Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 42 of 54
Found at i:16836282 original size:23 final size:23
Alignment explanation
Indices: 16836252--16836308 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
16836242 ACATGAGCTA
*
16836252 ATGATGATGGGATGGTGTGCATG
1 ATGATGATGGGATGGCGTGCATG
**
16836275 ATGATGATGAAATGGCGTGCATG
1 ATGATGATGGGATGGCGTGCATG
16836298 ATGATGATGGG
1 ATGATGATGGG
16836309 TATATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.40, T:0.28
Consensus pattern (23 bp):
ATGATGATGGGATGGCGTGCATG
Found at i:16843093 original size:43 final size:43
Alignment explanation
Indices: 16843040--16843164 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
16843030 TCATCATCAC
* * ** *
16843040 CAGCTCATGCGTACTCCCTACTCGCACGTGGCTGGGTCATCAC-
1 CAGCTTATGCGTACTCCCTACTCGCACATAACCGGGTCATC-CT
* * *
16843083 CGGGTTATGCGCACTCCCTACTCGCACATAACCGGGTCATCCT
1 CAGCTTATGCGTACTCCCTACTCGCACATAACCGGGTCATCCT
* * *
16843126 CAGCTTATGCGTACTCCCTACTCTCACATAGCCGAGTCA
1 CAGCTTATGCGTACTCCCTACTCGCACATAACCGGGTCA
16843165 ATATAATTAC
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.19, C:0.37, G:0.20, T:0.24
Consensus pattern (43 bp):
CAGCTTATGCGTACTCCCTACTCGCACATAACCGGGTCATCCT
Found at i:16851867 original size:32 final size:32
Alignment explanation
Indices: 16851831--16851891 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
16851821 TGTGACACCA
16851831 ACATGATGACATGGTAGTGCCACATGGCATTG
1 ACATGATGACATGGTAGTGCCACATGGCATTG
* * *
16851863 ACATGATGACATTGTGGTGCCACGTGGCA
1 ACATGATGACATGGTAGTGCCACATGGCA
16851892 ACATTGACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (32 bp):
ACATGATGACATGGTAGTGCCACATGGCATTG
Found at i:16851987 original size:31 final size:30
Alignment explanation
Indices: 16851948--16852034 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
16851938 TGTCATATCA
16851948 TAAA-GACTAAATTGAACAAAAATATACAG
1 TAAAGGACTAAATTGAACAAAAATATACAG
* * * * * *
16851977 TATAGGGACTAAATTGAACGAAATTGAGATAT
1 TA-AAGGACTAAATTGAACAAAAAT-ATACAG
16852009 TAAAGGACTAAATTGAA-AAAAATATA
1 TAAAGGACTAAATTGAACAAAAATATA
16852035 TTTGAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
29 4 0.09
30 5 0.11
31 31 0.69
32 5 0.11
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (30 bp):
TAAAGGACTAAATTGAACAAAAATATACAG
Found at i:16854740 original size:40 final size:39
Alignment explanation
Indices: 16854695--16854800 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 39
16854685 CACACCCAGC
* * *
16854695 TCATGTACATCCCCCCACATCATGCACATAGCCGGAGTCA
1 TCATGTACATCCCCCCACATCGTGCACA-AGCCAGAGCCA
* * * *
16854735 TCATGTGCATCGCCCCACATCGTGCAC-AGTCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACAAGCCAGAGCCA
16854773 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
16854801 CGGGCACTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
38 32 0.57
40 24 0.43
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.21
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACAAGCCAGAGCCA
Found at i:16855719 original size:19 final size:19
Alignment explanation
Indices: 16855677--16855720 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16855667 AAGAGGAAGA
* *
16855677 AGAAGAAGCTGTTGGAAAT
1 AGAAGAAGCTGCTGGAAAG
*
16855696 TGAAGAAGCTGCTGGAAAG
1 AGAAGAAGCTGCTGGAAAG
16855715 AGAAGA
1 AGAAGA
16855721 TATTTATAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.34, T:0.16
Consensus pattern (19 bp):
AGAAGAAGCTGCTGGAAAG
Found at i:16857651 original size:31 final size:29
Alignment explanation
Indices: 16857616--16857683 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
16857606 ATTACCAAAA
* *
16857616 TAGTCCCTATACCCATGAATTTTCATCAATT
1 TAGTCCCTATACCCA--AACTCTCATCAATT
* * *
16857647 TAGTCCTTATACTCAAACTCTGATCAATT
1 TAGTCCCTATACCCAAACTCTCATCAATT
16857676 TAGTCCCT
1 TAGTCCCT
16857684 CAATTTTGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 18 0.58
31 13 0.42
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.38
Consensus pattern (29 bp):
TAGTCCCTATACCCAAACTCTCATCAATT
Found at i:16857852 original size:19 final size:18
Alignment explanation
Indices: 16857813--16857852 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16857803 CAGTGTCACG
*
16857813 TGGCACTGAATGATGGCA
1 TGGCACTGAATGATAGCA
*
16857831 TGGCACTGACATGCTAGCA
1 TGGCACTGA-ATGATAGCA
16857850 TGG
1 TGG
16857853 TAGATCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (18 bp):
TGGCACTGAATGATAGCA
Found at i:16858963 original size:21 final size:21
Alignment explanation
Indices: 16858925--16858964 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16858915 TTTTTCCAAA
* *
16858925 ACCAAATGTATCGTTACATGG
1 ACCAAAAGTATCGATACATGG
*
16858946 ACCAAAAGTATTGATACAT
1 ACCAAAAGTATCGATACAT
16858965 TTCGTCATTT
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:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (21 bp):
ACCAAAAGTATCGATACATGG
Found at i:16876510 original size:13 final size:13
Alignment explanation
Indices: 16876492--16876525 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
16876482 TATCATAAGT
16876492 CAATCAATTTAAA
1 CAATCAATTTAAA
*
16876505 CAATCAATTTACA
1 CAATCAATTTAAA
16876518 CACATCAA
1 CA-ATCAA
16876526 GTGGTCTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (13 bp):
CAATCAATTTAAA
Found at i:16876615 original size:17 final size:17
Alignment explanation
Indices: 16876575--16876616 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
16876565 TTTCAAAACA
16876575 ATTTATAAAATCATTTC
1 ATTTATAAAATCATTTC
* *
16876592 ATTTA-AACA-CATTTT
1 ATTTATAAAATCATTTC
16876607 ATTTATAAAA
1 ATTTATAAAA
16876617 CCAAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTATAAAATCATTTC
Found at i:16876933 original size:17 final size:17
Alignment explanation
Indices: 16876911--16876952 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
16876901 ACGATTTTGG
16876911 TTTTTTTTATT-TTATT
1 TTTTTTTTATTATTATT
16876927 TTTTTTTTATTATTATT
1 TTTTTTTTATTATTATT
*
16876944 TCTTTTTTA
1 TTTTTTTTA
16876953 CTTTCATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTATTATTATT
Found at i:16877032 original size:12 final size:12
Alignment explanation
Indices: 16877015--16877073 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
16877005 CAAGTCATTC
*
16877015 AAAAAAAATTTA
1 AAAAAAAATTAA
*
16877027 AAAAAAAATT-C
1 AAAAAAAATTAA
16877038 AAAAAAAATTAA
1 AAAAAAAATTAA
*
16877050 AAATTAAAAATAAA
1 AAA--AAAAATTAA
16877064 AAAAAAAATT
1 AAAAAAAATT
16877074 CAACGCCACG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 10 0.25
12 19 0.47
14 11 0.28
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAAAAATTAA
Found at i:16877070 original size:11 final size:11
Alignment explanation
Indices: 16877015--16877069 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
16877005 CAAGTCATTC
*
16877015 AAAAAAAATTT
1 AAAAAAAAATT
16877026 AAAAAAAAATT
1 AAAAAAAAATT
*
16877037 CAAAAAAAATT
1 AAAAAAAAATT
*
16877048 AAAAATTAAAAAT
1 AAAAA--AAAATT
16877061 AAAAAAAAA
1 AAAAAAAAA
16877070 AATTCAACGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 28 0.74
13 10 0.26
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:16882674 original size:12 final size:12
Alignment explanation
Indices: 16882659--16882686 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16882649 TGAAAAAGAA
16882659 AATAAAAATAAT
1 AATAAAAATAAT
16882671 AATAAAAATAAT
1 AATAAAAATAAT
16882683 AATA
1 AATA
16882687 TTTTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:16883701 original size:21 final size:21
Alignment explanation
Indices: 16883675--16883719 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
16883665 GAATTGATGC
16883675 ATGAATTTAAGGATTAGCTGT
1 ATGAATTTAAGGATTAGCTGT
16883696 ATGAATTTAAGGATTAGCTGT
1 ATGAATTTAAGGATTAGCTGT
16883717 ATG
1 ATG
16883720 TTACCTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (21 bp):
ATGAATTTAAGGATTAGCTGT
Found at i:16887490 original size:16 final size:16
Alignment explanation
Indices: 16887471--16887514 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16887461 AAATTTCTTA
16887471 AAAATAAAAAAAAAAG
1 AAAATAAAAAAAAAAG
* * *
16887487 AAAAGAAAAAAATAAT
1 AAAATAAAAAAAAAAG
16887503 AACAATAAAAAA
1 AA-AATAAAAAA
16887515 TAAATAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.84, C:0.02, G:0.05, T:0.09
Consensus pattern (16 bp):
AAAATAAAAAAAAAAG
Found at i:16893117 original size:15 final size:16
Alignment explanation
Indices: 16893085--16893129 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
16893075 GTAAATCTTT
16893085 ATGTGTTATAAATAAA
1 ATGTGTTATAAATAAA
*
16893101 ATGTGTT-TAAATGAA
1 ATGTGTTATAAATAAA
*
16893116 ATGATTTTATAAAT
1 ATG-TGTTATAAAT
16893130 TGTCTTGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (16 bp):
ATGTGTTATAAATAAA
Found at i:16895558 original size:21 final size:21
Alignment explanation
Indices: 16895499--16895566 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
16895489 TTGAATGGAG
* * *
16895499 GCATAAGTCTTTCTCATAAAC
1 GCATAAGTCTTTGTCATGAAT
*
16895520 GCATCAGTCTTTGTCATGAAT
1 GCATAAGTCTTTGTCATGAAT
*
16895541 GCATTAGTCTTTGTCATGAATT
1 GCATAAGTCTTTGTCATGAA-T
16895563 GCAT
1 GCAT
16895567 GAACATATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 36 0.88
22 5 0.12
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (21 bp):
GCATAAGTCTTTGTCATGAAT
Found at i:16901915 original size:19 final size:19
Alignment explanation
Indices: 16901888--16901926 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16901878 GTGCCCCAGG
*
16901888 AATGAAGAGAATGTGAGAA
1 AATGAAGAGAATGAGAGAA
*
16901907 AATGTAGAGAATGAGAGAA
1 AATGAAGAGAATGAGAGAA
16901926 A
1 A
16901927 TTGTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (19 bp):
AATGAAGAGAATGAGAGAA
Found at i:16902587 original size:19 final size:16
Alignment explanation
Indices: 16902558--16902605 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
16902548 CAAAAATACC
*
16902558 TTTTATTATTTGTATTAT
1 TTTTTTTATTT-TATT-T
16902576 TATTTTTTATTTTATTT
1 T-TTTTTTATTTTATTT
16902593 TTTATTTTATTTT
1 TTT-TTTTATTTT
16902606 TTAAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 11 0.41
18 5 0.19
19 9 0.33
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTTATTTTATTT
Found at i:16902590 original size:12 final size:12
Alignment explanation
Indices: 16902558--16902608 Score: 75
Period size: 12 Copynumber: 4.0 Consensus size: 12
16902548 CAAAAATACC
16902558 TTTTATTATTTGTA
1 TTTTATT-TTT-TA
16902572 TTATTATTTTTTA
1 TT-TTATTTTTTA
16902585 TTTTATTTTTTA
1 TTTTATTTTTTA
16902597 TTTTATTTTTTA
1 TTTTATTTTTTA
16902609 AATATTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 22 0.61
13 4 0.11
14 5 0.14
15 5 0.14
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:16903006 original size:14 final size:14
Alignment explanation
Indices: 16902995--16903029 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
16902985 CACTTTAAAG
16902995 TTTTAAAATTAATA
1 TTTTAAAATTAATA
16903009 TTTTAAAATATTAATA
1 TTTT-AAA-ATTAATA
16903025 TTTTA
1 TTTTA
16903030 TTTTATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 4 0.21
16 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAAAATTAATA
Found at i:16903033 original size:21 final size:21
Alignment explanation
Indices: 16903007--16903072 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
16902997 TTAAAATTAA
16903007 TATTTTAAAATATTAATATTT
1 TATTTTAAAATATTAATATTT
* *
16903028 TATTTTATACT-TTAAATATTAT
1 TATTTTAAAATATT-AATATT-T
* *
16903050 TATAATTAAAATATTAATTTTT
1 TAT-TTTAAAATATTAATATTT
16903072 T
1 T
16903073 TAATTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 6 0.17
23 10 0.29
24 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTAAAATATTAATATTT
Found at i:16903061 original size:17 final size:17
Alignment explanation
Indices: 16903028--16903065 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16903018 ATTAATATTT
* *
16903028 TATT-TTATACTTTAAA
1 TATTATTATAATTAAAA
16903044 TATTATTATAATTAAAA
1 TATTATTATAATTAAAA
16903061 TATTA
1 TATTA
16903066 ATTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTATTATAATTAAAA
Found at i:16906201 original size:120 final size:120
Alignment explanation
Indices: 16905963--16906202 Score: 374
Period size: 120 Copynumber: 2.0 Consensus size: 120
16905953 CATCACTTGG
* * *
16905963 TATTTTATGATTTTTTGTCTCTTGTAATGAGAAATATTATATTTGCATAATCAAAAGTGAGCTGT
1 TATTTTATGATTTTTTCTCTCTTGTAATGAGAAATACTATATTTGCATAATAAAAAGTGAGCTGT
*
16906028 GACTTTGCAAGGCTTCTGCAATTCTTCTCATCTCTCACGTGTTTTTGGTTTTTTA
66 GACTTTGCAAGGCTTCTGCAATTCCTCTCATCTCTCACGTGTTTTTGGTTTTTTA
* ** **
16906083 TATTTTATG-TTTTTCTCTCTCTTGTAATTAGATGTACTATATTTGTTTAATAAAAAGTGAGCTG
1 TATTTTATGATTTTT-TCTCTCTTGTAATGAGAAATACTATATTTGCATAATAAAAAGTGAGCTG
16906147 TGACTTTGCAAGGCTTCCTGCAATTCCTCTCATCTCTCACGTGTTTTTGGTTTTTT
65 TGACTTTGCAAGGCTT-CTGCAATTCCTCTCATCTCTCACGTGTTTTTGGTTTTTT
16906203 GTTAACTCAG
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
119 5 0.05
120 66 0.61
121 38 0.35
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.47
Consensus pattern (120 bp):
TATTTTATGATTTTTTCTCTCTTGTAATGAGAAATACTATATTTGCATAATAAAAAGTGAGCTGT
GACTTTGCAAGGCTTCTGCAATTCCTCTCATCTCTCACGTGTTTTTGGTTTTTTA
Found at i:16908751 original size:13 final size:13
Alignment explanation
Indices: 16908733--16908757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16908723 ATTAAGTGAT
16908733 ATTAACTTAATTG
1 ATTAACTTAATTG
16908746 ATTAACTTAATT
1 ATTAACTTAATT
16908758 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTAACTTAATTG
Found at i:16909798 original size:21 final size:21
Alignment explanation
Indices: 16909774--16909816 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16909764 AATTGAATTT
16909774 TGTGGAAAAAGTATCGATACA
1 TGTGGAAAAAGTATCGATACA
** *
16909795 TGTGGAGCATGTATCGATACA
1 TGTGGAAAAAGTATCGATACA
16909816 T
1 T
16909817 TTTCAACAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (21 bp):
TGTGGAAAAAGTATCGATACA
Found at i:16916786 original size:116 final size:120
Alignment explanation
Indices: 16916600--16916828 Score: 335
Period size: 116 Copynumber: 1.9 Consensus size: 120
16916590 ATAGCTTACT
*
16916600 AATAGAAAATTAAAATAAAGAAAAAATAAAAACAAATACAAATAAAAAATTATATTAATAATTTA
1 AATAGAAAATTAAAATAAAGAAAAAATAAAAACAAATACAAATAAAAAATCATATTAATAATTTA
* * *
16916665 TTAATAAA-TTGTTAATA-TTTATATTTTTAATGAAAATAAAAATTAAAAGATTAAA
66 ATAATAAATTTG-TAATATTTTA-ATATTTAATGAAAATAAAAAGTAAAAGATTAAA
* * *
16916720 AATAG-AAA-TAAAATAAAGAAACAATAAAAA-AATTA-AAATAAAAAATCATATTAGTAATTTA
1 AATAGAAAATTAAAATAAAGAAAAAATAAAAACAAATACAAATAAAAAATCATATTAATAATTTA
16916781 ATAATAAATTTGTAATATTTTAATATTTAATGAAAATAAAAAGTAAAA
66 ATAATAAATTTGTAATATTTTAATATTTAATGAAAATAAAAAGTAAAA
16916829 AATATTATTG
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
116 60 0.60
117 11 0.11
118 21 0.21
119 3 0.03
120 5 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (120 bp):
AATAGAAAATTAAAATAAAGAAAAAATAAAAACAAATACAAATAAAAAATCATATTAATAATTTA
ATAATAAATTTGTAATATTTTAATATTTAATGAAAATAAAAAGTAAAAGATTAAA
Found at i:16917221 original size:23 final size:22
Alignment explanation
Indices: 16917163--16917677 Score: 250
Period size: 23 Copynumber: 22.5 Consensus size: 22
16917153 ACCATGGTGA
* *
16917163 GAATTTGTGACATGCCATGGAAG
1 GAATATGTGACACGCCAT-GAAG
* **
16917186 AAATATGCAACACGCCATAGAAG
1 GAATATGTGACACGCCAT-GAAG
* *
16917209 GAATATGTGACACGACACTGAGG
1 GAATATGTGACACGCCA-TGAAG
* * *
16917232 GAGTATGTGACACGACACTGAGG
1 GAATATGTGACACGCCA-TGAAG
* **
16917255 GAGTATGTGACACGCCATGGTG
1 GAATATGTGACACGCCATGAAG
*
16917277 AGAATATGTGACACGACATGAAGG
1 -GAATATGTGACACGCCATGAA-G
* *
16917301 GAATATGTGACACACCATGGAG
1 GAATATGTGACACGCCATGAAG
* *
16917323 AGAATGTGTGACACGCCATGGTTA-
1 -GAATATGTGACACGCCAT-G-AAG
*
16917347 GAATATGTGACACGCCATGGTTA-
1 GAATATGTGACACGCCAT-G-AAG
**
16917370 GAATATGTGACACGCCATGTTG
1 GAATATGTGACACGCCATGAAG
* * **
16917392 AGAATAGGTGACACACCATGGTG
1 -GAATATGTGACACGCCATGAAG
* **
16917415 AGAATATGTGACACGACATGGTG
1 -GAATATGTGACACGCCATGAAG
* * **
16917438 AGAATATGTGAGACGACATGGTG
1 -GAATATGTGACACGCCATGAAG
*
16917461 AGAATGTGTGACACGCCATGGAAG
1 -GAATATGTGACACGCCAT-GAAG
* ** **
16917485 GAATATGTGAGACAACATGGTG
1 GAATATGTGACACGCCATGAAG
* * *
16917507 AGAATATGTGAGACGACATTG-TG
1 -GAATATGTGACACGCCA-TGAAG
* * **
16917530 AGAATATATGACACGCCACGTTG
1 -GAATATGTGACACGCCATGAAG
*
16917553 AGAATATGTGACATGCCAT-AAGG
1 -GAATATGTGACACGCCATGAA-G
*
16917576 AGAATATGTG--ACGCCATAAAGG
1 -GAATATGTGACACGCCATGAA-G
* * **
16917598 GAATATGTGAGACGACATGGTG
1 GAATATGTGACACGCCATGAAG
* *
16917620 AGAATATGTGACACCCCATAGAGG
1 -GAATATGTGACACGCCAT-GAAG
* * **
16917644 GAATATGTGACATGACATGGGG
1 GAATATGTGACACGCCATGAAG
16917666 GAATATGTGACA
1 GAATATGTGACA
16917678 TGATATGCTG
Statistics
Matches: 405, Mismatches: 69, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.04
22 28 0.07
23 351 0.87
24 9 0.02
25 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.21
Consensus pattern (22 bp):
GAATATGTGACACGCCATGAAG
Found at i:16917262 original size:46 final size:46
Alignment explanation
Indices: 16917195--16917698 Score: 348
Period size: 46 Copynumber: 11.0 Consensus size: 46
16917185 GAAATATGCA
* *
16917195 ACACGCCATAGAA-GGAATATGTGACACGACACTGAG-G-GAGTATGTG
1 ACACGACAT-GAAGGGAATATGTGACACGACA-TG-GTGAGAATATGTG
* *
16917241 ACACGACACTG-AGGGAGTATGTGACACGCCATGGTGAGAATATGTG
1 ACACGACA-TGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
* *
16917287 ACACGACATGAAGGGAATATGTGACAC-ACCATGGAGAGAATGTGTG
1 ACACGACATGAAGGGAATATGTGACACGA-CATGGTGAGAATATGTG
* **** * *
16917333 ACACGCCATGGTTAGAATATGTGACACGCCATGGTTAGAATATGTG
1 ACACGACATGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
* ** * *
16917379 ACACGCCATGTTGAGAATAGGTGACAC-ACCATGGTGAGAATATGTG
1 ACACGACATGAAGGGAATATGTGACACGA-CATGGTGAGAATATGTG
** * * *
16917425 ACACGACATGGTGAGAATATGTGAGACGACATGGTGAGAATGTGTG
1 ACACGACATGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
* * *
16917471 ACACGCCATGGAA-GGAATATGTGAGACAACATGGTGAGAATATGTG
1 ACACGACAT-GAAGGGAATATGTGACACGACATGGTGAGAATATGTG
* * * * * * *
16917517 AGACGACATTG-TGAGAATATATGACACGCCACGTTGAGAATATGTG
1 ACACGACA-TGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
* * * *** *
16917563 ACATGCCAT-AAGGAGAATATGTG--ACGCCATAAAGGGAATATGTG
1 ACACGACATGAAGG-GAATATGTGACACGACATGGTGAGAATATGTG
* ** * ** * * *
16917607 AGACGACATGGTGAGAATATGTGACACCCCATAGAGGGAATATGTG
1 ACACGACATGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
* * * * * *
16917653 ACATGACATG-GGGGAATATGTGACATGATATGCTGAGATTATGTG
1 ACACGACATGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
16917698 A
1 A
16917699 AACTACTAAT
Statistics
Matches: 366, Mismatches: 75, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
44 32 0.09
45 34 0.09
46 296 0.81
47 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (46 bp):
ACACGACATGAAGGGAATATGTGACACGACATGGTGAGAATATGTG
Found at i:16917285 original size:69 final size:67
Alignment explanation
Indices: 16917209--16917677 Score: 405
Period size: 69 Copynumber: 6.8 Consensus size: 67
16917199 GCCATAGAAG
* *
16917209 GAATATGTGACACGACACTGAGGGAGTATGTGACACGACACTGAGGGAGTATGTGACACGCCATG
1 GAATATGTGACACGACA-TGAGGGAATATGTGACACGACA-TGAGGGAATATGTGACACGCCATG
16917274 GTGA
64 GTGA
* *
16917278 GAATATGTGACACGACATGAAGGGAATATGTGACAC-ACCATGGAGAGAATGTGTGACACGCCAT
1 GAATATGTGACACGACATG-AGGGAATATGTGACACGA-CAT-GAGGGAATATGTGACACGCCAT
*
16917342 GGTTA
63 GGTGA
* * * * * * *
16917347 GAATATGTGACACGCCATG-GTTAGAATATGTGACACGCCATGTTGAGAATAGGTGACACACCAT
1 GAATATGTGACACGACATGAG--GGAATATGTGACACGACATG-AGGGAATATGTGACACGCCAT
16917411 GGTGA
63 GGTGA
* *
16917416 GAATATGTGACACGACATG-GTGAGAATATGTGAGACGACATG-GTGAGAATGTGTGACACGCCA
1 GAATATGTGACACGACATGAG-G-GAATATGTGACACGACATGAG-G-GAATATGTGACACGCCA
*
16917479 TGG-AA
62 TGGTGA
* * * * * *
16917484 GGAATATGTGAGACAACATG-GTGAGAATATGTGAGACGACATTGTGAGAATATATGACACGCCA
1 -GAATATGTGACACGACATGAG-G-GAATATGTGACACGACA-TGAGGGAATATGTGACACGCCA
* *
16917548 CGTTGA
62 TGGTGA
* * * * * * *
16917554 GAATATGTGACATGCCATAAGGAGAATATGTG--ACGCCATAAAGGGAATATGTGAGACGACATG
1 GAATATGTGACACGACATGAGG-GAATATGTGACACGACAT-GAGGGAATATGTGACACGCCATG
16917617 GTGA
64 GTGA
** * *
16917621 GAATATGTGACACCCCATAGAGGGAATATGTGACATGACATGGGGGAATATGTGACA
1 GAATATGTGACACGACAT-GAGGGAATATGTGACACGACATGAGGGAATATGTGACA
16917678 TGATATGCTG
Statistics
Matches: 329, Mismatches: 52, Indels: 39
0.78 0.12 0.09
Matches are distributed among these distances:
66 1 0.00
67 51 0.16
68 23 0.07
69 249 0.76
70 4 0.01
71 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (67 bp):
GAATATGTGACACGACATGAGGGAATATGTGACACGACATGAGGGAATATGTGACACGCCATGGT
GA
Found at i:16919486 original size:23 final size:23
Alignment explanation
Indices: 16919456--16919526 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
16919446 ATCGACAACA
*
16919456 ACGACATGGAAGAAATATGTGAC
1 ACGACATGGAAGGAATATGTGAC
* **
16919479 ACGACATGGAGGGTTTATGTGAC
1 ACGACATGGAAGGAATATGTGAC
*
16919502 AC-ACCATGGATGGAATATGTGAC
1 ACGA-CATGGAAGGAATATGTGAC
16919525 AC
1 AC
16919527 CGCTTAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (23 bp):
ACGACATGGAAGGAATATGTGAC
Found at i:16923196 original size:38 final size:39
Alignment explanation
Indices: 16923145--16923250 Score: 151
Period size: 38 Copynumber: 2.7 Consensus size: 39
16923135 ATAGTGCCCG
*
16923145 TGTGCACGATGTGGGGGGATGCACATGATGGCACTAAC-
1 TGTGCACGATGTGGGGGGATGCACATGATGACACTAACA
* * * *
16923183 TGTGCACGATGTGGGGGGATGCATACGATGACTCTGACTA
1 TGTGCACGATGTGGGGGGATGCACATGATGACACTAAC-A
16923223 TGTGCACGATGTGGGGGGATGCACATGA
1 TGTGCACGATGTGGGGGGATGCACATGA
16923251 GTTGGGTGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 33 0.56
40 26 0.44
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACATGATGACACTAACA
Found at i:16927081 original size:71 final size:71
Alignment explanation
Indices: 16926757--16927181 Score: 367
Period size: 69 Copynumber: 6.1 Consensus size: 71
16926747 ACTATTGGTG
* * *
16926757 TGTAACAATATAAGACTGT-AATGAAATGGAGTGTCACAACAAGATGTAAATGACATCTAACAAA
1 TGTAACAATATAAGACT-TCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAA-GAA
* *
16926821 GCATGGCA
64 GCCTAGCA
* * * * * * * *
16926829 TGCAACAATATAATATTTCAA--CAATGCTGTGT---TACAAGATGTAAATGACATCCAAGAAGC
1 TGTAACAATATAAGACTTCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAGAAGC
*
16926889 C-AGGCG
66 CTA-GCA
* * * *
16926895 TGTAACAATATAAGACTT--TTGAAATGGTGTGTCACAATAAGATGTAAACAACATCTAACAAGC
1 TGTAACAATATAAGACTTCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAGAAGC
* * **
16926958 TTGGTG
66 CTAGCA
* * * * *
16926964 TGTAACAATATAAGACTT--TTGAAATGGTGTGTTACAATAAGATGTAAACGATATCTAATAAGC
1 TGTAACAATATAAGACTTCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAGAAGC
16927027 CTAGCA
66 CTAGCA
**
16927033 TGTAACAATATAAGA-TTGCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAACTAG
1 TGTAACAATATAAGACTT-CAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAGAAG
* * *
16927097 CGTGGCG
65 CCTAGCA
* ** ***
16927104 TGTAACAATATAATACTTCAACAAAATGCCATGT--C-ACAAGATGTAAACGACATCTAAGAAGC
1 TGTAACAATATAAGACTTCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAGAAGC
16927166 CTAGCA
66 CTAGCA
16927172 TGTAACAATA
1 TGTAACAATA
16927182 AGATGTAAAT
Statistics
Matches: 286, Mismatches: 55, Indels: 28
0.78 0.15 0.08
Matches are distributed among these distances:
66 30 0.10
67 21 0.07
68 40 0.14
69 101 0.35
70 8 0.03
71 68 0.24
72 18 0.06
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (71 bp):
TGTAACAATATAAGACTTCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAGAAGC
CTAGCA
Found at i:16927089 original size:140 final size:137
Alignment explanation
Indices: 16926757--16927181 Score: 493
Period size: 140 Copynumber: 3.1 Consensus size: 137
16926747 ACTATTGGTG
* * *
16926757 TGTAACAATATAAGACTGTAATGAAATGGAGTGTCACAACAAGATGTAAATGACATCTAACAAAG
1 TGTAACAATATAAGATTG-AATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAAC-AAG
* * * *
16926822 CATGGCATGCAACAATATAATA-TTTCAACAATGCTGTGTTAC-AAGATGTAAATGACATCCAAG
64 CATGGCGTGTAACAATATAATACTTTCAA-AATGCTGTGTTACAAAGATGTAAACGACATCTAAG
*
16926885 AAGCC-AGGCG
128 AAGCCTA-GCA
* * *
16926895 TGTAACAATATAAGACTT--TTGAAATGGTGTGTCACAATAAGATGTAAACAACATCTAACAAGC
1 TGTAACAATATAAGA-TTGAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAACAAGC
* * * ** * * *
16926958 TTGGTGTGTAACAATATAAGACTTTTGAAATGGTGTGTTACAATAAGATGTAAACGATATCTAAT
65 ATGGCGTGTAACAATATAATACTTTCAAAATGCTGTGTTAC-A-AAGATGTAAACGACATCTAAG
16927023 AAGCCTAGCA
128 AAGCCTAGCA
*
16927033 TGTAACAATATAAGATTGCAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAACTAGC
1 TGTAACAATATAAGATTG-AATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAACAAGC
* * ** *
16927098 GTGGCGTGTAACAATATAATACTTCAACAAAATGCCATGTCAC-AAGATGTAAACGACATCTAAG
65 ATGGCGTGTAACAATATAATACTT--TCAAAATGCTGTGTTACAAAGATGTAAACGACATCTAAG
16927162 AAGCCTAGCA
128 AAGCCTAGCA
16927172 TGTAACAATA
1 TGTAACAATA
16927182 AGATGTAAAT
Statistics
Matches: 241, Mismatches: 35, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
135 32 0.13
136 40 0.17
137 2 0.01
138 54 0.22
139 41 0.17
140 62 0.26
142 10 0.04
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (137 bp):
TGTAACAATATAAGATTGAATGAAATGGTGTGTCACAACAAGATGTAAACGACATCTAACAAGCA
TGGCGTGTAACAATATAATACTTTCAAAATGCTGTGTTACAAAGATGTAAACGACATCTAAGAAG
CCTAGCA
Found at i:16927176 original size:68 final size:70
Alignment explanation
Indices: 16926996--16927181 Score: 207
Period size: 71 Copynumber: 2.7 Consensus size: 70
16926986 AATGGTGTGT
* * * **
16926996 TACAATAAGATGTAAACGATATCTAATAAGCCTAGCATGTAACAATATAAGATTGCAATGAAATG
1 TACAACAAGATGTAAACGACATCTAACAAGCCTAGCATGTAACAATATAAGATTGCAACAAAATG
***
16927061 GTGTG
66 CCATG
* * * * *
16927066 TCACAACAAGATGTAAACGACATCTAACTAGCGTGGCGTGTAACAATATAATACTT-CAACAAAA
1 T-ACAACAAGATGTAAACGACATCTAACAAGCCTAGCATGTAACAATATAAGA-TTGCAACAAAA
16927130 TGCCATG
64 TGCCATG
*
16927137 T-C-ACAAGATGTAAACGACATCTAAGAAGCCTAGCATGTAACAATA
1 TACAACAAGATGTAAACGACATCTAACAAGCCTAGCATGTAACAATA
16927182 AGATGTAAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
68 38 0.40
69 1 0.01
70 1 0.01
71 54 0.56
72 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (70 bp):
TACAACAAGATGTAAACGACATCTAACAAGCCTAGCATGTAACAATATAAGATTGCAACAAAATG
CCATG
Found at i:16927185 original size:40 final size:40
Alignment explanation
Indices: 16927141--16927221 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
16927131 GCCATGTCAC
* *
16927141 AAGATGTAAACGACATCTAAGAAGCCTAGCATGTAACAAT
1 AAGATGTAAACGACATCTAACAAGCATAGCATGTAACAAT
* * * *
16927181 AAGATGTAAATGACATTTCACAAGCATGGCATGTAACAAT
1 AAGATGTAAACGACATCTAACAAGCATAGCATGTAACAAT
16927221 A
1 A
16927222 TAATGCTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.22
Consensus pattern (40 bp):
AAGATGTAAACGACATCTAACAAGCATAGCATGTAACAAT
Found at i:16927373 original size:41 final size:41
Alignment explanation
Indices: 16927311--16927393 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
16927301 CTGGCGTGTC
* ** *
16927311 ACACTGTATGAGTAAAATGAAATGGTGTGTAAGAAGATGTA
1 ACACCGTATGAGTAAAATGAAATGGCATGTAAGAACATGTA
16927352 ACACCGTATGAGTAAAATGAAATGGCATGTAAGAACATGTA
1 ACACCGTATGAGTAAAATGAAATGGCATGTAAGAACATGTA
16927393 A
1 A
16927394 ATGACATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (41 bp):
ACACCGTATGAGTAAAATGAAATGGCATGTAAGAACATGTA
Found at i:16927561 original size:13 final size:13
Alignment explanation
Indices: 16927540--16927570 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16927530 ATTTACCATT
*
16927540 ACAAACTAGAATA
1 ACAAGCTAGAATA
16927553 ACAAGCTAGAATA
1 ACAAGCTAGAATA
16927566 ACAAG
1 ACAAG
16927571 ATGTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (13 bp):
ACAAGCTAGAATA
Found at i:16931203 original size:156 final size:156
Alignment explanation
Indices: 16930816--16931220 Score: 578
Period size: 156 Copynumber: 2.6 Consensus size: 156
16930806 TGCCATATAC
* *
16930816 TAAAACATGTTATTTCAATATATTTTTTACAAGCCATATGCATTAGAGATGTTACTTGCATGGCG
1 TAAAACATGTTATTTCAATATATTTTTTACAAGCCATATGCATTAGAAATGTTACATGCATGGCG
** * *
16930881 TGCAACATTTCTGGCAAATGTTCTAATGATTTTGCTACACGCCATGTTTACTACACCTTATGTAT
66 TGCAACAACTCTGGC-AATGTTCTAATGATTTTGCTACACACCATGTTTACTACACCTTATGTAC
* * *
16930946 AGACAAATTTTACTACTAGCCATGTAA
130 AAACAAATTTTACTACCAACCATGTAA
* *
16930973 TAAAACATGTTATTTCAATATATTTTTTACAAGCCATATGTATTA-AAGATGTTACATGTATGGC
1 TAAAACATGTTATTTCAATATATTTTTTACAAGCCATATGCATTAGAA-ATGTTACATGCATGGC
* *
16931037 ATACAACAACTCTGGCAATGTTCTAATGATTTTGCTACACACCATGTTTACTACACCTTATGTAC
65 GTGCAACAACTCTGGCAATGTTCTAATGATTTTGCTACACACCATGTTTACTACACCTTATGTAC
16931102 AAACAAATTTTACTACCAACCATGTAA
130 AAACAAATTTTACTACCAACCATGTAA
* * * * * *
16931129 TAAGACATGTTATTTGAATACATTTTTTACATGCCATGTGCATTAGAAATGTTACATGCATGTCG
1 TAAAACATGTTATTTCAATATATTTTTTACAAGCCATATGCATTAGAAATGTTACATGCATGGCG
* * *
16931194 TGTAGCAACTTTAGGCAATGTTCTAAT
66 TGCAACAACTCT-GGCAATGTTCTAAT
16931221 TTACACACAA
Statistics
Matches: 219, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
156 133 0.61
157 86 0.39
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (156 bp):
TAAAACATGTTATTTCAATATATTTTTTACAAGCCATATGCATTAGAAATGTTACATGCATGGCG
TGCAACAACTCTGGCAATGTTCTAATGATTTTGCTACACACCATGTTTACTACACCTTATGTACA
AACAAATTTTACTACCAACCATGTAA
Found at i:16940326 original size:23 final size:22
Alignment explanation
Indices: 16940283--16940327 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
16940273 AATCGAAACC
* *
16940283 GCACAAAAATCATACACAAAAA
1 GCACAAAAATCATAAAAAAAAA
*
16940305 GCACATAAAATGATAAAAAAAAA
1 GCACA-AAAATCATAAAAAAAAA
16940328 TAGGGAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.67, C:0.16, G:0.07, T:0.11
Consensus pattern (22 bp):
GCACAAAAATCATAAAAAAAAA
Found at i:16944769 original size:16 final size:17
Alignment explanation
Indices: 16944741--16944773 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
16944731 CTTTTTTCTG
16944741 TTTATATTATTTAACTA
1 TTTATATTATTTAACTA
16944758 TTTATA-TATTTAACTA
1 TTTATATTATTTAACTA
16944774 CTGTGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATATTATTTAACTA
Found at i:16947724 original size:60 final size:61
Alignment explanation
Indices: 16947649--16947765 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
16947639 ATTTTCGCTA
* * * * *
16947649 CAGCGAGATTTAATCTCGCTGCAGTGAAATTTCAACCCAG-AAACAGAATGTTTCTCGTTG
1 CAGCGAGATTCAATCTAGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTCGTTG
* *
16947709 CAGCGAGATTCAATCTAGCTGCAGCGAAATTGCTACCCAGAAAATAGAAAGTTTCTC
1 CAGCGAGATTCAATCTAGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTC
16947766 ACTACAGCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 35 0.71
61 14 0.29
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (61 bp):
CAGCGAGATTCAATCTAGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTTTCTCGTTG
Found at i:16947778 original size:21 final size:21
Alignment explanation
Indices: 16947754--16947796 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16947744 CCCAGAAAAT
16947754 AGAAAGT-TTCTCACTACAGCG
1 AGAAAGTATT-TCACTACAGCG
* *
16947775 AGAATGTATTTCGCTACAGCG
1 AGAAAGTATTTCACTACAGCG
16947796 A
1 A
16947797 TAAGCTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (21 bp):
AGAAAGTATTTCACTACAGCG
Found at i:16948103 original size:2 final size:2
Alignment explanation
Indices: 16948093--16948134 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
16948083 ACATATTCAC
*
16948093 AT AT GT 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
16948135 NNNNNNNNNA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16948197 original size:2 final size:2
Alignment explanation
Indices: 16948192--16948248 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
16948182 ACATATTTAC
* *
16948192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
16948234 AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT A
16948249 CCCATCATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16955376 original size:17 final size:18
Alignment explanation
Indices: 16955354--16955391 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16955344 TTACAATTTT
*
16955354 TTTCTTATC-ATTTTATG
1 TTTCTTATCTATTCTATG
*
16955371 TTTCTTTTCTATTCTATG
1 TTTCTTATCTATTCTATG
16955389 TTT
1 TTT
16955392 GATTTTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTCTTATCTATTCTATG
Found at i:16961222 original size:43 final size:43
Alignment explanation
Indices: 16961150--16961319 Score: 252
Period size: 43 Copynumber: 4.0 Consensus size: 43
16961140 CAACTCTCCC
* * * * * *
16961150 TCAGCTCACGTGCACTCCCACATCGCACATAACTGGGTCATTA
1 TCAGCTCATGTGCACTCCTACACCACACATAGCTGGGTCATCA
16961193 TCAGCTCATGTGCACTCCTACACCACACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCACACATAGCTGGGTCATCA
*
16961236 TCAGCTCATGTGCACTACC-ACACCACACATAGCTAGGTCATCA
1 TCAGCTCATGTGCACT-CCTACACCACACATAGCTGGGTCATCA
*
16961279 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCAT
1 TCAGCTCATGTGCACTCCTACACCACACATAGCTGGGTCAT
16961320 AATTATCAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 2 0.02
43 112 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCTACACCACACATAGCTGGGTCATCA
Found at i:16961812 original size:13 final size:13
Alignment explanation
Indices: 16961794--16961827 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16961784 TGAGAAACAG
*
16961794 AACCAATTTAGTC
1 AACCAAGTTAGTC
16961807 AACCAAGTTAGTC
1 AACCAAGTTAGTC
*
16961820 AACTAAGT
1 AACCAAGT
16961828 GCTCTCTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (13 bp):
AACCAAGTTAGTC
Found at i:16972293 original size:3 final size:3
Alignment explanation
Indices: 16972287--16972311 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16972277 TGTGAGGAGG
16972287 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
16972312 TTGCTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16972579 original size:19 final size:19
Alignment explanation
Indices: 16972544--16972585 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
16972534 AAATTATCAG
*
16972544 TATTTCTATCTTCTTCATT
1 TATTTCTATCATCTTCATT
16972563 TATTT-TATCATCATTCATT
1 TATTTCTATCATC-TTCATT
16972582 TATT
1 TATT
16972586 CCTTAGGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTCTATCATCTTCATT
Found at i:16975905 original size:57 final size:60
Alignment explanation
Indices: 16975816--16975948 Score: 146
Period size: 57 Copynumber: 2.2 Consensus size: 60
16975806 AAAAACTGAC
* ** *
16975816 ATTTTAAAATCTGATTTATTTTCAATCTAATTTAACT-A-A-TGATATCTAGTAATAATA
1 ATTTAAAAATCTGATTTATTAACAATCTAATTTAACTAATACTGATATCAAGTAATAATA
* * * * **
16975873 ATTTAAAAATCTGATTTCTTAACAATGTAATTTAAGTAATTACTGATGTCAAGTAATCGTA
1 ATTTAAAAATCTGATTTATTAACAATCTAATTTAACTAA-TACTGATATCAAGTAATAATA
16975934 ATTTAAAAATCTGAT
1 ATTTAAAAATCTGAT
16975949 GACAATCTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 31 0.50
58 1 0.02
60 1 0.02
61 29 0.47
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (60 bp):
ATTTAAAAATCTGATTTATTAACAATCTAATTTAACTAATACTGATATCAAGTAATAATA
Found at i:16978064 original size:16 final size:17
Alignment explanation
Indices: 16978021--16978069 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
16978011 TATTTATACC
16978021 ATGT-ATATCTAGAGTTGG
1 ATGTAATAT-TAGA-TTGG
16978039 ATGTAA-ATTAGATTGG
1 ATGTAATATTAGATTGG
16978055 ATG-AATATTAAGATT
1 ATGTAATATT-AGATT
16978070 TAATCCATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
17 9 0.32
18 6 0.21
19 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (17 bp):
ATGTAATATTAGATTGG
Found at i:16978911 original size:15 final size:15
Alignment explanation
Indices: 16978876--16978904 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16978866 TATTCAATTG
16978876 CAATCACATTACTTA
1 CAATCACATTACTTA
16978891 CAATCACATTACTT
1 CAATCACATTACTT
16978905 GTAATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
CAATCACATTACTTA
Found at i:16979221 original size:33 final size:34
Alignment explanation
Indices: 16979184--16979247 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
16979174 TTTTAATGTC
*
16979184 ATATATTTTATTTTCATTTC-TTATTATAATCTT
1 ATATATTTTATTTTCATTTCTTTAATATAATCTT
16979217 ATATATTTTATTTTCATTTCTTTAATATAAT
1 ATATATTTTATTTTCATTTCTTTAATATAAT
16979248 TTTTTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (34 bp):
ATATATTTTATTTTCATTTCTTTAATATAATCTT
Found at i:16979316 original size:53 final size:48
Alignment explanation
Indices: 16979215--16979381 Score: 133
Period size: 55 Copynumber: 3.3 Consensus size: 48
16979205 TATTATAATC
* * * * * * *
16979215 TTATATATTTTATTTTC-ATTTCTTTAATATAATTTTTTACATTATATAT
1 TTATTTATTTTAATTTCTATTTCTATATTAT-ATATTTTA-TTTTTATAT
16979264 TTATTTATTTTAATTTCT-TTTACCTATATTATATAACTTTTAATTTCTTATATT
1 TTATTTATTTTAATTTCTATTT--CTATATTATAT-A-TTTT-ATTT-TTATA-T
* *
16979318 TTATTTTATTTTAATTTCTAATTTTTATATTATATATTTTATTTTAATAT
1 TTA-TTTATTTTAATTTCT-ATTTCTATATTATATATTTTATTTTTATAT
16979368 TT-TTTATTTTAATT
1 TTATTTATTTTAATT
16979382 ATAACATTAG
Statistics
Matches: 98, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
48 12 0.12
49 18 0.18
50 5 0.05
51 11 0.11
52 10 0.10
53 9 0.09
54 5 0.05
55 25 0.26
57 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (48 bp):
TTATTTATTTTAATTTCTATTTCTATATTATATATTTTATTTTTATAT
Found at i:16979347 original size:55 final size:52
Alignment explanation
Indices: 16979255--16979378 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 52
16979245 AATTTTTTAC
16979255 ATTATATATTTA-TTTATTTTAATTTCTTTTACCTATATTATATAACTTTTAATTT
1 ATTATAT-TTTATTTTATTTTAATTTCTTTTA-CTATATTATAT-A-TTTTAATTT
* * *
16979310 CTTATATTTTATTTTATTTTAATTTCTAATTT-TTATATTATATATTTTATTTT
1 ATTATATTTTATTTTATTTTAATTTCT--TTTACTATATTATATATTTTAATTT
* *
16979363 AATATTTTTTATTTTA
1 ATTATATTTTATTTTA
16979379 ATTATAACAT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
53 21 0.35
54 5 0.08
55 31 0.52
57 3 0.05
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (52 bp):
ATTATATTTTATTTTATTTTAATTTCTTTTACTATATTATATATTTTAATTT
Found at i:16979350 original size:24 final size:25
Alignment explanation
Indices: 16979292--16979350 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
16979282 TTTACCTATA
* *
16979292 TTATATAACTTTTAATTTCTTATATT
1 TTATATTA-TTTTAATTTCTAATATT
*
16979318 TTATTTTATTTTAATTTCTAAT-TT
1 TTATATTATTTTAATTTCTAATATT
16979342 TTATATTAT
1 TTATATTAT
16979351 ATATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.34
25 13 0.45
26 6 0.21
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATATTATTTTAATTTCTAATATT
Found at i:16979367 original size:15 final size:15
Alignment explanation
Indices: 16979340--16979380 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
16979330 AATTTCTAAT
*
16979340 TTTTATATT-ATATA
1 TTTTATTTTAATATA
*
16979354 TTTTATTTTAATATT
1 TTTTATTTTAATATA
16979369 TTTTATTTTAAT
1 TTTTATTTTAAT
16979381 TATAACATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTTAATATA
Found at i:16979384 original size:33 final size:33
Alignment explanation
Indices: 16979304--16979365 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
16979294 ATATAACTTT
16979304 TAATTTCTTATATT-T-TATTTTATTTTAATTTC
1 TAATTT-TTATATTATATATTTTATTTTAATTTC
16979336 TAATTTTTATATTATATATTTTATTTTAAT
1 TAATTTTTATATTATATATTTTATTTTAAT
16979366 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 7 0.25
32 7 0.25
33 14 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (33 bp):
TAATTTTTATATTATATATTTTATTTTAATTTC
Found at i:16982286 original size:30 final size:29
Alignment explanation
Indices: 16982212--16982330 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 29
16982202 GTGTAACAAA
*
16982212 ATTTTTTAAACATGGTGTGTAACAATAAT
1 ATTTTTTCAACATGGTGTGTAACAATAAT
* *
16982241 ATTTTTTCAATATGGTGTGTAACAA-CAT
1 ATTTTTTCAACATGGTGTGTAACAATAAT
16982269 CATTTTGTTCAACATGGTGTGTAAC-AT-A-
1 -ATTTT-TTCAACATGGTGTGTAACAATAAT
* * *
16982297 GTTTTGT--ACATGGTGTGTAACAACAAT
1 ATTTTTTCAACATGGTGTGTAACAATAAT
*
16982324 TTTTTTT
1 ATTTTTT
16982331 TTTTCAATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
24 14 0.19
25 1 0.01
26 2 0.03
27 9 0.12
28 2 0.03
29 30 0.40
30 17 0.23
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (29 bp):
ATTTTTTCAACATGGTGTGTAACAATAAT
Found at i:16982295 original size:27 final size:27
Alignment explanation
Indices: 16982202--16982318 Score: 107
Period size: 30 Copynumber: 4.3 Consensus size: 27
16982192 AAGCATTAAA
* *
16982202 GTGTAACAAAATTTT-TTAAACATGGT
1 GTGTAACATAATTTTGTTCAACATGGT
* *
16982228 GTGTAACAATAATATTTTTTCAATATGGT
1 GTGTAAC-ATAAT-TTTGTTCAACATGGT
*
16982257 GTGTAACAACATCATTTTGTTCAACATGGT
1 GTGT---AACATAATTTTGTTCAACATGGT
*
16982287 GTGTAACATAGTTTTG-T--ACATGGT
1 GTGTAACATAATTTTGTTCAACATGGT
16982311 GTGTAACA
1 GTGTAACA
16982319 ACAATTTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
24 15 0.19
26 8 0.10
27 14 0.18
28 3 0.04
29 13 0.17
30 17 0.22
31 4 0.05
32 3 0.04
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
GTGTAACATAATTTTGTTCAACATGGT
Found at i:16982385 original size:26 final size:25
Alignment explanation
Indices: 16982356--16982452 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 25
16982346 GTAACAACCC
*
16982356 TTTTTTAACCATAGCGTGTAACATA-
1 TTTTTTAA-CATGGCGTGTAACATAT
* *
16982381 TTTTTGAACATGGCGTGTAATA-ACT
1 TTTTTTAACATGGCGTGTAACATA-T
* *
16982406 TTTTTTAACCATGACATGTAACATAT
1 TTTTTTAA-CATGGCGTGTAACATAT
*
16982432 TTTTGT-ACATGGCGTGTAACA
1 TTTTTTAACATGGCGTGTAACA
16982453 ATAATATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
23 1 0.02
24 24 0.41
25 15 0.26
26 17 0.29
27 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (25 bp):
TTTTTTAACATGGCGTGTAACATAT
Found at i:16982392 original size:84 final size:82
Alignment explanation
Indices: 16982214--16982400 Score: 200
Period size: 84 Copynumber: 2.2 Consensus size: 82
16982204 GTAACAAAAT
* * **
16982214 TTTTTAAACATGGTGTGTAACAATAATATTTTTTCAATATGGTGTGTAACAACATCATTTTGTTC
1 TTTTTGAACATGGTGTGTAACAACAATATTTTTTCAATATGGCATGTAACAACA-CATTTTGTTC
* *
16982279 AACATGGTGTGTAACATA
65 AACATAGCGTGTAACATA
* * * *
16982297 GTTTTGTACATGGTGTGTAACAACAATTTTTTTTTTTTCAATATGGCATGTAACAAC-CCTTTT-
1 TTTTTGAACATGGTGTGTAACAACAA----TATTTTTTCAATATGGCATGTAACAACACATTTTG
16982360 TT-AACCATAGCGTGTAACATA
62 TTCAA-CATAGCGTGTAACATA
*
16982381 TTTTTGAACATGGCGTGTAA
1 TTTTTGAACATGGTGTGTAA
16982401 TAACTTTTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
83 24 0.28
84 33 0.38
85 5 0.06
87 24 0.28
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (82 bp):
TTTTTGAACATGGTGTGTAACAACAATATTTTTTCAATATGGCATGTAACAACACATTTTGTTCA
ACATAGCGTGTAACATA
Found at i:16982411 original size:84 final size:86
Alignment explanation
Indices: 16982242--16982400 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 86
16982232 AACAATAATA
** * * *
16982242 TTTTTTCAATATGGTGTGTAACAACATCATTTTGTTCAACATGGTGTGTAACATAGTTTTGTACA
1 TTTTTTCAATATGGCATGTAACAACA-CATTTTGTTCAACATAGCGTGTAACATAGTTTTGAACA
*
16982307 TGGTGTGTAACAACAATTTTTT
65 TGGCGTGTAACAACAATTTTTT
* *
16982329 TTTTTTCAATATGGCATGTAACAAC-CCTTTT-TT-AACCATAGCGTGTAACATATTTTTGAACA
1 TTTTTTCAATATGGCATGTAACAACACATTTTGTTCAA-CATAGCGTGTAACATAGTTTTGAACA
16982391 TGGCGTGTAA
65 TGGCGTGTAA
16982401 TAACTTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
83 2 0.03
84 33 0.52
85 5 0.08
87 23 0.37
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (86 bp):
TTTTTTCAATATGGCATGTAACAACACATTTTGTTCAACATAGCGTGTAACATAGTTTTGAACAT
GGCGTGTAACAACAATTTTTT
Found at i:16982429 original size:50 final size:50
Alignment explanation
Indices: 16982356--16982450 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
16982346 GTAACAACCC
*
16982356 TTTTTTAACCATAGCGTGTAACATATTTTTGAACATGGCGTGTAATAACT
1 TTTTTTAACCATAGCATGTAACATATTTTTGAACATGGCGTGTAATAACT
*
16982406 TTTTTTAACCAT-GACATGTAACATATTTTTGTACATGGCGTGTAA
1 TTTTTTAACCATAG-CATGTAACATATTTTTGAACATGGCGTGTAA
16982451 CAATAATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (50 bp):
TTTTTTAACCATAGCATGTAACATATTTTTGAACATGGCGTGTAATAACT
Found at i:17008198 original size:43 final size:43
Alignment explanation
Indices: 17008111--17008225 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
17008101 GTAATGATAT
***
17008111 TGACTCGGCTATGTGCGAGTAAGGAGTGCGCATAAGTTGATGA
1 TGACTCGGCTATGTGCGAGTAAGGAGTGCGCATAAACAGATGA
* * * *
17008154 TGACTTGGTTATGTGCGAGTAGGGAGTGCGCATAAACAGTTGA
1 TGACTCGGCTATGTGCGAGTAAGGAGTGCGCATAAACAGATGA
* * *
17008197 TGAC-CTAGCCATGTGCGAGTAAAGAGTGC
1 TGACTC-GGCTATGTGCGAGTAAGGAGTGC
17008226 ACAAGAGCTG
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (43 bp):
TGACTCGGCTATGTGCGAGTAAGGAGTGCGCATAAACAGATGA
Found at i:17011116 original size:76 final size:77
Alignment explanation
Indices: 17010988--17011151 Score: 258
Period size: 76 Copynumber: 2.1 Consensus size: 77
17010978 CATACCATCT
* * *
17010988 ATTTTAATTTTGGGTGATTTATAAAAAAATAGGAAATTGTTTCCTACTTTAAAAGCAATTCCTAA
1 ATTTTAATTTTGAGTGATTCAT-AAAAAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAA
17011053 AATTAAGGATAGA
65 AATTAAGGATAGA
* *
17011066 ATTTTGATTTTGAGTGATTCAT-AAAATTAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAA
1 ATTTTAATTTTGAGTGATTCATAAAAAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAA
*
17011130 ATTAAGGATAGT
66 ATTAAGGATAGA
17011142 ATTTTAATTT
1 ATTTTAATTT
17011152 GGGAAATTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 60 0.76
78 19 0.24
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (77 bp):
ATTTTAATTTTGAGTGATTCATAAAAAATAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAAA
ATTAAGGATAGA
Found at i:17015133 original size:20 final size:20
Alignment explanation
Indices: 17015108--17015145 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17015098 ATTCATTAAG
17015108 AATGTATTGATACATTCTCA
1 AATGTATTGATACATTCTCA
17015128 AATGTATTGATACATTCT
1 AATGTATTGATACATTCT
17015146 TGTATGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATTGATACATTCTCA
Found at i:17015533 original size:18 final size:19
Alignment explanation
Indices: 17015503--17015539 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17015493 TGAATTTGGG
*
17015503 TATTTTTGAAAAGTTAAGA
1 TATTTTTGAAAAGCTAAGA
17015522 TATTTTTG-AAAGCTAAGA
1 TATTTTTGAAAAGCTAAGA
17015540 AATAAATATT
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:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (19 bp):
TATTTTTGAAAAGCTAAGA
Found at i:17020433 original size:20 final size:20
Alignment explanation
Indices: 17020408--17020448 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17020398 AGCCTGCATA
*
17020408 CCCAGCAGCCAGACAGATTG
1 CCCAGCACCCAGACAGATTG
17020428 CCCAGCACCCAGACAGATTG
1 CCCAGCACCCAGACAGATTG
17020448 C
1 C
17020449 TTGTGGGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.39, G:0.22, T:0.10
Consensus pattern (20 bp):
CCCAGCACCCAGACAGATTG
Found at i:17020832 original size:41 final size:39
Alignment explanation
Indices: 17020757--17020848 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 39
17020747 TATTGCTACG
** * * * *
17020757 TGTGTGTGTGCTTGTGTACTGACTGGCAGACTTGTGTTGCA
1 TGTGTGTGTGCTTGCATACCGACCGGAAGACTTGTGCT--A
*
17020798 TGTGTGTGTGCTTGCATACCGACCGGAAGCCTTGTGCTA
1 TGTGTGTGTGCTTGCATACCGACCGGAAGACTTGTGCTA
17020837 TGTGTGTGTGCT
1 TGTGTGTGTGCT
17020849 GAGTGCATGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 13 0.30
41 31 0.70
ACGTcount: A:0.12, C:0.17, G:0.34, T:0.37
Consensus pattern (39 bp):
TGTGTGTGTGCTTGCATACCGACCGGAAGACTTGTGCTA
Found at i:17022493 original size:2 final size:2
Alignment explanation
Indices: 17022486--17022513 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17022476 ACATACATAC
17022486 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
17022514 CATTTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17024778 original size:42 final size:44
Alignment explanation
Indices: 17024683--17024778 Score: 135
Period size: 42 Copynumber: 2.2 Consensus size: 44
17024673 CTTTCAAACG
* *
17024683 TATCAAATATTTCAAAGATTTCCAAAGTCTACTTGTTGCAAGCA
1 TATCAAATATCTCAAAGATTTCCAAAGTCCACTTGTTGCAAGCA
*
17024727 TATCAAATATCTCAAA-A-TTCTCAAAGTCCACTT-TTGTAAGCA
1 TATCAAATATCTCAAAGATTTC-CAAAGTCCACTTGTTGCAAGCA
17024769 TATCAAATAT
1 TATCAAATAT
17024779 TTTAAAAGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
42 21 0.44
43 12 0.25
44 15 0.31
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (44 bp):
TATCAAATATCTCAAAGATTTCCAAAGTCCACTTGTTGCAAGCA
Found at i:17025121 original size:14 final size:14
Alignment explanation
Indices: 17025104--17025137 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17025094 GAATGGAATA
*
17025104 ATCAAAGTTCATAC
1 ATCAAAGGTCATAC
17025118 ATCAAAGGTCATAC
1 ATCAAAGGTCATAC
17025132 ATCAAA
1 ATCAAA
17025138 CCAAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (14 bp):
ATCAAAGGTCATAC
Found at i:17025232 original size:52 final size:51
Alignment explanation
Indices: 17025130--17025374 Score: 269
Period size: 52 Copynumber: 4.7 Consensus size: 51
17025120 CAAAGGTCAT
* * * *
17025130 ACATCAAA-CCAAACAAATTTCCAAAGACCAAATCATATATATCAAATTCAA
1 ACATCAAAGCCAAACAAATATCCAAAGTCCAAATCA-ATGTATCAAGTTCAA
* * ** * * * *
17025181 ATATCAAAGTCAATTAATTGTCCAAAGTCCTAATCAACTGTGTCAAGTTCAA
1 ACATCAAAGCCAAACAAATATCCAAAGTCCAAATCAA-TGTATCAAGTTCAA
* * * *
17025233 ACATCAAAGCCAAACAAATATTCGAAGTCCAAATTAGATGCATCAAGTTCAA
1 ACATCAAAGCCAAACAAATATCCAAAGTCCAAATCA-ATGTATCAAGTTCAA
17025285 ACATCAAAGCCAAACAAATATCCAAAGTCCAAATCAAATGTATCAAGTTCAA
1 ACATCAAAGCCAAACAAATATCCAAAGTCCAAATC-AATGTATCAAGTTCAA
* *
17025337 ACATCAAAGTCC-AACCAATATCCAAAGTCTAAATCAAT
1 ACATCAAAG-CCAAACAAATATCCAAAGTCCAAATCAAT
17025375 TATGTTAAAC
Statistics
Matches: 160, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
51 11 0.07
52 145 0.91
53 4 0.03
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.23
Consensus pattern (51 bp):
ACATCAAAGCCAAACAAATATCCAAAGTCCAAATCAATGTATCAAGTTCAA
Found at i:17031551 original size:18 final size:18
Alignment explanation
Indices: 17031528--17031565 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17031518 GACAACTTTT
*
17031528 AACCACTAGGAGTGGATG
1 AACCACCAGGAGTGGATG
17031546 AACCACCAGGAGTGGATG
1 AACCACCAGGAGTGGATG
17031564 AA
1 AA
17031566 TAGTGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.13
Consensus pattern (18 bp):
AACCACCAGGAGTGGATG
Found at i:17034027 original size:14 final size:14
Alignment explanation
Indices: 17034008--17034037 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17033998 GTATTTGTGC
17034008 AAAAATGAAATGAT
1 AAAAATGAAATGAT
*
17034022 AAAAATGAAATTAT
1 AAAAATGAAATGAT
17034036 AA
1 AA
17034038 GATATTAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (14 bp):
AAAAATGAAATGAT
Found at i:17044478 original size:54 final size:53
Alignment explanation
Indices: 17044396--17044552 Score: 233
Period size: 54 Copynumber: 2.9 Consensus size: 53
17044386 ACACGATGAC
*
17044396 TCCGGTTATGTGCACGATGTGGGGGGATGCACATGAGCTAGGTGAGATGGGATG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCT-GGTGAGATGGGATG
* * *
17044450 TCCGGCTATGTGCACCAAGTGGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCT-GGTGAGATGGGATG
* *
17044504 TCTGGCTATGTGCATGATGTGGGGGGATGCACATGAGCTGGATGAGATG
1 TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGG-TGAGATG
17044553 TGGTGGTATA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 2 0.02
54 91 0.98
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.24
Consensus pattern (53 bp):
TCCGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGTGAGATGGGATG
Found at i:17046657 original size:20 final size:21
Alignment explanation
Indices: 17046615--17046657 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
17046605 ATATATATAT
*
17046615 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTGCAATG
*
17046636 ATGAATA-ATGTTGTGTAATG
1 ATGAATATATGTTGTGCAATG
17046656 AT
1 AT
17046658 ATTGCCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (21 bp):
ATGAATATATGTTGTGCAATG
Found at i:17046718 original size:42 final size:40
Alignment explanation
Indices: 17046671--17046809 Score: 163
Period size: 42 Copynumber: 3.3 Consensus size: 40
17046661 GCCCCAACTC
17046671 TGTGCGAGTAGGAGTACGCATAAGTCGATGCTGACCCAGCTA
1 TGTGCGAGTAGGAGT-CGCATAAG-CGATGCTGACCCAGCTA
* *
17046713 TGTGCGAGTAGGAGTGCACATAAGCCGATACTGACCCAGCTA
1 TGTGCGAGTAGGAGT-CGCATAAG-CGATGCTGACCCAGCTA
* *
17046755 TGTGTGAGTAGGGAGT-GCATATGAGCTGATGCTAACCCAGCTA
1 TGTGCGAGTA-GGAGTCGCATA--AGC-GATGCTGACCCAGCTA
17046798 TGTGCGAGTAGG
1 TGTGCGAGTAGG
17046810 GAGTGCACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
41 4 0.05
42 50 0.60
43 30 0.36
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.22
Consensus pattern (40 bp):
TGTGCGAGTAGGAGTCGCATAAGCGATGCTGACCCAGCTA
Found at i:17046793 original size:43 final size:43
Alignment explanation
Indices: 17046671--17046828 Score: 205
Period size: 43 Copynumber: 3.7 Consensus size: 43
17046661 GCCCCAACTC
* * *
17046671 TGTGCGAGTA-GGAGTACGCATAAG-TCGATGCTGACCCAGCTA
1 TGTGCGAGTAGGGAGTGCACATGAGCT-GATGCTGACCCAGCTA
* * *
17046713 TGTGCGAGTA-GGAGTGCACATAAGCCGATACTGACCCAGCTA
1 TGTGCGAGTAGGGAGTGCACATGAGCTGATGCTGACCCAGCTA
* * *
17046755 TGTGTGAGTAGGGAGTGCATATGAGCTGATGCTAACCCAGCTA
1 TGTGCGAGTAGGGAGTGCACATGAGCTGATGCTGACCCAGCTA
17046798 TGTGCGAGTAGGGAGTGCACATGAGCTGATG
1 TGTGCGAGTAGGGAGTGCACATGAGCTGATG
17046829 ATGATGGGAT
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
42 46 0.45
43 56 0.55
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (43 bp):
TGTGCGAGTAGGGAGTGCACATGAGCTGATGCTGACCCAGCTA
Found at i:17052117 original size:57 final size:56
Alignment explanation
Indices: 17052004--17052119 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 56
17051994 AGGTATCATC
* * * * * *
17052004 TTTGCATGCATAGTATTTATTAAATGCATAAAATAAATTTATCTCATGCAGACTAA
1 TTTGCATACATAGCATTTATTAAATGCATAAAATAAATCTATCGCAAGAAGACTAA
**
17052060 TTTGCATCACATAGCATTTATTAAATGCATAAAATAAATCTATCGCAAGAATTCTAA
1 TTTGCAT-ACATAGCATTTATTAAATGCATAAAATAAATCTATCGCAAGAAGACTAA
17052117 TTT
1 TTT
17052120 AGATGATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
56 7 0.14
57 44 0.86
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (56 bp):
TTTGCATACATAGCATTTATTAAATGCATAAAATAAATCTATCGCAAGAAGACTAA
Found at i:17062751 original size:43 final size:43
Alignment explanation
Indices: 17062663--17062865 Score: 187
Period size: 43 Copynumber: 4.7 Consensus size: 43
17062653 TGTTGATGTG
* * * * *
17062663 GACCCAGCTATGTCCGAGTA-AGAGTGCACATAAGCCGTTGCT
1 GACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGAT
* * * *
17062705 GACCCGGCTATGTGCGAGTAGGGAGTACGCATAAGCCGATAAT
1 GACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGAT
* * * * *
17062748 GA-CCAGGTTATGCGCGAGTAAGGAGTACGAATAA-CTCGGTGAT
1 GACCCA-GCTATGTGCGAGTAGGGAGTGCGCATAAGC-CGGTGAT
* * * *
17062791 GACCTAGTTATGTGCGAGTGGGGAGTGCGCATAACCCGGTGAT
1 GACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGAT
* *
17062834 GACCTAGCCATGTGCGAGTAGGGAGTGCGCAT
1 GACCCAGCTATGTGCGAGTAGGGAGTGCGCAT
17062866 GAGCTGGGAA
Statistics
Matches: 132, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
42 21 0.16
43 108 0.82
44 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (43 bp):
GACCCAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGAT
Found at i:17069697 original size:20 final size:20
Alignment explanation
Indices: 17069674--17069714 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17069664 ATCAAATCTC
*
17069674 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
*
17069694 ATTTCATTTTATAAAAATCA
1 ATTTCATTTCATAAAAATCA
17069714 A
1 A
17069715 CAAGGCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:17075561 original size:20 final size:20
Alignment explanation
Indices: 17075536--17075579 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
17075526 TTTTTGCCGC
17075536 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
17075556 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
17075576 ATTT
1 ATTT
17075580 CAGGTTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:17081742 original size:27 final size:27
Alignment explanation
Indices: 17081712--17081768 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
17081702 TTGGGGTATA
*
17081712 AGGGTAAAATGGCAATTTTGCCACC-CC
1 AGGGCAAAATGGCAATTTT-CCACCACC
* *
17081739 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGCAATTTTCCACCACC
17081767 AG
1 AG
17081769 AATATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (27 bp):
AGGGCAAAATGGCAATTTTCCACCACC
Found at i:17093426 original size:16 final size:17
Alignment explanation
Indices: 17093394--17093428 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
17093384 GTAACGGGTG
17093394 AAAATAATATTTTAAAAT
1 AAAATAATA-TTTAAAAT
17093412 AAAATAATA-TTAAAAT
1 AAAATAATATTTAAAAT
17093428 A
1 A
17093429 TTATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATAATATTTAAAAT
Found at i:17095120 original size:2 final size:2
Alignment explanation
Indices: 17095113--17095143 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17095103 TTCTCATAAT
17095113 TA TA 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 T
17095144 GCGTGATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17108689 original size:2 final size:2
Alignment explanation
Indices: 17108677--17108797 Score: 109
Period size: 2 Copynumber: 59.5 Consensus size: 2
17108667 AACACTTTAC
*
17108677 AT AT AT GT 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
* * * * * * * * * *
17108719 AN AC AGG AA AA AT AT AT AT AT AC AC AC AC AT AT AT GT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17108762 AT AT -T AT ACT AT AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT A
17108798 CACAAAAAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
1 1 0.01
2 98 0.94
3 5 0.05
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (2 bp):
AT
Found at i:17111081 original size:11 final size:11
Alignment explanation
Indices: 17111067--17111100 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17111057 CTCGTTATAA
17111067 TATTATTATTT
1 TATTATTATTT
17111078 TATTATTATTT
1 TATTATTATTT
* *
17111089 TAATAGTATTT
1 TATTATTATTT
17111100 T
1 T
17111101 CTCACGTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TATTATTATTT
Found at i:17118432 original size:28 final size:28
Alignment explanation
Indices: 17118388--17118615 Score: 187
Period size: 28 Copynumber: 8.2 Consensus size: 28
17118378 TTTAGGTTGT
* *
17118388 CATCTTCTGAAAAATTTAGATGCCTTAG
1 CATCTTTTGAAATATTTAGATGCCTTAG
*
17118416 CATCTTTTGAAATATTT--ATGTCTTAG
1 CATCTTTTGAAATATTTAGATGCCTTAG
* *
17118442 CATCTTCTGAAAAATTTAGATGCCTTAG
1 CATCTTTTGAAATATTTAGATGCCTTAG
* *
17118470 CATCTTTTGTAATATTTAGATGCCTCCA-
1 CATCTTTTGAAATATTTAGATGCCT-TAG
* * * *
17118498 CATCTTCTGAAATATATAAATGCCTTGG
1 CATCTTTTGAAATATTTAGATGCCTTAG
* * * **
17118526 TATCTTTTGAGATATCTAGATGCAGTAG
1 CATCTTTTGAAATATTTAGATGCCTTAG
* * *
17118554 CATCTTTGGAATTA-TTAAATGCCTTAG
1 CATCTTTTGAAATATTTAGATGCCTTAG
* * * * *
17118581 GATCTTTGGAAAT-TGCTAGATGCTTTAA
1 CATCTTTTGAAATAT-TTAGATGCCTTAG
17118609 CATCTTT
1 CATCTTT
17118616 GGATTTGGTT
Statistics
Matches: 155, Mismatches: 39, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
26 23 0.15
27 20 0.13
28 111 0.72
29 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (28 bp):
CATCTTTTGAAATATTTAGATGCCTTAG
Found at i:17118457 original size:54 final size:55
Alignment explanation
Indices: 17118388--17118540 Score: 193
Period size: 54 Copynumber: 2.8 Consensus size: 55
17118378 TTTAGGTTGT
* *
17118388 CATCTTCTGAAAAATTTAGATGCCTTAGCATCTTTTGAAATATTT-ATGTCT-TA
1 CATCTTCTGAAAAATTTAGATGCCTTAGCATCTTTTGAAATATTTAATGCCTCCA
*
17118441 GCATCTTCTGAAAAATTTAGATGCCTTAGCATCTTTTGTAATATTTAGATGCCTCCA
1 -CATCTTCTGAAAAATTTAGATGCCTTAGCATCTTTTGAAATATTTA-ATGCCTCCA
* * * * * *
17118498 CATCTTCTGAAATATATAAATGCCTTGGTATCTTTTGAGATAT
1 CATCTTCTGAAAAATTTAGATGCCTTAGCATCTTTTGAAATAT
17118541 CTAGATGCAG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 44 0.51
56 41 0.48
57 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (55 bp):
CATCTTCTGAAAAATTTAGATGCCTTAGCATCTTTTGAAATATTTAATGCCTCCA
Found at i:17118600 original size:55 final size:55
Alignment explanation
Indices: 17118497--17118618 Score: 133
Period size: 55 Copynumber: 2.2 Consensus size: 55
17118487 AGATGCCTCC
* * *
17118497 ACATCTTCT-GAAATATATAAATGCCTTGGTATCTTTTGAGATATCTAGATGCAGTA
1 ACATCTT-TGGAATTAT-TAAATGCCTTGGTATCTTTGGAAATATCTAGATGCAGTA
* **
17118553 GCATCTTTGGAATTATTAAATGCCTTAGG-ATCTTTGGAAAT-TGCTAGATGCTTTA
1 ACATCTTTGGAATTATTAAATGCCTT-GGTATCTTTGGAAATAT-CTAGATGCAGTA
17118608 ACATCTTTGGA
1 ACATCTTTGGA
17118619 TTTGGTTGGG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
54 1 0.02
55 41 0.73
56 14 0.25
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (55 bp):
ACATCTTTGGAATTATTAAATGCCTTGGTATCTTTGGAAATATCTAGATGCAGTA
Found at i:17120593 original size:19 final size:19
Alignment explanation
Indices: 17120569--17120606 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17120559 TCAAGTTATT
*
17120569 AGCTGGACGAGGGTTTCTC
1 AGCTGGACAAGGGTTTCTC
*
17120588 AGCTGGCCAAGGGTTTCTC
1 AGCTGGACAAGGGTTTCTC
17120607 TCTAAACTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.34, T:0.26
Consensus pattern (19 bp):
AGCTGGACAAGGGTTTCTC
Found at i:17120764 original size:21 final size:21
Alignment explanation
Indices: 17120734--17120774 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17120724 AGACAGAAAG
* *
17120734 TTTCTTGCTGCAGCGAGATTC
1 TTTCTCGCTGCAACGAGATTC
17120755 TTTCTCGCTGCAACGAGATT
1 TTTCTCGCTGCAACGAGATT
17120775 TAAGCAGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (21 bp):
TTTCTCGCTGCAACGAGATTC
Found at i:17122469 original size:2 final size:2
Alignment explanation
Indices: 17122430--17122461 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17122420 CATTATGTTG
17122430 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
17122462 GAATATATTG
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):
AT
Found at i:17122543 original size:104 final size:104
Alignment explanation
Indices: 17122409--17122617 Score: 393
Period size: 106 Copynumber: 2.0 Consensus size: 104
17122399 TTATGGATTC
17122409 ATATACTGCTACATTATGTTGATATATATATATATATATATATATATATA-TATGAATATATTGT
1 ATATACTGCTACATTATGTTGATATATATATATATATATATATATATATACTATGAATATATTGT
17122473 GATGTAATGATATTGATCCAGCTATGTGCGAGTAGGAGT
66 GATGTAATGATATTGATCCAGCTATGTGCGAGTAGGAGT
17122512 NATATACTGCTACATTATGTTGATATATATATATATATATATATATATATACGTATGAATATATT
1 -ATATACTGCTACATTATGTTGATATATATATATATATATATATATATATAC-TATGAATATATT
17122577 GTGATGTAATGATATTGATCCAGCTATGTGCGAGTAGGAGT
64 GTGATGTAATGATATTGATCCAGCTATGTGCGAGTAGGAGT
17122618 GCGCATAAGC
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
104 50 0.49
106 53 0.51
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (104 bp):
ATATACTGCTACATTATGTTGATATATATATATATATATATATATATATACTATGAATATATTGT
GATGTAATGATATTGATCCAGCTATGTGCGAGTAGGAGT
Found at i:17122575 original size:2 final size:2
Alignment explanation
Indices: 17122534--17122562 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17122524 CATTATGTTG
17122534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17122563 CGTATGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17132880 original size:27 final size:27
Alignment explanation
Indices: 17132804--17132872 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
17132794 TGCCTTATTC
*
17132804 TTAAATGCCTTAGCATATTTGGAAATG
1 TTAAGTGCCTTAGCATATTTGGAAATG
*
17132831 TTAGGTGCCTTAGCATATTTGGAAATG
1 TTAAGTGCCTTAGCATATTTGGAAATG
17132858 TTAAGTGCCTTAGCA
1 TTAAGTGCCTTAGCA
17132873 CACTTGGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (27 bp):
TTAAGTGCCTTAGCATATTTGGAAATG
Found at i:17134582 original size:29 final size:29
Alignment explanation
Indices: 17134537--17134592 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
17134527 TAACCGATGG
* *
17134537 TTTTAATAGGTTCACCATAGACCCATGAT
1 TTTTAATAGGTTCACCACAAACCCATGAT
*
17134566 TTTTAATGGGCTT-ACCACAAACCCATG
1 TTTTAATAGG-TTCACCACAAACCCATG
17134593 CACAATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (29 bp):
TTTTAATAGGTTCACCACAAACCCATGAT
Found at i:17137107 original size:54 final size:54
Alignment explanation
Indices: 17137043--17137242 Score: 267
Period size: 54 Copynumber: 3.7 Consensus size: 54
17137033 GCATTAGCTA
* *
17137043 TGCACGATGTGGGGGGATGCACATGAGTTGGTTGAGATGGGGTGTCTAGCTATG
1 TGCACGATGTGGGGGGATGCACATGAGCTGGATGAGATGGGGTGTCTAGCTATG
* * * * * *
17137097 TGCACAATGTGGGAGGATGCACATGAGCTGGGTGAGATGAGGTGTCCAACTATG
1 TGCACGATGTGGGGGGATGCACATGAGCTGGATGAGATGGGGTGTCTAGCTATG
* * *
17137151 TGCACGATGTGGGGGGATGCACATGAGCTAGATGAGATAGGGTGT-TCGGCTATG
1 TGCACGATGTGGGGGGATGCACATGAGCTGGATGAGATGGGGTGTCT-AGCTATG
* *
17137205 TGCACTATGTGGGGGGATGCAAATGAGCTGGATGAGAT
1 TGCACGATGTGGGGGGATGCACATGAGCTGGATGAGAT
17137243 ATGGTGGTAT
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.24
Consensus pattern (54 bp):
TGCACGATGTGGGGGGATGCACATGAGCTGGATGAGATGGGGTGTCTAGCTATG
Found at i:17137167 original size:108 final size:108
Alignment explanation
Indices: 17137043--17137242 Score: 303
Period size: 108 Copynumber: 1.9 Consensus size: 108
17137033 GCATTAGCTA
* * * *
17137043 TGCACGATGTGGGGGGATGCACATGAGTTGGTTGAGATGGGGTG-TCTAGCTATGTGCACAATGT
1 TGCACGATGTGGGGGGATGCACATGAGCTAGATGAGATAGGGTGTTC-AGCTATGTGCACAATGT
* *
17137107 GGGAGGATGCACATGAGCTGGGTGAGATGAGGTGTCCAACTATG
65 GGGAGGATGCAAATGAGCTGGATGAGATGAGGTGTCCAACTATG
* *
17137151 TGCACGATGTGGGGGGATGCACATGAGCTAGATGAGATAGGGTGTTCGGCTATGTGCACTATGTG
1 TGCACGATGTGGGGGGATGCACATGAGCTAGATGAGATAGGGTGTTCAGCTATGTGCACAATGTG
*
17137216 GGGGGATGCAAATGAGCTGGATGAGAT
66 GGAGGATGCAAATGAGCTGGATGAGAT
17137243 ATGGTGGTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 80 0.98
109 2 0.02
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.24
Consensus pattern (108 bp):
TGCACGATGTGGGGGGATGCACATGAGCTAGATGAGATAGGGTGTTCAGCTATGTGCACAATGTG
GGAGGATGCAAATGAGCTGGATGAGATGAGGTGTCCAACTATG
Found at i:17144446 original size:71 final size:71
Alignment explanation
Indices: 17144356--17144502 Score: 222
Period size: 71 Copynumber: 2.1 Consensus size: 71
17144346 CCCCATCATG
* * * * *
17144356 CACAAGGGCACTATTATCATCCATCTCCTTCACCACCACCATCACCGGCATGTGCATCCCCTCAC
1 CACACGGGCACTATCATCATCCATCTCCCTCACCACCACCATCACCGGCATGTGCATCCCCCCAA
17144421 ATCGTA
66 ATCGTA
* *
17144427 CACACGGGCATTATCATCATCCATCTCCCTCACCACCGCCATCACCGGCATGTGCATCCCCCCAA
1 CACACGGGCACTATCATCATCCATCTCCCTCACCACCACCATCACCGGCATGTGCATCCCCCCAA
*
17144492 ATCGTG
66 ATCGTA
17144498 CACAC
1 CACAC
17144503 ACATGGTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.24, C:0.43, G:0.12, T:0.20
Consensus pattern (71 bp):
CACACGGGCACTATCATCATCCATCTCCCTCACCACCACCATCACCGGCATGTGCATCCCCCCAA
ATCGTA
Found at i:17147305 original size:2 final size:2
Alignment explanation
Indices: 17147298--17147324 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17147288 CATAATGTTG
17147298 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17147325 CCATTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17147529 original size:53 final size:53
Alignment explanation
Indices: 17147472--17147658 Score: 266
Period size: 54 Copynumber: 3.5 Consensus size: 53
17147462 ATAATGTGCA
* *
17147472 GGGATGCACATGAGCTGGTTGAGATGGGGTGTCTGGCTATGTGCACGATGTGG
1 GGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTATGTGCACGATGTGG
* **
17147525 GGGATGCACATGAGCTGGGTGAGATGGGATGTCCGGCTATGTGCACGATACCGG
1 GGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTATGTGCACGAT-GTGG
* * *
17147579 GGGATGCACATGAGCAGGGTGAGATAGGGTGTCCGGCTATGTGCACAATGTGGG
1 GGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTATGTGCACGATGT-GG
* *
17147633 GGGATACACATGAGCTGGATGAGATG
1 GGGATGCACATGAGCTGGGTGAGATG
17147659 TAGTGGTATA
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
53 46 0.39
54 71 0.61
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (53 bp):
GGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTATGTGCACGATGTGG
Found at i:17149497 original size:40 final size:39
Alignment explanation
Indices: 17149437--17149542 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 39
17149427 CTCAGTCGAC
* * *
17149437 TCATATGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-AGCCAGAGCCA
* * *
17149477 TCGTGTGCATCCCCCCACATCGTGCAC-AGTCAGTGCCA
1 TCATGTGCATCCCCCCACATCGTGCACAAGCCAGAGCCA
*
17149515 TCATGTGCATCCCCCCACATCATGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
17149543 CGGGCACTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 32 0.56
40 25 0.44
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.21
Consensus pattern (39 bp):
TCATGTGCATCCCCCCACATCGTGCACAAGCCAGAGCCA
Found at i:17152550 original size:21 final size:21
Alignment explanation
Indices: 17152526--17152569 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17152516 ATTCTTAGAT
* *
17152526 AAATTAAAGCAAGATAAAGTA
1 AAATTAAACCAAAATAAAGTA
*
17152547 AAATTAAACCAAAATAAATTA
1 AAATTAAACCAAAATAAAGTA
17152568 AA
1 AA
17152570 GTAACTGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (21 bp):
AAATTAAACCAAAATAAAGTA
Found at i:17161045 original size:18 final size:18
Alignment explanation
Indices: 17161024--17161059 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17161014 CTCGCTGTAG
*
17161024 CCAAATTCCTTGCTGCAA
1 CCAAATTCCTTACTGCAA
17161042 CCAAATTCCTTACTGCAA
1 CCAAATTCCTTACTGCAA
17161060 TCAACATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (18 bp):
CCAAATTCCTTACTGCAA
Found at i:17161398 original size:63 final size:63
Alignment explanation
Indices: 17161231--17161401 Score: 231
Period size: 63 Copynumber: 2.7 Consensus size: 63
17161221 CCCACACGCA
* * * * *
17161231 CATCATT--ACCGGCATGTGCACTACCTACTCCGTACATGCACAGTTGTAAGTGTCACAACAT
1 CATCATTCAACCGGCATATGCACTGCCCACTCCGCACATGCACGGTTGTAAGTGTCACAACAT
* * *
17161292 CATCATTCGATCGGCATATGCACTGCCCACTCCGCATATGCACGGTTGT-AGTTGTCACAACAT
1 CATCATTCAACCGGCATATGCACTGCCCACTCCGCACATGCACGGTTGTAAG-TGTCACAACAT
*
17161355 CGTCATTCAACCGGCATATGCACTGCCCACTCCGCACATGCACGGTT
1 CATCATTCAACCGGCATATGCACTGCCCACTCCGCACATGCACGGTT
17161402 ACATCGATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 7 0.07
62 2 0.02
63 87 0.91
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (63 bp):
CATCATTCAACCGGCATATGCACTGCCCACTCCGCACATGCACGGTTGTAAGTGTCACAACAT
Found at i:17169046 original size:63 final size:63
Alignment explanation
Indices: 17168946--17169102 Score: 154
Period size: 63 Copynumber: 2.5 Consensus size: 63
17168936 CATCATTACC
*
17168946 GGCATGTGCACTGCCCACTCCGCACATGCACAATTGTAAG-TGCCACAACATCATCATTTGATT
1 GGCATATGCACTGCCCACTCCGCACATGCACAATTGT-AGTTGCCACAACATCATCATTTGATT
* * *** * * ** **
17169009 GGCATATGCACTGCCCACTTCGCATATGCATGGTTGTAGTTGTCACAACATCGTCATTCAACC
1 GGCATATGCACTGCCCACTCCGCACATGCACAATTGTAGTTGCCACAACATCATCATTTGATT
* * * *
17169072 AGCATATGCACTGCCTAATCTGCACATGCAC
1 GGCATATGCACTGCCCACTCCGCACATGCAC
17169103 GGTTACATCA
Statistics
Matches: 74, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
62 2 0.03
63 72 0.97
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (63 bp):
GGCATATGCACTGCCCACTCCGCACATGCACAATTGTAGTTGCCACAACATCATCATTTGATT
Found at i:17178926 original size:27 final size:27
Alignment explanation
Indices: 17178860--17178926 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 27
17178850 ACCTATTTAT
*
17178860 TTTTTATTTCCTATTGGGCCATGCCCA
1 TTTTTATTTTCTATTGGGCCATGCCCA
* *
17178887 --CTTATTTTCTATTGGGTCATGCCCA
1 TTTTTATTTTCTATTGGGCCATGCCCA
17178912 TTTTTATTTTCTATT
1 TTTTTATTTTCTATT
17178927 TCTTTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 22 0.65
27 12 0.35
ACGTcount: A:0.15, C:0.21, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTTTATTTTCTATTGGGCCATGCCCA
Found at i:17178955 original size:16 final size:16
Alignment explanation
Indices: 17178913--17178952 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
17178903 TCATGCCCAT
*
17178913 TTTTATTTTCTATTTC
1 TTTTCTTTTCTATTTC
*
17178929 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTATTTC
17178945 -TTTCTTTT
1 TTTTCTTTT
17178953 TCTCTCTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTCTATTTC
Found at i:17179028 original size:22 final size:22
Alignment explanation
Indices: 17179003--17179049 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
17178993 CGTCACTCCT
17179003 TTCACCACCATGGCTTCCTCTC
1 TTCACCACCATGGCTTCCTCTC
**
17179025 TTCACCACTGTGGCTTCCTCTC
1 TTCACCACCATGGCTTCCTCTC
17179047 TTC
1 TTC
17179050 CTTTCCTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.43, G:0.11, T:0.36
Consensus pattern (22 bp):
TTCACCACCATGGCTTCCTCTC
Found at i:17193365 original size:21 final size:21
Alignment explanation
Indices: 17193335--17193408 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
17193325 GGATATGTTC
*
17193335 ATGCAATTCATGACAAAGACTG
1 ATGC-ATTCATGACAAAGAATG
*
17193357 ATGCCTTCATGACAAAGAATG
1 ATGCATTCATGACAAAGAATG
** * *
17193378 ACACATTCATGGCAAAGATTG
1 ATGCATTCATGACAAAGAATG
*
17193399 ATGCAATCAT
1 ATGCATTCAT
17193409 TCAAAGTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 38 0.90
22 4 0.10
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (21 bp):
ATGCATTCATGACAAAGAATG
Found at i:17199317 original size:13 final size:13
Alignment explanation
Indices: 17199299--17199323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17199289 TTCCAGAAAA
17199299 TTTATAAAATCAT
1 TTTATAAAATCAT
17199312 TTTATAAAATCA
1 TTTATAAAATCA
17199324 CAATTTCGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:17203698 original size:20 final size:20
Alignment explanation
Indices: 17203670--17203726 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
17203660 TTTGGCAGTA
*
17203670 GCTTTTTAGTCGACTAACCC
1 GCTTCTTAGTCGACTAACCC
17203690 GCTTCTTAGTCGACTAACCC
1 GCTTCTTAGTCGACTAACCC
* * *
17203710 ACTTCTTGGTTGACTAA
1 GCTTCTTAGTCGACTAA
17203727 GTCTTTTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (20 bp):
GCTTCTTAGTCGACTAACCC
Found at i:17213081 original size:21 final size:19
Alignment explanation
Indices: 17213057--17213097 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
17213047 AATTTAAAAC
17213057 AAAATAACATAAAACTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
17213078 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
17213097 A
1 A
17213098 CTCAACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:17213380 original size:2 final size:2
Alignment explanation
Indices: 17213373--17213412 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
17213363 CTATGCAACC
17213373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT A
17213413 ATTACTACTN
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.