAATAACTAAGTTTCAATTCTAATCTCTACACTT
TTTAAAGATTATAGAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTAGATCAAATTTGAGA
TTTAATCTCTATACTTCAATTTTGACATAATTTAGACATTTGTCCATTCT
Found at i:75197045 original size:21 final size:21
Alignment explanation
Indices: 75197001--75197060 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
75196991 TATATTTTTG
**
75197001 TAATATTTT-TAGAATTTTGGT
1 TAATATTTTATA-AATTTTAAT
75197022 TAATATTTTATAAATTTTAAT
1 TAATATTTTATAAATTTTAAT
75197043 T-A-ATTTTAT-AATTTTAAT
1 TAATATTTTATAAATTTTAAT
75197061 GCTTTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 9 0.25
19 7 0.19
20 1 0.03
21 17 0.47
22 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
TAATATTTTATAAATTTTAAT
Found at i:75198246 original size:54 final size:54
Alignment explanation
Indices: 75198188--75198299 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
75198178 GAAGGATACT
* * * * * *
75198188 CTTTCATATTGTGCCACAAAGGCATTTTTTTCATATTGTGCCACAAAGGCGTTC
1 CTTTCACATTGCGCCACAAAGGCACTCTTTTCATATTGCGCCACAAAGACGTTC
* * * *
75198242 CTTTCACATTGCGTCACAAAGGCGCTCTTTTCATGTTGCGTCACAAAGACGTTC
1 CTTTCACATTGCGCCACAAAGGCACTCTTTTCATATTGCGCCACAAAGACGTTC
75198296 CTTT
1 CTTT
75198300 AGGGTTCTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTTCACATTGCGCCACAAAGGCACTCTTTTCATATTGCGCCACAAAGACGTTC
Found at i:75198265 original size:27 final size:27
Alignment explanation
Indices: 75198188--75198299 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
75198178 GAAGGATACT
* * *
75198188 CTTTCATATTGTGCCACAAAGGCATTT
1 CTTTCATATTGCGCCACAAAGGCGTTC
* *
75198215 TTTTCATATTGTGCCACAAAGGCGTTC
1 CTTTCATATTGCGCCACAAAGGCGTTC
* * *
75198242 CTTTCACATTGCGTCACAAAGGCGCTC
1 CTTTCATATTGCGCCACAAAGGCGTTC
* * * *
75198269 TTTTCATGTTGCGTCACAAAGACGTTC
1 CTTTCATATTGCGCCACAAAGGCGTTC
75198296 CTTT
1 CTTT
75198300 AGGGTTCTTC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
CTTTCATATTGCGCCACAAAGGCGTTC
Found at i:75203330 original size:24 final size:24
Alignment explanation
Indices: 75203275--75203320 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
75203265 TATGAAGTTA
75203275 AAAAAATTCAATTGCCCGTTTACT
1 AAAAAATTCAATTGCCCGTTTACT
*
75203299 AAAAAATTCAATTGCCTGTTTA
1 AAAAAATTCAATTGCCCGTTTA
75203321 TTGAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (24 bp):
AAAAAATTCAATTGCCCGTTTACT
Found at i:75211666 original size:24 final size:24
Alignment explanation
Indices: 75211630--75211688 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
75211620 ACAAGAAGAT
75211630 GAAAGGTTTAAGGAAGATGAAAGGC
1 GAAAGG-TTAAGGAAGATGAAAGGC
* * * *
75211655 GGAAGGTTAAGGGATATGAAAGGT
1 GAAAGGTTAAGGAAGATGAAAGGC
75211679 GAAAGGTTAA
1 GAAAGGTTAA
75211689 ACATCCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (24 bp):
GAAAGGTTAAGGAAGATGAAAGGC
Found at i:75217500 original size:64 final size:66
Alignment explanation
Indices: 75217428--75217586 Score: 182
Period size: 64 Copynumber: 2.4 Consensus size: 66
75217418 ATATATATTT
*
75217428 TAAAGTTCTTGAGCTGTAA-TTAATGTACGAATTTT-ATATATATGTG-TGATTCAAATATAGGT
1 TAAAGTTCTTGAGCTG-AATTTAATGTACGAATTTTAATACATATGTGATGATTCAAATATAGGT
75217490 TA
65 TA
* * * *
75217492 TAAAGTTCTTGAGCTGAATTTAATTTATGAATTTTACATACATATGTGTATGGTTCGAATATAGG
1 TAAAGTTCTTGAGCTGAATTTAATGTACGAATTTTA-ATACATATGTG-ATGATTCAAATATAGG
75217557 TTA
64 TTA
* *
75217560 CAAA-TTCTTTGAACTGAATTTTAATGT
1 TAAAGTTC-TTGAGCTGAA-TTTAATGT
75217587 TGTAAATTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
63 2 0.03
64 30 0.38
66 10 0.12
67 3 0.04
68 28 0.35
69 7 0.09
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (66 bp):
TAAAGTTCTTGAGCTGAATTTAATGTACGAATTTTAATACATATGTGATGATTCAAATATAGGTT
A
Found at i:75217670 original size:41 final size:42
Alignment explanation
Indices: 75217625--75217741 Score: 116
Period size: 41 Copynumber: 2.8 Consensus size: 42
75217615 ATTTGAGATT
*
75217625 TTCAAGCTTAATGCCTAGCAGGCTTGATGCCGGTG-AAT-TAA
1 TTCAAGCTTTATGCCTAGCAGGCTTGATGCCGGTGAAATGT-A
* * * *
75217666 TTCAAACTTTATGTCTAGCAAGCTTTG-TGCCGATGAAATGTA
1 TTCAAGCTTTATGCCTAGCAGGC-TTGATGCCGGTGAAATGTA
* * *
75217708 -TCAGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAAGCTTTATGCCTAGCAGGCTTGATGCCGGTG
75217742 TTTTATACAA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
40 2 0.03
41 50 0.83
42 7 0.12
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
TTCAAGCTTTATGCCTAGCAGGCTTGATGCCGGTGAAATGTA
Found at i:75219611 original size:33 final size:35
Alignment explanation
Indices: 75219564--75219635 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 35
75219554 TAATATAAAT
* *
75219564 ATAAGTAGTTCCTTAACAA-ACTTTCAAGCA-AAC
1 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
75219597 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
1 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
75219632 ATAA
1 ATAA
75219636 TAGAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 17 0.49
34 11 0.31
35 7 0.20
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (35 bp):
ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
Found at i:75230937 original size:21 final size:22
Alignment explanation
Indices: 75230911--75230957 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
75230901 CTCTGCTCAA
*
75230911 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
75230932 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
75230954 ACTC
1 ACTC
75230958 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:75236079 original size:18 final size:19
Alignment explanation
Indices: 75236044--75236079 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75236034 GATATTATAT
75236044 TTTTAGAGTTTAATTTGAG
1 TTTTAGAGTTTAATTTGAG
*
75236063 TTTTAGGGTTT-ATTTGA
1 TTTTAGAGTTTAATTTGA
75236080 TGAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (19 bp):
TTTTAGAGTTTAATTTGAG
Found at i:75241362 original size:19 final size:18
Alignment explanation
Indices: 75241340--75241406 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
75241330 ATTTTTTTAT
75241340 TTTTTTAAATATATAAATA
1 TTTTTTAAATATA-AAATA
** *
75241359 TTTTATT-TTTTTAAAATA
1 TTTT-TTAAATATAAAATA
*
75241377 TTTTTTCAAAAATAAAATA
1 TTTTTT-AAATATAAAATA
*
75241396 TGTTTTAAATA
1 TTTTTTAAATA
75241407 ATTAAAATGT
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
17 2 0.06
18 13 0.36
19 19 0.53
20 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (18 bp):
TTTTTTAAATATAAAATA
Found at i:75241412 original size:20 final size:20
Alignment explanation
Indices: 75241369--75241414 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
75241359 TTTTATTTTT
*
75241369 TTAAAATATTTTTTCAAAAA
1 TTAAAATATGTTTTCAAAAA
75241389 -TAAAATATGTTTT-AAATAA
1 TTAAAATATGTTTTCAAA-AA
75241408 TTAAAAT
1 TTAAAAT
75241415 GTAGATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTAAAATATGTTTTCAAAAA
Found at i:75243479 original size:12 final size:12
Alignment explanation
Indices: 75243450--75243498 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
75243440 ATGTCACACC
*
75243450 AACAATTTTTTT
1 AACAAATTTTTT
*
75243462 CA-AAATTTTTT
1 AACAAATTTTTT
*
75243473 AACAAATATTTT
1 AACAAATTTTTT
*
75243485 ATCAAATTTTTT
1 AACAAATTTTTT
75243497 AA
1 AA
75243499 AATAATTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (12 bp):
AACAAATTTTTT
Found at i:75243926 original size:22 final size:23
Alignment explanation
Indices: 75243887--75243934 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
75243877 ACATTTGAGA
*
75243887 TTTATATATATATTTTTAAAATT
1 TTTAAATATATATTTTTAAAATT
*
75243910 TTTAAATATA-ATTTTTAGAATT
1 TTTAAATATATATTTTTAAAATT
75243932 TTT
1 TTT
75243935 GAATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAAATATATATTTTTAAAATT
Found at i:75251564 original size:34 final size:34
Alignment explanation
Indices: 75251521--75251588 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
75251511 GCATTTTTGA
* *
75251521 CACTGTACTGAGATGGGCTAAGG-CCAAAACTGT
1 CACTGTACTGAAAAGGGCTAAGGACCAAAACTGT
* *
75251554 CACTGATACTGAAAAGGGCTCAGGACCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGACCAAAACTGT
75251589 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 15 0.52
35 9 0.31
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.19
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGACCAAAACTGT
Found at i:75257564 original size:24 final size:24
Alignment explanation
Indices: 75257502--75257558 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
75257492 GAAACAAAAT
* **
75257502 AATATATATAGAACAATTTGAAGTA
1 AATA-ATATAAAACAATTCAAAGTA
*
75257527 AATAGTATAAAACAATTCAAAGTA
1 AATAATATAAAACAATTCAAAGTA
75257551 AATAATAT
1 AATAATAT
75257559 GCAACATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (24 bp):
AATAATATAAAACAATTCAAAGTA
Found at i:75257658 original size:22 final size:23
Alignment explanation
Indices: 75257614--75257658 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
75257604 GACGATTTTA
75257614 AAATAATATATAAAAAGTTGAAAAC
1 AAATAATATATAAAAA--TGAAAAC
*
75257639 AAATAATATGTAAAAA-GAAA
1 AAATAATATATAAAAATGAAA
75257659 GTTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
25 15 0.79
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (23 bp):
AAATAATATATAAAAATGAAAAC
Found at i:75263922 original size:51 final size:52
Alignment explanation
Indices: 75263867--75263973 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 52
75263857 TTTCATTTTC
** * *
75263867 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATT-CTATTTCTCA
1 ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
* * *
75263918 ATTTTCATTAAGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTACTCC
1 ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
75263970 ATTT
1 ATTT
75263974 CTATTCATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 36 0.75
52 12 0.25
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (52 bp):
ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
Found at i:75266084 original size:2 final size:2
Alignment explanation
Indices: 75266077--75266108 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
75266067 AAGGGCCATT
75266077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75266109 AAGTAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75272611 original size:21 final size:19
Alignment explanation
Indices: 75272587--75272638 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
75272577 CACGACCTGG
75272587 CCACACGGCCGTATAACCTTT
1 CCACACGGCCGTATAA-C-TT
* *
75272608 CCACAC-GACTTATAACTT
1 CCACACGGCCGTATAACTT
75272626 CTCACACGGCCGT
1 C-CACACGGCCGT
75272639 GTGACCCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 3 0.12
19 6 0.24
20 10 0.40
21 6 0.24
ACGTcount: A:0.25, C:0.38, G:0.13, T:0.23
Consensus pattern (19 bp):
CCACACGGCCGTATAACTT
Found at i:75275421 original size:23 final size:22
Alignment explanation
Indices: 75275354--75275421 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 22
75275344 ATATATCTAT
*
75275354 TTTTTAAATTAATAGAAAATAATA
1 TTTTAAAATTAATAG-AAATAA-A
**
75275378 TTTTAAAATT-AT---AATCTA
1 TTTTAAAATTAATAGAAATAAA
75275396 TTTTAAAATTAATAGAAGATAAA
1 TTTTAAAATTAATAGAA-ATAAA
75275419 TTT
1 TTT
75275422 AAAGTTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 11
0.68 0.10 0.22
Matches are distributed among these distances:
18 11 0.32
19 5 0.15
22 1 0.03
23 8 0.24
24 9 0.26
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (22 bp):
TTTTAAAATTAATAGAAATAAA
Found at i:75275431 original size:40 final size:43
Alignment explanation
Indices: 75275343--75275432 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
75275333 ACAATCTATC
*
75275343 TATATATCTATTTTTTAAATTAATAGAAAATAATATTTTAAAAT
1 TATA-ATCTATTTTTAAAATTAATAGAAAATAATATTTTAAAAT
* *
75275387 TATAATCTA-TTTTAAAATTAATAGAAGATAA-A-TTTAAAGT
1 TATAATCTATTTTTAAAATTAATAGAAAATAATATTTTAAAAT
75275427 TATAAT
1 TATAAT
75275433 AACTAGATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 13 0.30
41 1 0.02
42 20 0.47
43 5 0.12
44 4 0.09
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (43 bp):
TATAATCTATTTTTAAAATTAATAGAAAATAATATTTTAAAAT
Found at i:75279015 original size:38 final size:38
Alignment explanation
Indices: 75278920--75279020 Score: 139
Period size: 38 Copynumber: 2.7 Consensus size: 38
75278910 AGTAGCTGAA
* *
75278920 CAATTCAACACTAGCAATACTCATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAGTCATGCTTAACATGTATT
* *
75278958 CAATTCAACATTCGCAGTAGTCATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAGTCATGCTTAACATGTATT
* * *
75278996 TAATTCAACACTAGTAGTAGACATG
1 CAATTCAACACTAGCAGTAGTCATG
75279021 ATTTATCATG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (38 bp):
CAATTCAACACTAGCAGTAGTCATGCTTAACATGTATT
Found at i:75279985 original size:20 final size:19
Alignment explanation
Indices: 75279959--75280002 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
75279949 AAATAAGTAT
75279959 TATATTAATTATATTATTATA
1 TATATT-ATTATATT-TTATA
*
75279980 -ATATTATTTTATTTTATA
1 TATATTATTATATTTTATA
75279998 TATAT
1 TATAT
75280003 AAAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTATTATATTTTATA
Found at i:75280972 original size:25 final size:25
Alignment explanation
Indices: 75280944--75281045 Score: 99
Period size: 22 Copynumber: 4.3 Consensus size: 25
75280934 ACTTTAGCGC
* **
75280944 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGTCAGT
75280969 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
** *
75280994 GCTCTCTGA-T--TAGCAATTCTGT
1 GCTCTCTGATTACTAGCACGTCAGT
*
75281016 GCTCTCTG--TA-TAGCACTTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
75281038 GCTCTCTG
1 GCTCTCTG
75281046 TTCATTAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.01
22 35 0.51
24 1 0.01
25 31 0.46
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGTCAGT
Found at i:75280973 original size:23 final size:24
Alignment explanation
Indices: 75280947--75281005 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
75280937 TTAGCGCGCT
* **
75280947 CTCTGATTATTAGCACGTTGGTGC
1 CTCTGATTACTAGCACGTCAGTGC
75280971 TCTCTGATTACTAGCACGTCAGTGC
1 -CTCTGATTACTAGCACGTCAGTGC
75280996 TCTCTGATTA
1 -CTCTGATTA
75281006 GCAATTCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (24 bp):
CTCTGATTACTAGCACGTCAGTGC
Found at i:75281172 original size:31 final size:31
Alignment explanation
Indices: 75281137--75281195 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
75281127 AAGAATATGA
* *
75281137 GATAGTGAATTGAAAATAGAATGTGAAAAAT
1 GATAGTGAATTGAAAACAGAATATGAAAAAT
75281168 GATAGTGAATTGAAAACAGAATATGAAA
1 GATAGTGAATTGAAAACAGAATATGAAA
75281196 TATGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.24
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAGAATATGAAAAAT
Found at i:75282305 original size:23 final size:24
Alignment explanation
Indices: 75282267--75282319 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
75282257 TTATTGGATT
*
75282267 AAATTATTAAATTAAAATT-ATTTA
1 AAATTATTAAATT-AAATTAAATTA
75282291 AAATTATTAAA-TAAATTAAATTA
1 AAATTATTAAATTAAATTAAATTA
75282314 AAATTA
1 AAATTA
75282320 AAGAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTATTAAATTAAATTAAATTA
Found at i:75282376 original size:23 final size:23
Alignment explanation
Indices: 75282341--75282385 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
75282331 GGGTCAGTCG
* *
75282341 AAAAAATGTATGTTAATTAATCC
1 AAAAAAGGCATGTTAATTAATCC
75282364 AAAAAAGGCATGTTAATTAATC
1 AAAAAAGGCATGTTAATTAATC
75282386 AAAGGTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (23 bp):
AAAAAAGGCATGTTAATTAATCC
Found at i:75286797 original size:16 final size:18
Alignment explanation
Indices: 75286766--75286798 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
75286756 CTCTTATTTA
75286766 AAAATGATATAAAATATG
1 AAAATGATATAAAATATG
75286784 AAAA-GATA-AAAATAT
1 AAAATGATATAAAATAT
75286799 CATCATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (18 bp):
AAAATGATATAAAATATG
Found at i:75287090 original size:22 final size:23
Alignment explanation
Indices: 75287038--75287091 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
75287028 TTTTATTTAG
*
75287038 ATATTTT-ATAATTTATAAAATT
1 ATATTTTAATAATTGATAAAATT
* **
75287060 TTAAATTAATAA-TGATAAAATT
1 ATATTTTAATAATTGATAAAATT
75287082 ATATTTTAAT
1 ATATTTTAAT
75287092 CCCTCAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTTTAATAATTGATAAAATT
Found at i:75289365 original size:14 final size:15
Alignment explanation
Indices: 75289324--75289368 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
75289314 AAAAAATATT
*
75289324 TTTTTACAATTTTATA
1 TTTTTATAATTTT-TA
75289340 TTTTTAATAATTTTTA
1 TTTTT-ATAATTTTTA
75289356 -TTTTATAATTTTT
1 TTTTTATAATTTTT
75289369 TAAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 7 0.26
17 7 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATAATTTTTA
Found at i:75289400 original size:25 final size:25
Alignment explanation
Indices: 75289340--75289403 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
75289330 CAATTTTATA
* *
75289340 TTTTTAATAATTTTTATTTTATAATT
1 TTTTTAA-AATTTATATATTATAATT
*
75289366 TTTTAAAAAATTATATATATTA-AATT
1 TTTT-TAAAATT-TATATATTATAATT
75289392 TTTTTAAAATTT
1 TTTTTAAAATTT
75289404 TAAAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 1 0.03
25 6 0.19
26 16 0.50
27 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTTAAAATTTATATATTATAATT
Found at i:75290876 original size:9 final size:9
Alignment explanation
Indices: 75290864--75290967 Score: 94
Period size: 9 Copynumber: 12.0 Consensus size: 9
75290854 TATTTTTTAT
75290864 TTTTTCTTC
1 TTTTTCTTC
75290873 -TTTT-TTC
1 TTTTTCTTC
*
75290880 CTTTT-TTC
1 TTTTTCTTC
75290888 TTTTT-TT-
1 TTTTTCTTC
75290895 TTCTTTCTT-
1 TT-TTTCTTC
75290904 TTTCTTCTTC
1 TTT-TTCTTC
*
75290914 TTCTTCTTC
1 TTTTTCTTC
75290923 TTTTTCTTC
1 TTTTTCTTC
*
75290932 TTCTTCTTC
1 TTTTTCTTC
*
75290941 TTCTTCTTC
1 TTTTTCTTC
*
75290950 TTCTTCTTC
1 TTTTTCTTC
*
75290959 TTCTTCTTC
1 TTTTTCTTC
75290968 CTCCTCATCA
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
7 5 0.06
8 21 0.24
9 58 0.67
10 2 0.02
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:75290911 original size:3 final size:3
Alignment explanation
Indices: 75290899--75290967 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
75290889 TTTTTTTTCT
* *
75290899 TTC TTT TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
75290947 TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
75290968 CTCCTCATCA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:75295943 original size:7 final size:7
Alignment explanation
Indices: 75295927--75295974 Score: 51
Period size: 8 Copynumber: 6.4 Consensus size: 7
75295917 ACCTGAGATG
*
75295927 TTTTTTT
1 TTTTTTC
*
75295934 TTTATTTT
1 TTT-TTTC
75295942 TTTTCTTC
1 TTTT-TTC
75295950 TTTTTTC
1 TTTTTTC
75295957 TTTTTTC
1 TTTTTTC
75295964 TTTTTTTC
1 -TTTTTTC
75295972 TTT
1 TTT
75295975 ATTCCATTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 17 0.46
8 20 0.54
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:75295955 original size:14 final size:13
Alignment explanation
Indices: 75295927--75295970 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
75295917 ACCTGAGATG
*
75295927 TTTTTTTTTT-AT
1 TTTTTTTTTTCTT
*
75295939 TTTTTTTCTTCTT
1 TTTTTTTTTTCTT
75295952 TTTTCTTTTTTCTT
1 TTTT-TTTTTTCTT
75295966 TTTTT
1 TTTTT
75295971 CTTTATTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
14 12 0.44
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:75295960 original size:15 final size:15
Alignment explanation
Indices: 75295927--75295974 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
75295917 ACCTGAGATG
*
75295927 TTTTTT-TTTTATT-
1 TTTTTTCTTTTTTTC
75295940 TTTTTTCTTCTTTTTTC
1 TTTTTTC-T-TTTTTTC
75295957 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
75295972 TTT
1 TTT
75295975 ATTCCATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.20
15 11 0.37
16 6 0.20
17 7 0.23
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:75295961 original size:25 final size:24
Alignment explanation
Indices: 75295927--75295973 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
75295917 ACCTGAGATG
*
75295927 TTTTTTTTTTAT-TTTTTTTCTTC
1 TTTTTTTTTTTTCTTTTTTTCTTC
75295950 TTTTTTCTTTTTTCTTTTTTTCTT
1 TTTTTT-TTTTTTCTTTTTTTCTT
75295974 TATTCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (24 bp):
TTTTTTTTTTTTCTTTTTTTCTTC
Found at i:75296192 original size:33 final size:34
Alignment explanation
Indices: 75296155--75296219 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
75296145 TTTGTCGAAG
75296155 TTTTTCTCTCTTTTTT-TGGATT-TTGCTTGCTGT
1 TTTTTCTCTCTTTTTTGT-GATTCTTGCTTGCTGT
*
75296188 TTTTTTTCTCTTTTTTGTGATTCTTGCTTGCT
1 TTTTTCTCTCTTTTTTGTGATTCTTGCTTGCT
75296220 TTGCTAGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.03, C:0.15, G:0.14, T:0.68
Consensus pattern (34 bp):
TTTTTCTCTCTTTTTTGTGATTCTTGCTTGCTGT
Found at i:75296652 original size:5 final size:5
Alignment explanation
Indices: 75296642--75296685 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
75296632 GAGAAGCATA
*
75296642 AAAAC AAAAC AAAAC AAAAC AAAAAC AAAAAC AAAAA AAAAC AA
1 AAAAC AAAAC AAAAC AAAAC -AAAAC -AAAAC AAAAC AAAAC AA
75296686 TAATGGGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 25 0.69
6 11 0.31
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:75302991 original size:23 final size:21
Alignment explanation
Indices: 75302937--75302991 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
75302927 AGGAGGAAGT
* *
75302937 ATTGGCAGTTTATCTACAAAC
1 ATTGGTAGTTTATCCACAAAC
*
75302958 ATTGGTGGTTTATCCACAAAC
1 ATTGGTAGTTTATCCACAAAC
75302979 ATACTGGTAGTTT
1 AT--TGGTAGTTT
75302992 TTATTTGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 20 0.71
23 8 0.29
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (21 bp):
ATTGGTAGTTTATCCACAAAC
Found at i:75303108 original size:91 final size:90
Alignment explanation
Indices: 75302953--75303249 Score: 364
Period size: 91 Copynumber: 3.3 Consensus size: 90
75302943 AGTTTATCTA
* * *
75302953 CAAACATTGGTGGTTTATCCACAAACATACTGGTAGTTTTTATTTGCAAACACGTTGTGCATTCA
1 CAAACACTGGTGGTTTATCCACAAACATACTGGCA-ATTTTATTTGCAAACACGTTGTGCATTCA
* *
75303018 CAACCTACTAGTAGCGTATTAACTTG
65 CAACCTACTAGCAGCGTATTAACCTG
* * * * *
75303044 CAAACACTGGTGGTTTATCCAGAAACGTACTGACAACTTTTATCTGCAAATACGTTGTGCATTCA
1 CAAACACTGGTGGTTTATCCACAAACATACTGGCAA-TTTTATTTGCAAACACGTTGTGCATTCA
** *
75303109 CAACCTACTAGCAATGTATTAACCTA
65 CAACCTACTAGCAGCGTATTAACCTG
* * * ** * *
75303135 AAAACATTGGTGGTTTAACCACAAATTTACTGGCATATTTTATTTGCAAACCCGTTGTGTATTCA
1 CAAACACTGGTGGTTTATCCACAAACATACTGGCA-ATTTTATTTGCAAACACGTTGTGCATTCA
75303200 CAA-CTACTAGCAGCGTATTAACCTG
65 CAACCTACTAGCAGCGTATTAACCTG
*
75303225 CAAA-ACTGGTGGTTCATCCACAAAC
1 CAAACACTGGTGGTTTATCCACAAAC
75303250 TGGAGTGTTT
Statistics
Matches: 172, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
89 17 0.10
90 22 0.13
91 132 0.77
92 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (90 bp):
CAAACACTGGTGGTTTATCCACAAACATACTGGCAATTTTATTTGCAAACACGTTGTGCATTCAC
AACCTACTAGCAGCGTATTAACCTG
Done.