Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 56 of 328
Found at i:15755563 original size:8 final size:8
Alignment explanation
Indices: 15755550--15755576 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15755540 AGATCACCTT
15755550 TTAAAACC
1 TTAAAACC
15755558 TTAAAACC
1 TTAAAACC
15755566 TTAAAACC
1 TTAAAACC
15755574 TTA
1 TTA
15755577 GCTTGGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (8 bp):
TTAAAACC
Found at i:15756727 original size:18 final size:18
Alignment explanation
Indices: 15756704--15756756 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 18
15756694 CGTCTAACTT
15756704 CTTGTCACACGGGTTCAG
1 CTTGTCACACGGGTTCAG
15756722 CTTGTCACATCACACGGGTTCAG
1 CTTG-----TCACACGGGTTCAG
15756745 CTTGTCACACGG
1 CTTGTCACACGG
15756757 TCGTGTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
18 12 0.40
23 18 0.60
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (18 bp):
CTTGTCACACGGGTTCAG
Found at i:15756734 original size:23 final size:23
Alignment explanation
Indices: 15756708--15756753 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15756698 TAACTTCTTG
15756708 TCACACGGGTTCAGCTTGTCACA
1 TCACACGGGTTCAGCTTGTCACA
15756731 TCACACGGGTTCAGCTTGTCACA
1 TCACACGGGTTCAGCTTGTCACA
15756754 CGGTCGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (23 bp):
TCACACGGGTTCAGCTTGTCACA
Found at i:15757819 original size:25 final size:25
Alignment explanation
Indices: 15757791--15757838 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15757781 TTTATCTTGC
15757791 TATTAAATTTAAT-TTAATATTAAGA
1 TATTAAATTTAATATTAA-ATTAAGA
* *
15757816 TATTCACTTTAATATTAAATTAA
1 TATTAAATTTAATATTAAATTAA
15757839 TAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TATTAAATTTAATATTAAATTAAGA
Found at i:15757840 original size:11 final size:11
Alignment explanation
Indices: 15757824--15757875 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
15757814 GATATTCACT
15757824 TTAATATTAAA
1 TTAATATTAAA
15757835 TTAATA--AAA
1 TTAATATTAAA
15757844 -TAATATTAAGA
1 TTAATATTAA-A
*
15757855 TAAATATTAAA
1 TTAATATTAAA
*
15757866 TTAATTTTAA
1 TTAATATTAA
15757876 TACTAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 5 0.15
9 3 0.09
10 2 0.06
11 16 0.47
12 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:15761482 original size:46 final size:46
Alignment explanation
Indices: 15761430--15761605 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
15761420 TGGTTGAGCA
15761430 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
15761476 TTCGAACTCGTCGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
15761521 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15761569 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGG
15761606 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.59
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15761586 original size:93 final size:93
Alignment explanation
Indices: 15761427--15761597 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
15761417 GGATGGTTGA
* **
15761427 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTCGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
15761492 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
15761520 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
15761585 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15761598 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15762995 original size:49 final size:48
Alignment explanation
Indices: 15762923--15763061 Score: 172
Period size: 49 Copynumber: 2.8 Consensus size: 48
15762913 TGAGGTCACG
* * * * *
15762923 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCG-CA
1 TGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAGATAACT--TCGACA
*
15762972 TGTGTGGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCA
1 TGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGA-CA
15763021 TGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTG--GTACTAAGTGCAGGCTACTATGCGTACCAGATA
15763062 GCTTTGGCTA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
47 3 0.04
49 44 0.56
51 32 0.41
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGACA
Found at i:15763046 original size:51 final size:50
Alignment explanation
Indices: 15762922--15763061 Score: 187
Period size: 51 Copynumber: 2.8 Consensus size: 50
15762912 GTGAGGTCAC
* * * *
15762922 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATC-CAT
*
15762973 GTGTG--GTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT-CAT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GATCCAT
15763022 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
15763062 GCTTTGGCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
49 38 0.48
50 2 0.03
51 39 0.49
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCCAT
Found at i:15764956 original size:20 final size:20
Alignment explanation
Indices: 15764933--15764997 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
15764923 AATGAATAAC
15764933 ATGATTGAGATATGATTGCT
1 ATGATTGAGATATGATTGCT
* *
15764953 ATGA-TGAAAACTGTGA-TGAC-
1 ATGATTG-AGA-TATGATTG-CT
*
15764973 ATGATTGAGATATGATTGTT
1 ATGATTGAGATATGATTGCT
15764993 ATGAT
1 ATGAT
15764998 GAAAACTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
19 6 0.18
20 21 0.62
21 7 0.21
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (20 bp):
ATGATTGAGATATGATTGCT
Found at i:15764975 original size:40 final size:40
Alignment explanation
Indices: 15764931--15765007 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
15764921 GAAATGAATA
15764931 ACATGATTGAGATATGATTGCTATGATGAAAACTGTGATG
1 ACATGATTGAGATATGATTGCTATGATGAAAACTGTGATG
*
15764971 ACATGATTGAGATATGATTGTTATGATGAAAACTGTG
1 ACATGATTGAGATATGATTGCTATGATGAAAACTGTG
15765008 TTATATAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (40 bp):
ACATGATTGAGATATGATTGCTATGATGAAAACTGTGATG
Found at i:15766827 original size:2 final size:2
Alignment explanation
Indices: 15766815--15766864 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
15766805 TATGAATAAA
15766815 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15766856 AT AT AT AT A
1 AT AT AT AT A
15766865 AAAGAATATG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15768942 original size:135 final size:135
Alignment explanation
Indices: 15768796--15769310 Score: 636
Period size: 135 Copynumber: 3.8 Consensus size: 135
15768786 TGTCGATCCA
* * * * * * * ** *
15768796 TGGAGATAAGATTCACCGAAATTTGGTCTGCTCCGCTCCTGCTTAGCGAAAATAAGACCTGGTAT
1 TGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAATGAAAATAAGATCTGGTAT
* ** ** *
15768861 ATTTAGCCTGCTCCACTCCTGCTCAGTAAAGATAAAGCTGATGATTGGAATCTTTTTAATCACTG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCTG
15768926 GTACG
131 GTACG
* * * *
15768931 TGTAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCTTGCTCAATGAAGATAAGATTTGGTAT
1 TGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAATGAAAATAAGATCTGGTAT
** * *
15768996 ATTTAGCCTATTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCTG
*
15769061 GTATG
131 GTACG
* * * * *
15769066 TGGAGATAAGATTCTCTAAAATTTGATCTACTTCACTCCTGCTCAATGAAGATAATATCTGGTAT
1 TGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAATGAAAATAAGATCTGGTAT
* * * *
15769131 ATTTAGCCTGCTCTACTCCGGCTCAATGAAGATAAAGTTGATGATTGGAATCTGCTCCATCGCTG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCTG
*
15769196 GTACA
131 GTACG
* * * *
15769201 TGGAGATAAGATTCTCCAAAACTCGATCTGTTTCACTCCTGCTCAGT-AAAGATAAGATCGGGTA
1 TGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAATGAAA-ATAAGATCTGGTA
* * *
15769265 TGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
65 TATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGAT
15769311 ATCTGTCTTT
Statistics
Matches: 321, Mismatches: 58, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
134 2 0.01
135 319 0.99
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (135 bp):
TGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTCAATGAAAATAAGATCTGGTAT
ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCTG
GTACG
Found at i:15777048 original size:21 final size:19
Alignment explanation
Indices: 15777024--15777066 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15777014 GCTGGCTCAT
15777024 CATGTTGTTCTGTGACTCCAG
1 CATGTT-TTCTG-GACTCCAG
* *
15777045 CATGTTTTTTGGACTCTAG
1 CATGTTTTCTGGACTCCAG
15777064 CAT
1 CAT
15777067 TTGATCCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 4 0.20
21 6 0.30
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
CATGTTTTCTGGACTCCAG
Found at i:15781890 original size:53 final size:53
Alignment explanation
Indices: 15781749--15781899 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
15781739 ACAAGTGTGC
* **
15781749 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
15781802 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
15781855 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
15781900 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:15789404 original size:53 final size:53
Alignment explanation
Indices: 15789263--15789413 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
15789253 ACAAGTGTGC
* **
15789263 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
15789316 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
15789369 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
15789414 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:15791509 original size:49 final size:49
Alignment explanation
Indices: 15791442--15791638 Score: 187
Period size: 49 Copynumber: 4.0 Consensus size: 49
15791432 GTAGACAAGG
* *
15791442 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCAA
* * *
15791491 TTATCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACC-AA
** ** * * ** * *
15791541 CCATCTGAAACACGTAATAGCCTGCATTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACACGCGA-CCAA
* * * * *
15791591 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACC
1 -TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACC
15791639 TCACAATAGA
Statistics
Matches: 118, Mismatches: 27, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 42 0.36
50 42 0.36
51 34 0.29
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACACGCGACCAA
Found at i:15791639 original size:101 final size:99
Alignment explanation
Indices: 15791459--15791639 Score: 236
Period size: 101 Copynumber: 1.8 Consensus size: 99
15791449 GTACGCATAG
* *
15791459 TAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACATAGTA
1 TAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACATAGTA
*
15791524 CTACACACGTGACCTAACCATCTGAAACACGTAA
66 CTACACACGCGACCTAACCATCTGAAACACGTAA
** * * * * *
15791558 TAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAG
1 TAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACATAG
* *
15791623 TATTACACATGCGACCT
64 TACTACACACGCGACCT
15791640 CACAATAGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 24 0.35
100 3 0.04
101 41 0.60
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (99 bp):
TAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACATAGTA
CTACACACGCGACCTAACCATCTGAAACACGTAA
Found at i:15793662 original size:20 final size:18
Alignment explanation
Indices: 15793621--15793664 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
15793611 TCATACAAAT
15793621 TAAGAA-AGAAAAAGAAA
1 TAAGAAGAGAAAAAGAAA
*
15793638 GAAGAAGAGAAATAAGAAAA
1 TAAGAAGAGAAA-AAG-AAA
15793658 TAAGAAG
1 TAAGAAG
15793665 TCACGCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 3 0.14
20 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (18 bp):
TAAGAAGAGAAAAAGAAA
Found at i:15798996 original size:2 final size:2
Alignment explanation
Indices: 15798985--15799031 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
15798975 CGAGCTGAAA
15798985 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15799026 AT AT AT
1 AT AT AT
15799032 GATAGTGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15801449 original size:2 final size:2
Alignment explanation
Indices: 15801442--15801478 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15801432 CAAGAACTAT
15801442 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
15801479 GGAGGGAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15802749 original size:2 final size:2
Alignment explanation
Indices: 15802742--15802785 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
15802732 TAAAAGAGTA
15802742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15802784 AT
1 AT
15802786 CAGAATCCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15817856 original size:24 final size:23
Alignment explanation
Indices: 15817804--15817859 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
15817794 TTTTAAGTTC
*
15817804 ATTATTTAAAAATAATAATTTAT
1 ATTATTTTAAAATAATAATTTAT
*
15817827 ATTATTTTAAATTAAT-ATTTAAT
1 ATTATTTTAAAATAATAATTT-AT
15817850 ATGTATTTTA
1 AT-TATTTTA
15817860 GTAAGATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 18 0.62
24 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTATTTTAAAATAATAATTTAT
Found at i:15819434 original size:5 final size:5
Alignment explanation
Indices: 15819424--15819475 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
15819414 TATTTGCTTC
15819424 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA
15819474 TG
1 TG
15819476 TGGTGATGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TGATA
Found at i:15821202 original size:19 final size:20
Alignment explanation
Indices: 15821178--15821227 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15821168 TGTAGTTTTT
*
15821178 AAATTATAAAAATTT-TAAA
1 AAATTATAAAAATTTAAAAA
*
15821197 AAATTAT-AGAATTTAAAAAA
1 AAATTATAAAAATTT-AAAAA
15821217 AAATTATAAAA
1 AAATTATAAAA
15821228 CATTATAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 6 0.24
19 7 0.28
20 10 0.40
21 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATTATAAAAATTTAAAAA
Found at i:15821287 original size:2 final size:2
Alignment explanation
Indices: 15821282--15821307 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15821272 TAAAAAAATT
15821282 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
15821308 GTTTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15824618 original size:15 final size:15
Alignment explanation
Indices: 15824598--15824637 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
15824588 ACTCCATTCC
15824598 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
15824613 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
15824628 CTTTAGTCAT
1 CTTTAGTCAT
15824638 TGCTTGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:15828681 original size:26 final size:26
Alignment explanation
Indices: 15828651--15828732 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
15828641 TAAAATTCCC
15828651 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15828677 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15828703 ATCAT-GATACATTTACCTAACCCATT
1 ATCATGGA-ACATTTACCTAACCCATT
15828729 ATCA
1 ATCA
15828733 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 2 0.04
26 53 0.96
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15829246 original size:32 final size:31
Alignment explanation
Indices: 15829197--15829279 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 31
15829187 TTGAAATTTT
*
15829197 AGTTTGTTGGATTTTGAAATTATTATGTCTTGA
1 AGTTTGTTGGATATTGAAATTATTATGT-TT-A
* *
15829230 A-TTTGTTAGATATTGAATTTATTATGTTTA
1 AGTTTGTTGGATATTGAAATTATTATGTTTA
*
15829260 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
15829280 GATTGATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 2 0.05
31 17 0.40
32 23 0.53
33 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (31 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTA
Found at i:15832502 original size:2 final size:2
Alignment explanation
Indices: 15832462--15832494 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
15832452 TTAAATAAAT
*
15832462 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15832495 GAATATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15837515 original size:16 final size:17
Alignment explanation
Indices: 15837494--15837534 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
15837484 AATTTAATTA
15837494 ATAAAAATATA-AAAAT
1 ATAAAAATATATAAAAT
*
15837510 ATAAAAA-ATATTAAAT
1 ATAAAAATATATAAAAT
*
15837526 TTAAAAATA
1 ATAAAAATA
15837535 ATTATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATATATAAAAT
Found at i:15839825 original size:2 final size:2
Alignment explanation
Indices: 15839818--15839842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15839808 TTTGAATATA
15839818 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
15839843 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15839847 original size:2 final size:2
Alignment explanation
Indices: 15839842--15839881 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15839832 ACACACACAC
15839842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15839882 TCAAAAAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15840674 original size:2 final size:2
Alignment explanation
Indices: 15840667--15840713 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
15840657 TAAACCTATT
15840667 TA TA TA TA TA 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 TA TA TA TA TA
15840709 TA TA T
1 TA TA T
15840714 TTTTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15841407 original size:2 final size:2
Alignment explanation
Indices: 15841402--15841447 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
15841392 ATTTTCACAC
15841402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15841444 AT AT
1 AT AT
15841448 CCAAATATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15841918 original size:43 final size:43
Alignment explanation
Indices: 15841857--15842004 Score: 224
Period size: 43 Copynumber: 3.4 Consensus size: 43
15841847 TTATTTAAAA
*
15841857 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCACTAAAGGTCATGACCTTTAGCGGCACTTTTCCCAC
* *
15841900 AAACGCCATTAAATGTCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCACTAAAGGTCATGACCTTTAGCGGCACTTTTCCCAC
* * * **
15841943 AAACGCCGCTAATGGTCATGACCTTTAGCGGCGCTAATCCCAC
1 AAACGCCACTAAAGGTCATGACCTTTAGCGGCACTTTTCCCAC
15841986 AAACGCCACTAAAGGTCAT
1 AAACGCCACTAAAGGTCAT
15842005 AAAATTTAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCACTAAAGGTCATGACCTTTAGCGGCACTTTTCCCAC
Found at i:15842575 original size:23 final size:23
Alignment explanation
Indices: 15842545--15842793 Score: 265
Period size: 23 Copynumber: 10.9 Consensus size: 23
15842535 AAACAGATGC
* *
15842545 CAATTTACAACATTTAAGCACTT
1 CAATTTACAGCATTTAAACACTT
*
15842568 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
15842591 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * *
15842614 CAATTAACAACATTTATACAAC-T
1 CAATTTACAGCATTTAAAC-ACTT
* *
15842637 CAA-TTACAGCAATAAAACA-TCT
1 CAATTTACAGCATTTAAACACT-T
* **
15842659 CAATTTCCAGCAACTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* * *
15842682 CAATTTGCAGTACTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
15842705 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
15842728 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
15842751 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
15842774 CAATTTGCAGCATTTAAACA
1 CAATTTACAGCATTTAAACA
15842794 ACAGCATCCA
Statistics
Matches: 192, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
21 1 0.01
22 18 0.09
23 168 0.88
24 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:15842663 original size:22 final size:23
Alignment explanation
Indices: 15842607--15842663 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
15842597 GCAGCACTTT
* *
15842607 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* * *
15842630 TACAACTCAATT-ACAGCAATAA
1 AACATCTCAATTAACAACAATAA
15842652 AACATCTCAATT
1 AACATCTCAATT
15842664 TCCAGCAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:15846839 original size:41 final size:41
Alignment explanation
Indices: 15846804--15846918 Score: 104
Period size: 41 Copynumber: 2.8 Consensus size: 41
15846794 TTTTGCTGTG
* *
15846804 TTTTAAAAAACAACGCCACTATAGTTTAGTTTTTTGCGGCGT
1 TTTTAAAAAA-AACGCCACTATAGCTTAATTTTTTGCGGCGT
* * * * *
15846846 TTTTGATAAAAACGCCACTCTAGCTTAATTTTTTGTGGCAT
1 TTTTAAAAAAAACGCCACTATAGCTTAATTTTTTGCGGCGT
*** * * *
15846887 TTTTCTTAAAAACGTCATTATTGCTTAATTTT
1 TTTTAAAAAAAACGCCACTATAGCTTAATTTT
15846919 AATTTTTTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
41 52 0.87
42 8 0.13
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (41 bp):
TTTTAAAAAAAACGCCACTATAGCTTAATTTTTTGCGGCGT
Found at i:15846954 original size:18 final size:18
Alignment explanation
Indices: 15846915--15846953 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15846905 TATTGCTTAA
*
15846915 TTTTAATTTTTTTGTTAT
1 TTTTAATATTTTTGTTAT
15846933 TTTTAATATTTTT-TTAT
1 TTTTAATATTTTTGTTAT
15846950 TTTT
1 TTTT
15846954 TCTTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTAATATTTTTGTTAT
Found at i:15847055 original size:7 final size:7
Alignment explanation
Indices: 15847053--15847086 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
15847043 TTTTTTTAGT
*
15847053 TTTTTAG
1 TTTTTAA
15847060 TTTTTTAA
1 TT-TTTAA
15847068 TTTTTAA
1 TTTTTAA
15847075 TTTTTAA
1 TTTTTAA
15847082 TTTTT
1 TTTTT
15847087 TTGAGCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:15847071 original size:6 final size:7
Alignment explanation
Indices: 15847061--15847086 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15847051 GTTTTTTAGT
15847061 TTTTTAA
1 TTTTTAA
15847068 TTTTTAA
1 TTTTTAA
15847075 TTTTTAA
1 TTTTTAA
15847082 TTTTT
1 TTTTT
15847087 TTGAGCATTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:15847079 original size:8 final size:8
Alignment explanation
Indices: 15847044--15847087 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
15847034 TAAATATTAT
*
15847044 TTTTTTAG
1 TTTTTTAA
*
15847052 TTTTTTAG
1 TTTTTTAA
15847060 TTTTTTAA
1 TTTTTTAA
15847068 -TTTTTAA
1 TTTTTTAA
15847075 -TTTTTAA
1 TTTTTTAA
15847082 TTTTTT
1 TTTTTT
15847088 TGAGCATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 14 0.41
8 20 0.59
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:15847672 original size:21 final size:21
Alignment explanation
Indices: 15847641--15847706 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
15847631 TATAACACTT
*
15847641 AACCCCAAACCCATAAGCCTTA
1 AACCCC-AACCCATAAACCTTA
* *
15847663 AACCCCAACCCTTAAACCATA
1 AACCCCAACCCATAAACCTTA
** *
15847684 AACCATAATCCATAAACCTTA
1 AACCCCAACCCATAAACCTTA
15847705 AA
1 AA
15847707 ATAGTAACTC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 30 0.83
22 6 0.17
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (21 bp):
AACCCCAACCCATAAACCTTA
Found at i:15847868 original size:14 final size:14
Alignment explanation
Indices: 15847828--15847875 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
15847818 ACTAATTAAT
*
15847828 CTAAACCCTAAACTT
1 CTAAACCCTAAA-TC
* **
15847843 CTAATCATTAAATC
1 CTAAACCCTAAATC
15847857 CTAAACCCTAAATC
1 CTAAACCCTAAATC
15847871 CTAAA
1 CTAAA
15847876 ACATGAACCA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAAACCCTAAATC
Found at i:15847948 original size:11 final size:11
Alignment explanation
Indices: 15847932--15847963 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15847922 TAAACCCCAA
*
15847932 CCTTAAACTAC
1 CCTTAAACCAC
15847943 CCTTAAACCAC
1 CCTTAAACCAC
15847954 CCTTAAACCA
1 CCTTAAACCA
15847964 TGATCCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (11 bp):
CCTTAAACCAC
Found at i:15848232 original size:30 final size:31
Alignment explanation
Indices: 15848175--15848232 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
15848165 TTTAAAATTA
*
15848175 TTTTAAAAAATAGTATTTTCATTTTTTTCAT
1 TTTTAAAAAATAGTATTTTCATGTTTTTCAT
*
15848206 TTTTAACAAATA-T-TTTTCTATGTTTTT
1 TTTTAAAAAATAGTATTTTC-ATGTTTTT
15848233 ACTTTCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 8 0.33
31 11 0.46
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (31 bp):
TTTTAAAAAATAGTATTTTCATGTTTTTCAT
Found at i:15848581 original size:115 final size:115
Alignment explanation
Indices: 15848356--15848656 Score: 412
Period size: 115 Copynumber: 2.6 Consensus size: 115
15848346 AAATGTTTTC
* * * * *
15848356 TTTGTGGCGCTTTTT-AAAAACGCCGCTAAAGATCG-AGC-ATTAGCGGCGTTTTTTATAAAGCG
1 TTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGT-GTACCTA-TAGCGGCGCTTTTTAAAAAGCG
* *
15848418 CCGCCACAGCAACTAAAAGGTCAATAAAAACGACGTCGTTTTGCAAAACTCT
64 CCGCTAAAGCAACTAAAAGGTCAATAAAAACGACGTCGTTTTGCAAAACTCT
15848470 TTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCG-TTTTTAAAAAGCGCC
1 TTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGCTTTTTAAAAAGCGCC
* * * *
15848534 GCTAAAGCCACTAAAAGGTCAATACAAAGCGATGTCGTTTTGTAAAACTCT
66 GCTAAAGCAACTAAAAGGTCAATA-AAAACGACGTCGTTTTGCAAAACTCT
* * **
15848585 TTTGCGGCGCTTTTTGAAAAACGCCGCTATAGGTGTACCTATAGCGGTGCTTTTTAAAAAATGCC
1 TTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGCTTTTTAAAAAGCGCC
15848650 GCTAAAG
66 GCTAAAG
15848657 GTGTACCTAT
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
114 50 0.30
115 97 0.58
116 21 0.12
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (115 bp):
TTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGCTTTTTAAAAAGCGCC
GCTAAAGCAACTAAAAGGTCAATAAAAACGACGTCGTTTTGCAAAACTCT
Found at i:15848668 original size:155 final size:154
Alignment explanation
Indices: 15848473--15848809 Score: 561
Period size: 155 Copynumber: 2.2 Consensus size: 154
15848463 AAACTCTTTT
*
15848473 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCG-TTTTTAAAAAGCGCCGCT
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAA-CGCCGCT
* *
15848537 AAAGCCACTAAAAGGTCAATACAAAGCGATGTCGTTTTGTAAAACTCTTTTGCGGCGCTTTTTGA
65 AAAGCCACTAAAAGGTCAATACAAAACGATGTCGTTTTGTAAAACTCTTTTGCAGCG-TTTTTGA
*
15848602 AAAACGCCGCTATAGGTGTACCTATA
129 AAAACGCCGCTAAAGGTGTACCTATA
* *
15848628 GCGGTGCTTTTTAAAAAATGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAACGCCGCTA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAACGCCGCTA
*
15848693 AAGCCACTAAAAGGTCAATACAAAACGATGTTGTTTTGTAAAACTCTTTTGCAGCGTTTTTGAAA
66 AAGCCACTAAAAGGTCAATACAAAACGATGTCGTTTTGTAAAACTCTTTTGCAGCGTTTTTGAAA
15848758 AACGCCGCTAAAGGTGTACCTATA
131 AACGCCGCTAAAGGTGTACCTATA
* *
15848782 GCGGCG-TTTTTAAGAAGCGCCGCTAAAG
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAG
15848810 CCACTAAAAG
Statistics
Matches: 170, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
153 19 0.11
154 37 0.22
155 104 0.61
156 10 0.06
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (154 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAACGCCGCTA
AAGCCACTAAAAGGTCAATACAAAACGATGTCGTTTTGTAAAACTCTTTTGCAGCGTTTTTGAAA
AACGCCGCTAAAGGTGTACCTATA
Found at i:15848678 original size:39 final size:40
Alignment explanation
Indices: 15848588--15848695 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
15848578 AAACTCTTTT
* *
15848588 GCGGCGCTTTTTGAAAAACGCCGCTATAGGTGTACCTATA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATA
* *
15848628 GCGGTGCTTTTTAAAAAATGCCGCTAAAGGTGTACCTATA
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATA
*
15848668 GCGGCG-TTTTTTAAAAACGCCGCTAAAG
1 GCGGCGCTTTTTAAAAAACGCCGCTAAAG
15848696 CCACTAAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 20 0.33
40 41 0.67
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATA
Found at i:15848841 original size:114 final size:115
Alignment explanation
Indices: 15848633--15848884 Score: 418
Period size: 114 Copynumber: 2.2 Consensus size: 115
15848623 CTATAGCGGT
*
15848633 GCTTTTTAAAAAATGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAACGCCGCTAAAGCC
1 GCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAACGCCGCTAAAGCC
**
15848698 ACTAAAAGGTCAATACAAAACGATGTTGTTTTGTAAAACTCTTTTGCAGC
66 ACTAAAAGGTCAATACAAAACGACATTGTTTTGTAAAACTCTTTTGCAGC
* *
15848748 G-TTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCG-TTTTTAAGAAGCGCCGCTAAAGC
1 GCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAA-AAACGCCGCTAAAGC
* *
15848811 CACTAAAAGGTCAATACAAAATGACATTGTTTTGTAAAACTCTTTTGCGGC
65 CACTAAAAGGTCAATACAAAACGACATTGTTTTGTAAAACTCTTTTGCAGC
15848862 GCTTTTTAAAAAACGCCGCTAAA
1 GCTTTTTAAAAAACGCCGCTAAA
15848885 AACCTGTTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
113 7 0.06
114 99 0.78
115 21 0.17
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (115 bp):
GCTTTTTAAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTTAAAAACGCCGCTAAAGCC
ACTAAAAGGTCAATACAAAACGACATTGTTTTGTAAAACTCTTTTGCAGC
Found at i:15848845 original size:269 final size:270
Alignment explanation
Indices: 15848396--15848882 Score: 816
Period size: 269 Copynumber: 1.8 Consensus size: 270
15848386 GATCGAGCAT
* *
15848396 TAGCGGCGTTTTTTATAAAGCGCCGCCACAGCAACTAAAAGGTCAATAAAAACGACGTCGTTTTG
1 TAGCGGCGTTTTTTATAAAACGCCGCCAAAGCAACTAAAAGGTCAATAAAAACGACGTCGTTTTG
*
15848461 CAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
66 CAAAACTCTTTTGCAGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
* **
15848526 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAGCGATGTCGTTTTGTAAAACTCTTTTGCG
131 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACATCGTTTTGTAAAACTCTTTTGCG
*
15848591 GCGCTTTTTGAAAAACGCCGCTATAGGTGTACCTATAGCGGTGCTTTTTAAAAAATGCCGCTAAA
196 GCGCTTTTTAAAAAACGCCGCTATAGGTGTACCTATAGCGGTGCTTTTTAAAAAATGCCGCTAAA
15848656 GGTGTACCTA
261 GGTGTACCTA
* * * *
15848666 TAGCGGCGTTTTTTA-AAAACGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGATGTTGTTTT
1 TAGCGGCGTTTTTTATAAAACGCCGCCAAAGCAACTAAAAGGTCAATA-AAAACGACGTCGTTTT
*
15848730 GTAAAACTCTTTTGCAGCG-TTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTA
65 GCAAAACTCTTTTGCAGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTA
* * *
15848794 AGAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAATGACATTGTTTTGTAAAACTCTTTTGC
130 AAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACATCGTTTTGTAAAACTCTTTTGC
15848859 GGCGCTTTTTAAAAAACGCCGCTA
195 GGCGCTTTTTAAAAAACGCCGCTA
15848883 AAAACCTGTT
Statistics
Matches: 201, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
269 155 0.77
270 46 0.23
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (270 bp):
TAGCGGCGTTTTTTATAAAACGCCGCCAAAGCAACTAAAAGGTCAATAAAAACGACGTCGTTTTG
CAAAACTCTTTTGCAGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACATCGTTTTGTAAAACTCTTTTGCG
GCGCTTTTTAAAAAACGCCGCTATAGGTGTACCTATAGCGGTGCTTTTTAAAAAATGCCGCTAAA
GGTGTACCTA
Found at i:15849322 original size:131 final size:130
Alignment explanation
Indices: 15849084--15849336 Score: 404
Period size: 131 Copynumber: 1.9 Consensus size: 130
15849074 GGACTCCCCC
* *
15849084 AAAACAAGGTAATACTCGATGTTTGGCAATTCAGGAATCGTGCCCTATCGTGCTGGGTTTCAATT
1 AAAACAAGGTAATACTCGATGTTTGGCAATTCAGGAATCATGCCCTATCGTGCTGGGTTGCAATT
*
15849149 TCTCGTTTGTTCAAAACAATCGAATATTCCTTTGAAATTTCACTCATG-TCTTTAAAAACTCTGT
66 TCTCATTTGTTCAAAACAATCGAATATTCCTTTGAAATTTCACTCATGTTCTTTAAAAACTCTGT
*
15849213 AAAACGAAGGTAATACTCGATGTTTTGGCAATTC-GAGAATCATGCCCTATCGTGCTGGGTTGCG
1 AAAAC-AAGGTAATACTCGATG-TTTGGCAATTCAG-GAATCATGCCCTATCGTGCTGGGTTGCA
*
15849277 ATTTCTCATTTGTTCAAAATAATCGAATATTCCTTT-AGAATTTCACTCATGTTCTTTAAA
63 ATTTCTCATTTGTTCAAAACAATCGAATATTCCTTTGA-AATTTCACTCATGTTCTTTAAA
15849337 TTCTAAAATA
Statistics
Matches: 114, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
129 5 0.04
130 18 0.16
131 83 0.73
132 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (130 bp):
AAAACAAGGTAATACTCGATGTTTGGCAATTCAGGAATCATGCCCTATCGTGCTGGGTTGCAATT
TCTCATTTGTTCAAAACAATCGAATATTCCTTTGAAATTTCACTCATGTTCTTTAAAAACTCTGT
Found at i:15853365 original size:26 final size:26
Alignment explanation
Indices: 15853329--15853490 Score: 254
Period size: 26 Copynumber: 6.2 Consensus size: 26
15853319 CATGAAATTC
15853329 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
15853355 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
15853381 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
15853407 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
15853433 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
15853459 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
15853485 TTATCA
1 TTATCA
15853491 ATTTGTATCA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 125 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:15853462 original size:78 final size:78
Alignment explanation
Indices: 15853329--15853490 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
15853319 CATGAAATTC
*
15853329 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
15853394 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
15853407 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
15853472 TTTACCTAACCTA
66 TTTACCTAACCTA
15853485 TTATCA
1 TTATCA
15853491 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:15872066 original size:13 final size:14
Alignment explanation
Indices: 15872036--15872068 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15872026 TAATATTATT
15872036 ATATTAATTATAAA
1 ATATTAATTATAAA
*
15872050 ATATTAA-TATCAA
1 ATATTAATTATAAA
15872063 ATATTA
1 ATATTA
15872069 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAATTATAAA
Found at i:15875395 original size:25 final size:25
Alignment explanation
Indices: 15875350--15875397 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15875340 AGCTTTCTTT
**
15875350 TTATATTCTTTAAAATTTAAAAAAA
1 TTATATTCTTTAAAAAATAAAAAAA
15875375 TTATAATT-TTTAAAAAATAAAAA
1 TTAT-ATTCTTTAAAAAATAAAAA
15875398 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATATTCTTTAAAAAATAAAAAAA
Found at i:15875401 original size:16 final size:17
Alignment explanation
Indices: 15875361--15875435 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
15875351 TATATTCTTT
*
15875361 AAAATTTAAAAAAATTA
1 AAAATTTTAAAAAATTA
* *
15875378 TAATTTTTAAAAAA-TA
1 AAAATTTTAAAAAATTA
* *
15875394 AAAATTTTGAAATATTTA
1 AAAATTTT-AAAAAATTA
*
15875412 TAAATATTTT-AAAATTTA
1 -AAA-ATTTTAAAAAATTA
15875430 AAAATT
1 AAAATT
15875436 ATTTTGAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
16 11 0.24
17 18 0.39
18 9 0.20
19 3 0.07
20 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (17 bp):
AAAATTTTAAAAAATTA
Found at i:15875428 original size:18 final size:20
Alignment explanation
Indices: 15875391--15875443 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
15875381 TTTTTAAAAA
*
15875391 ATAAAAATTTTGAAATATTT
1 ATAAATATTTTGAAATATTT
15875411 ATAAATATTTT-AAA-ATTT
1 ATAAATATTTTGAAATATTT
*
15875429 AAAAATTATTTTGAA
1 ATAAA-TATTTTGAA
15875444 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATAAATATTTTGAAATATTT
Found at i:15881890 original size:93 final size:93
Alignment explanation
Indices: 15881778--15881949 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
15881768 GCCCATAAGT
* *
15881778 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15881843 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
15881871 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15881936 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
15881950 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15881945 original size:46 final size:46
Alignment explanation
Indices: 15881770--15881945 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
15881760 TGTAACCCGC
* * *
15881770 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
15881816 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
15881866 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
15881909 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15881946 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:15888986 original size:12 final size:12
Alignment explanation
Indices: 15888971--15889009 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
15888961 ATATTTAAAT
*
15888971 TTAAACTCGAAC
1 TTAAGCTCGAAC
*
15888983 TTAAGCTCGAGC
1 TTAAGCTCGAAC
15888995 TTAAGCTC-AAC
1 TTAAGCTCGAAC
15889006 TTAA
1 TTAA
15889010 TTATTTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (12 bp):
TTAAGCTCGAAC
Found at i:15889581 original size:87 final size:87
Alignment explanation
Indices: 15889488--15889664 Score: 320
Period size: 87 Copynumber: 2.0 Consensus size: 87
15889478 CATTCAACTA
15889488 ATCGAGATTATTGTTAAATCTCTTATGAGAAAATGACATGACAGTT-AAAAATTAATATAATAAC
1 ATCGAGATTATTGTTAAATCTCTTATGAGAAAATGACATGACAGTTAAAAAATTAATATAATAAC
15889552 AAATTCTTAAAATTTACCTTTAT
66 AAATTCTTAAAATTTACCTTT-T
* *
15889575 ATCGAGATTGTTGTTAAATCTCTTATGAGAGAATGACATGACAGTTAAAAAATTAATATAATAAC
1 ATCGAGATTATTGTTAAATCTCTTATGAGAAAATGACATGACAGTTAAAAAATTAATATAATAAC
15889640 AAATTCTTAAAATTTACCTTTT
66 AAATTCTTAAAATTTACCTTTT
15889662 ATC
1 ATC
15889665 TTCCGCTTCC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
87 48 0.55
88 39 0.45
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (87 bp):
ATCGAGATTATTGTTAAATCTCTTATGAGAAAATGACATGACAGTTAAAAAATTAATATAATAAC
AAATTCTTAAAATTTACCTTTT
Found at i:15894777 original size:46 final size:46
Alignment explanation
Indices: 15894705--15894880 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
15894695 TATTTGGGCA
15894705 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
15894751 TCCGAACTCGTTGAGTTGAGTTCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* *
15894796 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * * *
15894844 CCCGAGCTCGTTGAGTTCAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
15894881 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 61 0.56
47 27 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:15894860 original size:93 final size:93
Alignment explanation
Indices: 15894701--15894872 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
15894691 AGGATATTTG
* *
15894701 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
* *
15894766 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTCAGTCCGAGTTCGTGAGATGTAACTA
* *
15894794 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
15894859 TTCAGTCCGAGTTC
66 TTCAGTCCGAGTTC
15894873 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTCAGTCCGAGTTCGTGAGATGTAACTA
Found at i:15907302 original size:42 final size:42
Alignment explanation
Indices: 15907175--15907288 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
15907165 CTTCGTTTTC
** * *
15907175 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
15907218 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
15907259 TCGATGCCATAGCCCAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
15907289 TGAAATCACA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.03
42 62 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:15907318 original size:49 final size:51
Alignment explanation
Indices: 15907245--15907347 Score: 165
Period size: 49 Copynumber: 2.1 Consensus size: 51
15907235 TATGGTCTTA
*
15907245 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACAT-GAAAT
1 CACATATTCATATATCGATGCCATAGCCCAGATATGGTCTTACATGGAAAT
* *
15907295 CACATA-TCATATATCGATGCCATATCCCAGATATGGTCTTATATGGAAAT
1 CACATATTCATATATCGATGCCATAGCCCAGATATGGTCTTACATGGAAAT
15907345 CAC
1 CAC
15907348 TTGTCACTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 35 0.71
50 14 0.29
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (51 bp):
CACATATTCATATATCGATGCCATAGCCCAGATATGGTCTTACATGGAAAT
Found at i:15907392 original size:31 final size:31
Alignment explanation
Indices: 15907357--15907443 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
15907347 CTTGTCACTT
* *
15907357 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
15907388 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
15907419 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
15907444 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:15907519 original size:50 final size:51
Alignment explanation
Indices: 15907419--15907547 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
15907409 CACTGATCAG
* * * *
15907419 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
15907470 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
15907520 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
15907548 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 49 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
Found at i:15916244 original size:23 final size:22
Alignment explanation
Indices: 15916214--15916258 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
15916204 GAAGGATGAG
*
15916214 GGAAAAAAAGGGGTAAATGAGGA
1 GGAAAAAAAAGGGTAAAT-AGGA
15916237 GGAAAAAAAAGGGTAAATAGGA
1 GGAAAAAAAAGGGTAAATAGGA
15916259 AAACAGGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.09
Consensus pattern (22 bp):
GGAAAAAAAAGGGTAAATAGGA
Found at i:15921853 original size:37 final size:37
Alignment explanation
Indices: 15921807--15921882 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
15921797 CTTCAGAGAC
*
15921807 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGTTT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
15921844 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
1 ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
15921881 AT
1 AT
15921883 AGTATGGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (37 bp):
ATGAAATTAAGCATCCTTGTAGTTTTACTTTCAGATT
Found at i:15923836 original size:26 final size:26
Alignment explanation
Indices: 15923807--15923888 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
15923797 TGGTACAAAT
15923807 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
* *
15923833 TGATAATGGGTTCGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
15923859 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
15923885 TGAT
1 TGAT
15923889 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGTTTAGGTAAATGTTCCA
Found at i:15925373 original size:28 final size:26
Alignment explanation
Indices: 15925331--15925405 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
15925321 AAAAGCAGCT
* * *
15925331 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
15925359 AAATTACTGTTATACCTCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
15925385 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
15925406 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:15925550 original size:27 final size:27
Alignment explanation
Indices: 15925510--15925668 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
15925500 AGGAAGCGTC
*
15925510 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
15925537 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
15925563 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
15925591 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
15925618 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
15925645 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
15925669 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 102 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:15925589 original size:54 final size:54
Alignment explanation
Indices: 15925507--15925668 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
15925497 TGGAGGAAGC
15925507 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
15925561 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
15925615 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
15925668 G
1 G
15925669 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 89 0.87
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:15925662 original size:81 final size:80
Alignment explanation
Indices: 15925510--15925668 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
15925500 AGGAAGCGTC
* *
15925510 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
15925575 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
15925591 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
15925654 CCGTCACAATATCTG
64 ACGCCACAATATCTG
15925669 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:15928430 original size:15 final size:15
Alignment explanation
Indices: 15928406--15928442 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
15928396 ACTCCATTCC
*
15928406 CTTTACTCATGGTAA
1 CTTTAGTCATGGTAA
15928421 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
15928436 CTTTAGT
1 CTTTAGT
15928443 TATTGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:15933634 original size:29 final size:30
Alignment explanation
Indices: 15933602--15933658 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
15933592 ACCATGAATA
* *
15933602 TAATTAAACTAACAA-ATTCAACCAAAAAT
1 TAATGAAACTAACAAGACTCAACCAAAAAT
*
15933631 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAGACTCAACCAAAA
15933659 GTAATCGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (30 bp):
TAATGAAACTAACAAGACTCAACCAAAAAT
Found at i:15941265 original size:18 final size:18
Alignment explanation
Indices: 15941244--15941281 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15941234 ACAATTTAAA
15941244 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
15941262 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
15941280 AT
1 AT
15941282 GTGAAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:15941745 original size:16 final size:16
Alignment explanation
Indices: 15941724--15941758 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
15941714 TAAATTTTAA
15941724 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
15941740 TTAATTAAGAGATATT
1 TTAATTAAGAGATATT
15941756 TTA
1 TTA
15941759 GTTATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAATTAAGAGATATT
Found at i:15945499 original size:3 final size:3
Alignment explanation
Indices: 15945491--15945549 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
15945481 GGAATATTAT
15945491 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
15945539 AAC AAC AAC AA
1 AAC AAC AAC AA
15945550 TATAATAATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:15945557 original size:3 final size:3
Alignment explanation
Indices: 15945551--15945608 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
15945541 CAACAACAAT
15945551 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15945599 ATA ATA ATA A
1 ATA ATA ATA A
15945609 GGTAAATTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15945639 original size:7 final size:6
Alignment explanation
Indices: 15945551--15945640 Score: 54
Period size: 6 Copynumber: 14.3 Consensus size: 6
15945541 CAACAACAAT
* * * * * * * *
15945551 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
15945599 ATAATA ATAAGGTAA ATTAAA ATAAAA ATAAAA ATAGAAA AT
1 ATAAAA ATAA---AA ATAAAA ATAAAA ATAAAA ATA-AAA AT
15945641 GTATGATTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
6 68 0.88
7 5 0.06
9 4 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (6 bp):
ATAAAA
Found at i:15945761 original size:24 final size:24
Alignment explanation
Indices: 15945720--15945766 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15945710 CGAGTAAAGA
*
15945720 AATAAAAATAAAATAATA-ACAAC
1 AATAAAAATAAAAAAATACACAAC
15945743 AATAATAAATAAAAAAATACACAA
1 AATAA-AAATAAAAAAATACACAA
15945767 ATAAAAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (24 bp):
AATAAAAATAAAAAAATACACAAC
Found at i:15945769 original size:23 final size:22
Alignment explanation
Indices: 15945719--15945772 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
15945709 ACGAGTAAAG
*
15945719 AAATAAAAATAAAATAATAACA
1 AAATAAAAATAAAAAAATAACA
15945741 ACAATAATAAATAAAAAAAT-ACA
1 A-AATAA-AAATAAAAAAATAACA
15945764 CAAATAAAA
1 -AAATAAAA
15945773 GAGCATAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 13 0.46
24 12 0.43
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATAAAAATAAAAAAATAACA
Found at i:15945835 original size:20 final size:19
Alignment explanation
Indices: 15945800--15945839 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
15945790 TATTTAAGCG
15945800 TAAAAAGAAAAAAAATAAA
1 TAAAAAGAAAAAAAATAAA
*
15945819 TAAAAAGATAAATAAATAAA
1 TAAAAAGA-AAAAAAATAAA
15945839 T
1 T
15945840 GCTCGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
TAAAAAGAAAAAAAATAAA
Found at i:15951929 original size:29 final size:27
Alignment explanation
Indices: 15951896--15951956 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
15951886 AATCCTCCAT
15951896 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTA-AATCATAGCCTCCCA
* *
15951923 AACACACCGGTAAATCATATCCTCCCA
1 AACACACCAGTAAATCATAGCCTCCCA
15951950 AACACAC
1 AACACAC
15951957 TAATAAGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.41, C:0.36, G:0.07, T:0.16
Consensus pattern (27 bp):
AACACACCAGTAAATCATAGCCTCCCA
Found at i:15952489 original size:17 final size:18
Alignment explanation
Indices: 15952459--15952492 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15952449 AATTTTTATT
*
15952459 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
15952477 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
15952493 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:15953257 original size:2 final size:2
Alignment explanation
Indices: 15953250--15953285 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15953240 AAATACACAA
15953250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15953286 TACATGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15953396 original size:3 final size:3
Alignment explanation
Indices: 15953388--15953441 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
15953378 TTTTAAATCA
* * * * *
15953388 AAT AAT AAT AAT AAT TAT TAT AAT AAT AAT AAT ATT AAC AAT AAC AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
15953437 AAT AA
1 AAT AA
15953442 AATCTAAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:15958019 original size:2 final size:2
Alignment explanation
Indices: 15958012--15958041 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15958002 AAAGATACAA
15958012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15958042 TTGGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15966358 original size:21 final size:21
Alignment explanation
Indices: 15966332--15966374 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15966322 GAAGACTAAA
15966332 AAAGTACAAATTTAAAATTAT
1 AAAGTACAAATTTAAAATTAT
*
15966353 AAAGTATAAATTTAAAATTAT
1 AAAGTACAAATTTAAAATTAT
15966374 A
1 A
15966375 TGAGAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAGTACAAATTTAAAATTAT
Found at i:15967020 original size:18 final size:18
Alignment explanation
Indices: 15966993--15967032 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15966983 TTGATTTTCA
* *
15966993 TTTATATTCTTTTATTTG
1 TTTATATTCTTGTATGTG
*
15967011 TTTATGTTCTTGTATGTG
1 TTTATATTCTTGTATGTG
15967029 TTTA
1 TTTA
15967033 ACTTCTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTATATTCTTGTATGTG
Found at i:15969405 original size:151 final size:147
Alignment explanation
Indices: 15969102--15969415 Score: 415
Period size: 151 Copynumber: 2.1 Consensus size: 147
15969092 GAAAAGTTTA
15969102 AATTTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTA
1 AATTTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTA
* * *
15969167 AATGGAAAGTTTAAATTTTTAAAATAAATTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGA
66 AATGAAAAGTTTAAATTTTTAAAATAAATTTTGATTTTTTAACTAATTCGAAATAAAAACTTTGA
*
15969232 TTTTTAAGAAAAATAGT
131 TTTGTAAGAAAAATAGT
*
15969249 AATTTTTTTTAGAAAAAGGAGAAAGTTTAGATTTT-AAAATAAAAAT-T-TATTTT-TTTAGTCA
1 AATTTTTTTAAGAAAAA-GAG--AGTTTAGATTTTAAAAATAAAAATATGT-TTTTCTTTAGTCA
* *
15969310 TTTTTAAA-GAAAAGTTTAAATTTTTTAAAGTAAATTTTTTATTTTTTTAACTAATTCGAAATAA
62 --TTTAAATGAAAAGTTTAAA-TTTTTAAAATAAA-TTTTGA-TTTTTTAACTAATTCGAAATAA
* *
15969374 AAGCTTTGATTTGTAAGAAAAGTAGT
122 AAACTTTGATTTGTAAGAAAAATAGT
*
15969400 GATTTTTTTAA-AAAAA
1 AATTTTTTTAAGAAAAA
15969416 CTTTGATTTT
Statistics
Matches: 147, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
147 25 0.17
148 19 0.13
149 29 0.20
150 22 0.15
151 52 0.35
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (147 bp):
AATTTTTTTAAGAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTCTTTAGTCATTTA
AATGAAAAGTTTAAATTTTTAAAATAAATTTTGATTTTTTAACTAATTCGAAATAAAAACTTTGA
TTTGTAAGAAAAATAGT
Found at i:15975065 original size:20 final size:20
Alignment explanation
Indices: 15975040--15975079 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15975030 GGTCACACAT
*
15975040 GCCCGTATGGCTTAGGACAC
1 GCCCGTATGGCTCAGGACAC
*
15975060 GCCCGTGTGGCTCAGGACAC
1 GCCCGTATGGCTCAGGACAC
15975080 ATCCGTGTCC
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:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (20 bp):
GCCCGTATGGCTCAGGACAC
Found at i:15975085 original size:20 final size:20
Alignment explanation
Indices: 15975041--15975087 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15975031 GTCACACATG
* * *
15975041 CCCGTATGGCTTAGGACACG
1 CCCGTGTGGCTCAGGACACA
15975061 CCCGTGTGGCTCAGGACACA
1 CCCGTGTGGCTCAGGACACA
*
15975081 TCCGTGT
1 CCCGTGT
15975088 CCTCCACCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.17, C:0.32, G:0.30, T:0.21
Consensus pattern (20 bp):
CCCGTGTGGCTCAGGACACA
Found at i:15977021 original size:48 final size:48
Alignment explanation
Indices: 15976944--15977370 Score: 367
Period size: 48 Copynumber: 8.9 Consensus size: 48
15976934 GTAAAATGTT
* *
15976944 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* * * * * * * **
15976992 AATGCCATATCCCAGACATGGTCTGACACTAGCTCCCGTCTCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* **
15977040 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACATATCAAGGCC
* * *
15977088 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* ** *
15977136 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAGGCC
* * * * * **
15977184 GATGTCATATCCCAGACATGGTCTTACAATAGCACACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* * * **
15977232 GATGCCATGCCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAGGCC
* * * * * * ** *
15977280 GATGTCATATCCTAGAAATGGTCTTACACTAGCACACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* * * **
15977328 GATGTCATGTCCTAGACATGGTCTTAGACTGAATCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
15977371 CATGTTCGCA
Statistics
Matches: 292, Mismatches: 79, Indels: 16
0.75 0.20 0.04
Matches are distributed among these distances:
46 5 0.02
47 6 0.02
48 272 0.93
49 5 0.02
50 4 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
Found at i:15977108 original size:96 final size:96
Alignment explanation
Indices: 15976944--15977358 Score: 566
Period size: 96 Copynumber: 4.3 Consensus size: 96
15976934 GTAAAATGTT
*
15976944 GATGCCATGTCCCAGACATGGTCTTACACTGG--CTCAC-ATGTCGAGGCCAATGCCATATCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGT---GGCCGATGCCATATCCCA
* * * * * *
15977006 GACATGGTCTGACACTAGCTCCCGTCTCAATACC
63 GACATGGTCTTACACTAGCACACATATCAACACC
* *
15977040 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATGTGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCGATGCCATATCCCAGAC
*
15977105 ATGGTCTTACACTAGCACACATATCAACGCC
66 ATGGTCTTACACTAGCACACATATCAACACC
* * *
15977136 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGTCATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCGATGCCATATCCCAGAC
*
15977201 ATGGTCTTACAATAGCACACATATCAACACC
66 ATGGTCTTACACTAGCACACATATCAACACC
* * * * * *
15977232 GATGCCATGCCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGTCATATCCTAGAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCGATGCCATATCCCAGAC
*
15977297 ATGGTCTTACACTAGCACACATATCAACACT
66 ATGGTCTTACACTAGCACACATATCAACACC
* * *
15977328 GATGTCATGTCCTAGACATGGTCTTAGACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
15977359 AATCACATAT
Statistics
Matches: 287, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
96 278 0.97
98 5 0.02
99 4 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCGATGCCATATCCCAGAC
ATGGTCTTACACTAGCACACATATCAACACC
Found at i:15977366 original size:144 final size:145
Alignment explanation
Indices: 15976944--15977370 Score: 434
Period size: 144 Copynumber: 3.0 Consensus size: 145
15976934 GTAAAATGTT
* *
15976944 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATATCCCAGAC
* * * * * * * *
15977009 ATGGTCTGACACTAGCTCCCGTCTCAATACCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
66 ATGGTCTTACACTAGCTCACATATCAACACTGATGTCATGTCCCAGACATGGTCTTACACTAG-A
* ****
15977074 CTCACA-AT-GTGGCC
130 ATCACATATCAACACC
* * * * *
15977088 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATATCCCAGAC
* * **** * * *
15977153 ATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGTCATATCCCAGACATGGTCTTACAATAGC
66 ATGGTCTTACACTAGCTCACAT-ATCAACACTGATGTCATGTCCCAGACATGGTCTTACACTAGA
15977217 A-CACATATCAACACC
130 ATCACATATCAACACC
* * * * * *
15977232 GATGCCATGCCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGTCATATCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCGATGCCATATCCCAGA
* * * *
15977296 AATGGTCTTACACTAGCACACATATCAACACTGATGTCATGTCCTAGACATGGTCTTAGACT-GA
65 CATGGTCTTACACTAGCTCACATATCAACACTGATGTCATGTCCCAGACATGGTCTTACACTAGA
15977360 ATCACATATCA
130 ATCACATATCA
15977371 CATGTTCGCA
Statistics
Matches: 227, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
142 4 0.02
143 6 0.03
144 214 0.94
145 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (145 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATATCCCAGAC
ATGGTCTTACACTAGCTCACATATCAACACTGATGTCATGTCCCAGACATGGTCTTACACTAGAA
TCACATATCAACACC
Found at i:15980564 original size:38 final size:39
Alignment explanation
Indices: 15980473--15980566 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
15980463 CGGTACCTTT
* *
15980473 TGGTGTGTAGGGTTGGATAGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCA-ACA
* * *
15980513 TGGTGTGTAGGGTTGGGTGGGTTAATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAACA
*
15980551 TGGTGTGTTGGGTTGG
1 TGGTGTGTAGGGTTGG
15980567 TCGGAGATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 17 0.35
40 31 0.65
ACGTcount: A:0.15, C:0.12, G:0.36, T:0.37
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATAGGTTAATTATATCCCCAACA
Found at i:15983357 original size:40 final size:40
Alignment explanation
Indices: 15983312--15983478 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
15983302 CGGAATATAA
15983312 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
15983352 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
15983392 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
15983432 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15983471 CCGGATAT
1 CCGGATAT
15983479 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15991347 original size:40 final size:40
Alignment explanation
Indices: 15991302--15991468 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
15991292 CGGAATATAA
15991302 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
15991342 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
15991382 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
15991422 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15991461 CCGGATAT
1 CCGGATAT
15991469 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15993781 original size:37 final size:37
Alignment explanation
Indices: 15993680--15993782 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 37
15993670 TAGTTTACTT
* *
15993680 GATGCCATAGTCCAACTATGGTCTTACACAAAATCAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
* * * * * *** *
15993717 AATGCCATAGCCCAGCTAAGATATTACATGTCATTAC
1 GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
15993754 GATGCCATAGCCCAACTATGGTCTTACAT
1 GATGCCATAGCCCAACTATGGTCTTACAT
15993783 TCCATACTTT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (37 bp):
GATGCCATAGCCCAACTATGGTCTTACATAAAATCAC
Found at i:15996696 original size:48 final size:48
Alignment explanation
Indices: 15996619--15997045 Score: 403
Period size: 48 Copynumber: 8.9 Consensus size: 48
15996609 GTAAAATGTT
* *
15996619 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* * * * * * * **
15996667 AATGCCATATCCCAGACATGGTCTGACACTAGCTCCCGTCTCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* **
15996715 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-AT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACATATCAAGGCC
* * * *
15996763 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* **
15996811 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAGGCC
* * * * * *
15996859 GATGCTATATCCCAGACATGGTCTTACACTAGCACACATATCAACGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* * * ** *
15996907 GATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAAGGCC
* * * * * * *
15996955 AATGCCATATCACAGACATGGTCTTACACTAGCACACATATCAACGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
* **
15997003 GATGCCATGTCCTAGACATGGTCTTACACTGAATCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
15997046 CATGTTCGCA
Statistics
Matches: 299, Mismatches: 72, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
46 5 0.02
47 6 0.02
48 279 0.93
49 5 0.02
50 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCC
Found at i:15996783 original size:96 final size:96
Alignment explanation
Indices: 15996619--15997033 Score: 575
Period size: 96 Copynumber: 4.3 Consensus size: 96
15996609 GTAAAATGTT
15996619 GATGCCATGTCCCAGACATGGTCTTACACTGG--CTCAC-ATGTCGAGGCCAATGCCATATCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGT---GGCCAATGCCATATCCCA
* * * * * **
15996681 GACATGGTCTGACACTAGCTCCCGTCTCAATACC
63 GACATGGTCTTACACTAGCACACATATCAACGCC
* * *
15996715 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATGTGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCAATGCCATATCCCAGAC
* *
15996780 ATGGTCTTACACTAGCACACATATCAATGTC
66 ATGGTCTTACACTAGCACACATATCAACGCC
* * *
15996811 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCTATATCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCAATGCCATATCCCAGAC
*
15996876 ATGGTCTTACACTAGCACACATATCAACGCT
66 ATGGTCTTACACTAGCACACATATCAACGCC
* * * * *
15996907 GATGCCATGTTCCAGACATGGTCTTACACTGGCCCTCATAATGTGGCTAATGCCATATCACAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCAATGCCATATCCCAGAC
*
15996972 ATGGTCTTACACTAGCACACATATCAACGCT
66 ATGGTCTTACACTAGCACACATATCAACGCC
*
15997003 GATGCCATGTCCTAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
15997034 AATCACATAT
Statistics
Matches: 291, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
96 282 0.97
98 5 0.02
99 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCAATGCCATATCCCAGAC
ATGGTCTTACACTAGCACACATATCAACGCC
Found at i:15999494 original size:35 final size:35
Alignment explanation
Indices: 15999437--15999509 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
15999427 CACAAATCAA
*
15999437 ACAGATTCACGATTGGGCCTGAGCCCATGTCAGAT
1 ACAGATACACGATTGGGCCTGAGCCCATGTCAGAT
* * *
15999472 ACAGATACA-GATTCGGGTCTGAGCCCATTTTAGAT
1 ACAGATACACGATT-GGGCCTGAGCCCATGTCAGAT
15999507 ACA
1 ACA
15999510 AATATGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (35 bp):
ACAGATACACGATTGGGCCTGAGCCCATGTCAGAT
Found at i:16002106 original size:13 final size:13
Alignment explanation
Indices: 16002075--16002109 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
16002065 TTAGATTTGT
*
16002075 AAATAATTACTAG
1 AAATATTTACTAG
16002088 AAATATTTACTAG
1 AAATATTTACTAG
16002101 AAATATTTA
1 AAATATTTA
16002110 TGAACATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (13 bp):
AAATATTTACTAG
Found at i:16006760 original size:43 final size:43
Alignment explanation
Indices: 16006661--16006762 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
16006651 ACCAAGATGT
* * * * *
16006661 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
1 GATTACGTATAAGACCATGTCTAGGACATTGGCATCGTAATCA
* *
16006704 GATTACGTGTAAGACCATGTCTAGGATATTGGCATCGTTAATCA
1 GATTACGTATAAGACCATGTCTAGGACATTGGCATCG-TAATCA
*
16006748 -ATTTCGTATAAGACC
1 GATTACGTATAAGACC
16006763 TTGTTTGGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACGTATAAGACCATGTCTAGGACATTGGCATCGTAATCA
Found at i:16013828 original size:40 final size:42
Alignment explanation
Indices: 16013732--16013828 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 42
16013722 GAACAATCCT
16013732 GCACACTTAGTGCCATCTCATATAACCAAAGCTATCTCAATATC
1 GCACACTTAGTG-CA-CTCATATAACCAAAGCTATCTCAATATC
* * * *
16013776 GCACACTTAGTGC-CTCATATAGCCGAAGCTAT-TCCATTTC
1 GCACACTTAGTGCACTCATATAACCAAAGCTATCTCAATATC
16013816 GCACACTTAGTGC
1 GCACACTTAGTGC
16013829 TATTTATAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 19 0.39
41 17 0.35
43 1 0.02
44 12 0.24
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (42 bp):
GCACACTTAGTGCACTCATATAACCAAAGCTATCTCAATATC
Found at i:16013837 original size:40 final size:40
Alignment explanation
Indices: 16013732--16013867 Score: 116
Period size: 40 Copynumber: 3.3 Consensus size: 40
16013722 GAACAATCCT
* * *
16013732 GCACACTTAGTGCCATCTCATATAACCAAAGCTATCTCAATATC
1 GCACACTTAGTGCTAT-T--TATAGCCGAAGCTAT-TCAATATC
* *
16013776 GCACACTTAGTGCCTCA--TATAGCCGAAGCTATTCCATTTC
1 GCACACTTAGTG-CT-ATTTATAGCCGAAGCTATTCAATATC
* **
16013816 GCACACTTAGTGCTATTTATAGCCGAAGTTATTTTGA-ATC
1 GCACACTTAGTGCTATTTATAGCCGAAGCTA-TTCAATATC
16013856 GCACACTTAGTG
1 GCACACTTAGTG
16013868 TCAAATACAG
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 45 0.58
41 16 0.21
44 12 0.15
45 1 0.01
46 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (40 bp):
GCACACTTAGTGCTATTTATAGCCGAAGCTATTCAATATC
Found at i:16015710 original size:19 final size:21
Alignment explanation
Indices: 16015672--16015716 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
16015662 AATTATGATA
*
16015672 ATTTTTAATTTTTTATAAA-T
1 ATTTTTAATTTTTGATAAATT
16015692 ATTTTTAATTTTTGA-AAATT
1 ATTTTTAATTTTTGATAAATT
16015712 ATTTT
1 ATTTT
16015717 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTAATTTTTGATAAATT
Found at i:16015723 original size:20 final size:19
Alignment explanation
Indices: 16015674--16015724 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
16015664 TTATGATAAT
16015674 TTTTAATTTTTTATAAATA
1 TTTTAATTTTTTATAAATA
*
16015693 TTTTTAATTTTTGA-AAATTA
1 -TTTTAATTTTTTATAAA-TA
*
16015713 TTTTGATTTTTT
1 TTTTAATTTTTT
16015725 TTGTTGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTTTATAAATA
Found at i:16016935 original size:3 final size:3
Alignment explanation
Indices: 16016929--16016996 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
16016919 CCAAAGGAGG
*
16016929 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16016977 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
16016997 GGAGAAGGAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16017004 original size:6 final size:6
Alignment explanation
Indices: 16016995--16017066 Score: 90
Period size: 6 Copynumber: 11.5 Consensus size: 6
16016985 TAATAATAAT
*
16016995 AAGGAG AAGGAG AAGGAG AAGGAG CAGGAG AAGGAG AAGAAGAAG AAGGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG--G-AG AAGGAG
* *
16017046 AAGGAG AAGGAA AAGAAG AAG
1 AAGGAG AAGGAG AAGGAG AAG
16017067 AAAAAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
6 51 0.88
7 1 0.02
8 1 0.02
9 5 0.09
ACGTcount: A:0.54, C:0.01, G:0.44, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:16017037 original size:3 final size:3
Alignment explanation
Indices: 16016999--16017103 Score: 70
Period size: 3 Copynumber: 35.3 Consensus size: 3
16016989 AATAATAAGG
* * * * * * *
16016999 AGA AGG AGA AGG AGA AGG AGC AGG AGA AGG AGA AGA AGA AGA AGG AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * * * *
16017047 AGG AGA AGGA A-A AGA AGA AGA A-A AAA AAA AGA AGG AGA AGG AGA
1 AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
16017091 AGA AAA AGA AGA A
1 AGA AGA AGA AGA A
16017104 AGCTTTATAC
Statistics
Matches: 78, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
2 4 0.05
3 71 0.91
4 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16017043 original size:27 final size:27
Alignment explanation
Indices: 16016995--16017094 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 27
16016985 TAATAATAAT
16016995 AAGGAGAAGGAGAAG--G-AGAAGGAG
1 AAGGAGAAGGAGAAGAAGAAGAAGGAG
*
16017019 CAGGAGAAGGAGAAGAAGAAGAAGGAG
1 AAGGAGAAGGAGAAGAAGAAGAAGGAG
* * *
16017046 AAGGAGAAGGAAAAGAAGAAGAA-AAA
1 AAGGAGAAGGAGAAGAAGAAGAAGGAG
** *
16017072 AAAAAGAAGGAGAAGGAGAAGAA
1 AAGGAGAAGGAGAAGAAGAAGAA
16017095 AAAGAAGAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 14 0.22
26 21 0.33
27 29 0.45
ACGTcount: A:0.59, C:0.01, G:0.40, T:0.00
Consensus pattern (27 bp):
AAGGAGAAGGAGAAGAAGAAGAAGGAG
Found at i:16017811 original size:23 final size:23
Alignment explanation
Indices: 16017785--16017831 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16017775 TTCGGTGTTT
*
16017785 TCCCGCTACACGCTTCAACGTTG
1 TCCCACTACACGCTTCAACGTTG
* *
16017808 TCCCATTACACGCTTCGACGTTG
1 TCCCACTACACGCTTCAACGTTG
16017831 T
1 T
16017832 TTCGCTCTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.30
Consensus pattern (23 bp):
TCCCACTACACGCTTCAACGTTG
Found at i:16020357 original size:25 final size:25
Alignment explanation
Indices: 16020284--16020371 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
16020274 TATATATATC
16020284 ATTTAT-T-TATT-TTAAAAA-ACT
1 ATTTATATATATTATTAAAAATACT
**
16020305 ATACATATATATTATTAAAAATACT
1 ATTTATATATATTATTAAAAATACT
**
16020330 ATTTATATAT-TTATATAAAAATTTT
1 ATTTATATATATTAT-TAAAAATACT
16020355 ATTTATCATATATTATT
1 ATTTAT-ATATATTATT
16020372 TTCCTATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.07
22 1 0.02
23 4 0.07
24 11 0.20
25 25 0.46
26 5 0.09
27 4 0.07
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTATATATATTATTAAAAATACT
Found at i:16020397 original size:10 final size:10
Alignment explanation
Indices: 16020382--16020444 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 10
16020372 TTCCTATCTA
16020382 TATTATATTT
1 TATTATATTT
16020392 TATTATATAACATT
1 TATTATAT----TT
16020406 TATTATATTT
1 TATTATATTT
*
16020416 TATTATATAT
1 TATTATATTT
16020426 TACTTATTATTT
1 TA-TTA-TATTT
16020438 T-TTATAT
1 TATTATAT
16020445 ATGTTATGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 3 0.07
10 24 0.53
11 3 0.07
12 5 0.11
14 10 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTATATTT
Found at i:16020409 original size:24 final size:24
Alignment explanation
Indices: 16020382--16020446 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
16020372 TTCCTATCTA
*
16020382 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
16020406 TATTATATTTTATTATATATTACT
1 TATTATATTTTATTATATAACACT
*
16020430 TATTATTTTTTA-TATAT
1 TATTATATTTTATTATAT
16020447 GTTATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 5 0.14
24 32 0.86
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Done.