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 61 of 328
Found at i:16888275 original size:22 final size:22
Alignment explanation
Indices: 16888233--16888275 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16888223 AAATTAATAT
* *
16888233 ATATTTATATTATTTTAATTTA
1 ATATTTATATAATTTAAATTTA
16888255 ATATTTA-ATAATTTAATATTT
1 ATATTTATATAATTTAA-ATTT
16888276 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATATAATTTAAATTTA
Found at i:16888280 original size:26 final size:27
Alignment explanation
Indices: 16888211--16888280 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
16888201 GGCTCGTCAA
16888211 TAATATTTTTTTAAATTAATATATATT
1 TAATATTTTTTTAAATTAATATATATT
* *
16888238 T-ATATTATTTTAATTTAATATTTAATAATT
1 TAATATTTTTTTAAATTAATA--T-AT-ATT
16888268 TAATATTTTTTTA
1 TAATATTTTTTTA
16888281 TTAAAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 17 0.49
27 1 0.03
28 1 0.03
29 2 0.06
30 4 0.11
31 10 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATATTTTTTTAAATTAATATATATT
Found at i:16889658 original size:40 final size:40
Alignment explanation
Indices: 16889583--16889679 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
16889573 AACACACTAG
**
16889583 TTTGACACCCAGTGCCTCATTGCATAATTCAAAGTAATTA
1 TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
* * *
16889623 TTTGACACCTAGTGTCTCATTGGC-TAAACCGAAGTAA--A
1 TTTGACACCCAGTGCCTCATT-GCATAAACCAAAGTAATTA
*
16889661 -TTGGCACCCAGTGCCTCAT
1 TTTGACACCCAGTGCCTCAT
16889680 CGAATTAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 16 0.33
38 1 0.02
40 29 0.60
41 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATTGCATAAACCAAAGTAATTA
Found at i:16890475 original size:28 final size:28
Alignment explanation
Indices: 16890443--16890498 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
16890433 TTATTCAACA
*
16890443 TAGACAACACTTGAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
16890471 TAGACAACACTTAAAAACTCAATAATTT
1 TAGACAACACTTAAAAACTCAATAATTT
16890499 CTAAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (28 bp):
TAGACAACACTTAAAAACTCAATAATTT
Found at i:16890746 original size:28 final size:28
Alignment explanation
Indices: 16890715--16890775 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
16890705 TTTCTTATTA
16890715 TAATATATA-ATATTATAATAT-TATATCT
1 TAATATATATATA-TATAATATATATA-CT
16890743 TAAT-TATATATGATATAATATATATACT
1 TAATATATATAT-ATATAATATATATACT
16890771 TAATA
1 TAATA
16890776 ATTAAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
27 4 0.14
28 20 0.69
29 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (28 bp):
TAATATATATATATATAATATATATACT
Found at i:16891782 original size:15 final size:15
Alignment explanation
Indices: 16891744--16891780 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
16891734 ATAATTGTTA
*
16891744 ATTAATTTTATTTTT
1 ATTATTTTTATTTTT
16891759 ATTATTTTTA-TTTT
1 ATTATTTTTATTTTT
16891773 ATT-TTTTT
1 ATTATTTTT
16891781 TTTCAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.24
14 7 0.33
15 9 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTATTTTTATTTTT
Found at i:16893230 original size:49 final size:51
Alignment explanation
Indices: 16893107--16893235 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 51
16893097 ATATGATGAA
* * **
16893107 TAAGAGCAGGCTACTATGCGTACCTGATAACTTCGATCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTAC
* * * * *
16893158 TAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTAC
16893207 TAAGTGCAGGCTACTATGCGTACCAGATA
1 TAAGTGCAGGCTACTATGCGTACCAGATA
16893236 GCTTGGCTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 39 0.58
50 2 0.03
51 26 0.39
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
TAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATGTGTAGTAC
Found at i:16895968 original size:93 final size:93
Alignment explanation
Indices: 16895856--16896027 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16895846 CGCCCATAAG
* *
16895856 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16895921 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
16895949 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16896014 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
16896028 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16896024 original size:46 final size:46
Alignment explanation
Indices: 16895849--16896024 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
16895839 TGTAACCCGC
* * *
16895849 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
16895895 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
16895945 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16895988 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
16896025 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16903034 original size:93 final size:93
Alignment explanation
Indices: 16902919--16903091 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
16902909 CGCCCATAAG
** *
16902919 CGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
16902984 ACGAGCTCGGATGCCTATTTACATCTCT
66 ACGAGCTCGGATGCCTATTTACATCTCT
* * * *
16903012 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
16903077 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
16903092 CAAATATCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTATTTACATCTCT
Found at i:16903085 original size:46 final size:46
Alignment explanation
Indices: 16902912--16903081 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
16902902 TGTAACCCGC
* ** * *
16902912 CCATAAGCGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAACATTTGCAT
* * * *
16902958 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTATTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GA--AC-ATTTGCAT
*
16903008 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGAACATTTGCAT
*
16903051 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
16903082 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 9 0.09
44 1 0.01
46 56 0.55
47 25 0.25
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAACATTTGCAT
Found at i:16903106 original size:46 final size:46
Alignment explanation
Indices: 16902963--16903106 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
16902953 CGCATCCATA
* * * *
16902963 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTATTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-CT
* * *
16903012 --CGAACTCGGACTCAACTCAACGAGTTC-GA---ACATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC-T
*
16903055 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
16903102 AGTGA
1 AGTGA
16903107 TATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.07
46 33 0.45
47 27 0.36
48 4 0.05
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
Found at i:16905513 original size:15 final size:15
Alignment explanation
Indices: 16905487--16905542 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
16905477 CAAGGAAACC
16905487 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
16905502 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
16905517 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
16905532 GAATAAAGAAA
1 GAATAAAGAAA
16905543 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:16906717 original size:30 final size:28
Alignment explanation
Indices: 16906683--16906738 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 28
16906673 CATAGTATCG
*
16906683 TATCTTGGGTTTCTTTATTCTGGATTTCTC
1 TATCTTGGATTTCTTTATT-TGG-TTTCTC
16906713 TATCTTGGATTTCTTTATTTGGTTTC
1 TATCTTGGATTTCTTTATTTGGTTTC
16906739 CTTGTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 3 0.12
30 18 0.72
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTTGGTTTCTC
Found at i:16906721 original size:15 final size:14
Alignment explanation
Indices: 16906687--16906738 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
16906677 GTATCGTATC
*
16906687 TTGGGTTTCTTTAT
1 TTGGATTTCTTTAT
*
16906701 TCTGGATTTCTCTAT
1 T-TGGATTTCTTTAT
16906716 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
16906731 TTGG-TTTC
1 TTGGATTTC
16906739 CTTGTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 4 0.12
14 5 0.15
15 23 0.70
16 1 0.03
ACGTcount: A:0.10, C:0.13, G:0.17, T:0.60
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:16909186 original size:46 final size:46
Alignment explanation
Indices: 16909133--16909306 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
16909123 TTTGGGCATC
* * *
16909133 CGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGAT
* *
16909179 CGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG-AT
* * * **
16909225 CCAAGGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGCC
1 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGAT
* *
16909272 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16909307 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
45 2 0.02
46 58 0.56
47 23 0.22
48 3 0.03
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGAT
Found at i:16912275 original size:172 final size:171
Alignment explanation
Indices: 16911979--16912319 Score: 592
Period size: 172 Copynumber: 2.0 Consensus size: 171
16911969 ATAACCCCGT
* * *
16911979 TTTCAAAATCTATTCCATATGACATCACTAGATTTGACCATAACGTTTAGGCCGAGTTTGGAGTG
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
16912044 TTACTTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGAATGTGAATTTTGGGTTTCAAAATATGT
66 TTACTTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGAATGTGAATTTTGGGTTTCAAAATATGT
*
16912109 TTTAAAGAATTGGTTTTCAAATGGTTTAAAAATATTTTGGG
131 TTTAAAGAATTGGTTTTCAAATAGTTTAAAAATATTTTGGG
* * *
16912150 TTTCAAAATCTATTCCATATGACATCGCTAAATTTGACCATAACATCTAGGCTGAGTTTGGGGTG
1 TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
* *
16912215 TTACATTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGACTGTGAATTTTTGGTTTCAAAATATG
66 TTAC-TTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGAATGTGAATTTTGGGTTTCAAAATATG
16912280 TTTTAAAGAATTGGTTTTCAAATAGTTTAAAAATATTTTG
130 TTTTAAAGAATTGGTTTTCAAATAGTTTAAAAATATTTTG
16912320 ATTAAGAAGG
Statistics
Matches: 160, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
171 63 0.39
172 97 0.61
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (171 bp):
TTTCAAAATCTATTCCATATGACATCACTAAATTTGACCATAACATCTAGGCCGAGTTTGGAGTG
TTACTTTAGTGGTATCAGAGCCAGGTTGTAAAACTTGAATGTGAATTTTGGGTTTCAAAATATGT
TTTAAAGAATTGGTTTTCAAATAGTTTAAAAATATTTTGGG
Found at i:16914810 original size:2 final size:2
Alignment explanation
Indices: 16914699--16914801 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
16914689 CAAAAGAAAA
16914699 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16914741 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16914783 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
16914802 AACAGAGAGC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16915991 original size:38 final size:39
Alignment explanation
Indices: 16915889--16915996 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 39
16915879 GACCTCGAGT
* **
16915889 CGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTACTTCAGATAGAGC
* * * *
16915930 CGATGACG-TACTGGGT-ACCACTTTACTTCAGCTAG-GC
1 CGATGA-GACACTGGGTGTCAACTTTACTTCAGATAGAGC
*
16915967 CGATGAGACACTGGGTGTCAACTTTGCTTC
1 CGATGAGACACTGGGTGTCAACTTTACTTC
16915997 GAACTATCCG
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
36 1 0.02
37 13 0.25
38 21 0.40
39 3 0.06
40 1 0.02
41 13 0.25
42 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCAGATAGAGC
Found at i:16922628 original size:28 final size:28
Alignment explanation
Indices: 16922596--16922694 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
16922586 GCAATAAGCC
*
16922596 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
16922624 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
16922652 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
16922681 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16922695 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:16927507 original size:34 final size:34
Alignment explanation
Indices: 16927463--16927530 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
16927453 GAATAGTTGA
* *
16927463 ACAGTCTTGGGCCTAAGCCCTTTTCAATATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAATA-CAGTG
*
16927498 ACAGT-TTGGGCCTTAGCCCATCTCAATACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAATACAGTG
16927531 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAATACAGTG
Found at i:16930083 original size:23 final size:23
Alignment explanation
Indices: 16930039--16930087 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16930029 TGAGTTTTTA
*
16930039 AATGTATATATTTAATTGAATTG
1 AATGTATATATTTAATTAAATTG
*
16930062 AATGTATATAATTTGA-TAAATTG
1 AATGTATAT-ATTTAATTAAATTG
16930085 AAT
1 AAT
16930088 TATTGATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
AATGTATATATTTAATTAAATTG
Found at i:16930531 original size:20 final size:20
Alignment explanation
Indices: 16930508--16930569 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
16930498 GATTAATTAT
*
16930508 TGTTAATACAGATGAATTAC
1 TGTTAATACAGATGAACTAC
* *
16930528 TGTTATTACTGATGAACTAC
1 TGTTAATACAGATGAACTAC
* * *
16930548 TATTTATACGGATGAACTAC
1 TGTTAATACAGATGAACTAC
16930568 TG
1 TG
16930570 GTTATATGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTTAATACAGATGAACTAC
Found at i:16930582 original size:20 final size:20
Alignment explanation
Indices: 16930539--16930600 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
16930529 GTTATTACTG
* *
16930539 ATGAACTACTATTTATACGG
1 ATGAACTACTAGTTATACGA
* *
16930559 ATGAACTACTGGTTATATGA
1 ATGAACTACTAGTTATACGA
*
16930579 ATGAATTAC-AGTTTATACGA
1 ATGAACTACTAG-TTATACGA
16930599 AT
1 AT
16930601 AGAAATGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGAACTACTAGTTATACGA
Found at i:16930583 original size:40 final size:40
Alignment explanation
Indices: 16930513--16930597 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
16930503 ATTATTGTTA
* *
16930513 ATACAGATGAATTACTGTTATTACTGATGAACTACTA-TTT
1 ATACGGATGAACTACTGTTATTACTGATGAACTAC-AGTTT
*
16930553 ATACGGATGAACTACTGGTTA-TA-TGAATGAATTACAGTTT
1 ATACGGATGAACTACT-GTTATTACTG-ATGAACTACAGTTT
16930593 ATACG
1 ATACG
16930598 AATAGAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
39 3 0.08
40 32 0.82
41 4 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (40 bp):
ATACGGATGAACTACTGTTATTACTGATGAACTACAGTTT
Found at i:16933562 original size:40 final size:41
Alignment explanation
Indices: 16933510--16933606 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
16933500 TAAGTTGGTA
* * *
16933510 TCGCATACTTAGTGCC-TTATATAGCCGAAGCTAT-TCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCGAAACTATATCAAAC
* *
16933550 TCGCACACTTAGTGCCATTTGTAGCCGAAACTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
16933591 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
16933607 AGCATAGTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 44 0.88
41 6 0.12
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCGAAACTATATCAAAC
Found at i:16936760 original size:41 final size:41
Alignment explanation
Indices: 16936702--16936781 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
16936692 ATGACTGTGC
*
16936702 GATCGCCCGTGTACCTCACATGACCTGGCACACGACCGTAA
1 GATCGCCCGTGTACCTCACACGACCTGGCACACGACCGTAA
* * * *
16936743 GATCGCTCGTGTGCCTCACACGACTTGGCACACGTCCGT
1 GATCGCCCGTGTACCTCACACGACCTGGCACACGACCGT
16936782 GTGCCTTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.20
Consensus pattern (41 bp):
GATCGCCCGTGTACCTCACACGACCTGGCACACGACCGTAA
Found at i:16938918 original size:25 final size:23
Alignment explanation
Indices: 16938859--16938930 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
16938849 GGTATATCGA
16938859 TTGTGTTTGGAGGGTATACTTGG
1 TTGTGTTTGGAGGGTATACTTGG
* ** *
16938882 TTGTATGCGGAGGTTATACATTTGG
1 TTGTGTTTGGAGGGTATAC--TTGG
* *
16938907 TTGTGTTTGGAGAGTATATTTGG
1 TTGTGTTTGGAGGGTATACTTGG
16938930 T
1 T
16938931 ATCAAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
23 20 0.54
25 17 0.46
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (23 bp):
TTGTGTTTGGAGGGTATACTTGG
Found at i:16939807 original size:16 final size:16
Alignment explanation
Indices: 16939786--16939831 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
16939776 TAATTTTATA
16939786 AATAAATTTTATTAAT
1 AATAAATTTTATTAAT
* *
16939802 AATAAAATATATT-AT
1 AATAAATTTTATTAAT
*
16939817 TA-AAATTTTATTAAT
1 AATAAATTTTATTAAT
16939832 TCCCCAGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
14 8 0.33
15 5 0.21
16 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTATTAAT
Found at i:16943955 original size:9 final size:9
Alignment explanation
Indices: 16943936--16943970 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
16943926 TCTCATCAAG
16943936 TTTTCTAAAA
1 TTTT-TAAAA
16943946 TTTTTAAAA
1 TTTTTAAAA
16943955 TTTTTAAAA
1 TTTTTAAAA
16943964 TTTTTAA
1 TTTTTAA
16943971 TTAAACTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:16947012 original size:21 final size:21
Alignment explanation
Indices: 16946986--16947028 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16946976 ATTCTTCTAA
16946986 AAGAAATACATACATATATAT
1 AAGAAATACATACATATATAT
16947007 AAGAAATACATACATATATAT
1 AAGAAATACATACATATATAT
16947028 A
1 A
16947029 TATTGTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (21 bp):
AAGAAATACATACATATATAT
Found at i:16952994 original size:20 final size:20
Alignment explanation
Indices: 16952941--16952996 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
16952931 ATCTGTATCT
16952941 ATTTTCAATATTCTTATCCTGA
1 ATTTT-AATATT-TTATCCTGA
** *
16952963 ATTTTAGGATTTTATTCTGA
1 ATTTTAATATTTTATCCTGA
16952983 ATTTTAATATTTTA
1 ATTTTAATATTTTA
16952997 ATTTGGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 20 0.69
21 4 0.14
22 5 0.17
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTTAATATTTTATCCTGA
Found at i:16953537 original size:25 final size:25
Alignment explanation
Indices: 16953509--16953557 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
16953499 TAATCTTAAT
16953509 GTAAACAATCAAGCAAAAAAGGAGA
1 GTAAACAATCAAGCAAAAAAGGAGA
*
16953534 GTAAACAATCAAGTAAAAAAGGAG
1 GTAAACAATCAAGCAAAAAAGGAG
16953558 GAGAGTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.10
Consensus pattern (25 bp):
GTAAACAATCAAGCAAAAAAGGAGA
Found at i:16956570 original size:28 final size:28
Alignment explanation
Indices: 16956501--16956601 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
16956491 GACAAGATTG
* * * *
16956501 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
16956531 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16956559 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
16956588 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16956602 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16961728 original size:24 final size:23
Alignment explanation
Indices: 16961695--16961739 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
16961685 TAAAACTATA
* *
16961695 CTAATGACAATGATAATAATAAGC
1 CTAATAACAATAATAA-AATAAGC
16961719 CTAATAACAATAATAAAATAA
1 CTAATAACAATAATAAAATAA
16961740 CAATAATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (23 bp):
CTAATAACAATAATAAAATAAGC
Found at i:16961740 original size:14 final size:14
Alignment explanation
Indices: 16961721--16961747 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16961711 TAATAAGCCT
16961721 AATAACAATAATAA
1 AATAACAATAATAA
16961735 AATAACAATAATA
1 AATAACAATAATA
16961748 GTAATAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAACAATAATAA
Found at i:16968647 original size:46 final size:46
Alignment explanation
Indices: 16968573--16968661 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
16968563 TATATATACA
* * *
16968573 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATTTC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATTTC
* ** *
16968619 CATCTCATACACATTTCGTATTAACCATTCGGCTTTCCCACAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACAT
16968662 ATATACACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATTTC
Found at i:16968712 original size:47 final size:47
Alignment explanation
Indices: 16968643--16968827 Score: 192
Period size: 47 Copynumber: 3.9 Consensus size: 47
16968633 TTCGTATTAA
* ** * *
16968643 CCATTCGGCTTTCCCACATATATACACT-TCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATTGG
* * * *
16968690 CCATTCTGCCTGATCACATATATGCATGTTCATATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
** * *
16968737 CCATTCGGCCTTATCACACGTATGCATGTTCACATTCATCACATTTG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * ** *
16968784 CCATTCGGCCTTAGCTCATATATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
16968828 AAAATCCTAA
Statistics
Matches: 114, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
46 1 0.01
47 113 0.99
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
Found at i:16971110 original size:21 final size:21
Alignment explanation
Indices: 16971088--16971127 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16971078 ATTTAGCCAT
*
16971088 TTTTTATTT-TAATTTTAATA
1 TTTTTGTTTCTAATTTTAATA
16971108 TTTTTGTTTCTAATTTTAAT
1 TTTTTGTTTCTAATTTTAAT
16971128 TTTACATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTTGTTTCTAATTTTAATA
Found at i:16971111 original size:19 final size:19
Alignment explanation
Indices: 16971089--16971161 Score: 53
Period size: 19 Copynumber: 3.8 Consensus size: 19
16971079 TTTAGCCATT
16971089 TTTTATTTTAATTTTAATA
1 TTTTATTTTAATTTTAATA
*
16971108 TTTTTGTTTCTAATTTTAAT-
1 -TTTTATTT-TAATTTTAATA
* *
16971128 TTTACATTCTAATTTT--TCA
1 TTT-TATTTTAATTTTAAT-A
*
16971147 TTTTTTTTTAATTTT
1 TTTTATTTTAATTTT
16971162 GACAGGTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 1 0.02
18 9 0.21
19 13 0.31
20 9 0.21
21 10 0.24
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTTATTTTAATTTTAATA
Found at i:16974384 original size:27 final size:27
Alignment explanation
Indices: 16974328--16974438 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
16974318 AGCATGGTTG
* *
16974328 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
16974354 CCAGAACAGATAATTGTAGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
16974381 CCAGAACGGAT-GTATGTGGCAGAGCCT
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
*
16974408 CCA-AATCAGATAATTGTGGCATAGCCA
1 CCAGAA-CAGATAATTGTGGCAGAGCCA
16974435 CCAG
1 CCAG
16974439 GATGCTTCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
26 16 0.23
27 52 0.75
28 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:16975851 original size:24 final size:23
Alignment explanation
Indices: 16975831--16975923 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 23
16975821 TGCTCCTTGT
16975831 TCAGCTCCTAAATCTTCTCCTTTA
1 TCAGCTCCTAAATCTTCTCC-TTA
*
16975855 TCAGCTCCTAAATCCTCTCCCTTA
1 TCAGCTCCTAAATCTTCT-CCTTA
*
16975879 TCAGCTCCTAAATCCTCTCCCTTA
1 TCAGCTCCTAAATCTTCT-CCTTA
16975903 TCAGCTCCTAAATCTTCTCCT
1 TCAGCTCCTAAATCTTCTCCT
16975924 GGCAGTCTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
23 3 0.05
24 61 0.92
25 2 0.03
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (23 bp):
TCAGCTCCTAAATCTTCTCCTTA
Found at i:16975904 original size:48 final size:48
Alignment explanation
Indices: 16975831--16975922 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
16975821 TGCTCCTTGT
* *
16975831 TCAGCTCCTAAATCTTCTCCTTTATCAGCTCCTAAATCCTCTCCCTTA
1 TCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTCCCTTA
*
16975879 TCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCTTCTCC
1 TCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTCC
16975923 TGGCAGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.21, C:0.39, G:0.04, T:0.36
Consensus pattern (48 bp):
TCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTCCCTTA
Found at i:16979458 original size:26 final size:27
Alignment explanation
Indices: 16979409--16979477 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
16979399 GGAGGGGAGG
16979409 AGAAAA-GGAAGAGAGAAGGAAAGAGAA
1 AGAAAAGGGAAGAGAGAAGGAAAGA-AA
*
16979436 AGAAAAGGGGAGAGA-AAGG-AAGAAA
1 AGAAAAGGGAAGAGAGAAGGAAAGAAA
*
16979461 AGAAAAGAGAAAGAGAG
1 AGAAAAG-GGAAGAGAG
16979478 GAGAAAGGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 9 0.25
26 10 0.28
27 10 0.28
28 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (27 bp):
AGAAAAGGGAAGAGAGAAGGAAAGAAA
Found at i:16993423 original size:54 final size:54
Alignment explanation
Indices: 16993365--16993611 Score: 181
Period size: 54 Copynumber: 4.6 Consensus size: 54
16993355 TACTGAAATG
* * *
16993365 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAAATTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTA
* * * * *** **
16993419 CCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCAAATTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTA
* * * *** * **
16993473 CCCTCAATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAAATTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTA
* * * * * * * ***
16993527 CCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA
1 CCCTCAAATTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTA
* *
16993581 CCCTC-GATCAGTAAAATTACCAAAATACCCT
1 CCCTCAAATTA-TAAAATTACCAAAATACCCT
16993612 AGTCTATAAA
Statistics
Matches: 158, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
53 2 0.01
54 156 0.99
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (54 bp):
CCCTCAAATTATAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTA
Found at i:16993487 original size:81 final size:81
Alignment explanation
Indices: 16993390--16993547 Score: 253
Period size: 81 Copynumber: 2.0 Consensus size: 81
16993380 ATTACCAAAG
*
16993390 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
*
16993455 TACAGAATTACTGTTT
66 TACAAAATTACTGTTT
* * * **
16993471 TACCCTCAATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
16993536 TACAAAATTACT
66 TACAAAATTACT
16993548 AAAATACCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCAATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:16993547 original size:27 final size:27
Alignment explanation
Indices: 16993390--16993548 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
16993380 ATTACCAAAG
* *
16993390 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
16993417 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
16993444 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
16993471 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
16993498 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
16993525 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
16993549 AAATACCCTT
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:16993555 original size:27 final size:27
Alignment explanation
Indices: 16993525--16993770 Score: 155
Period size: 27 Copynumber: 9.1 Consensus size: 27
16993515 ATTACTGTTT
*
16993525 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
16993552 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
16993579 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * * * *
16993606 TACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
16993632 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* **
16993659 TACCCATAG-TTTGTAAAATTACCAAAA
1 TACCC-TCGATTTACAAAATTACCAAAA
* *** *
16993686 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
** **
16993713 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
16993740 TATCCCT-GATTTACAAAGTTA-CAGAAA
1 TA-CCCTCGATTTACAAAATTACCA-AAA
16993767 TACC
1 TACC
16993771 ATTAACTTTC
Statistics
Matches: 180, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
26 27 0.15
27 147 0.82
28 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:16993572 original size:81 final size:81
Alignment explanation
Indices: 16993377--16993575 Score: 245
Period size: 81 Copynumber: 2.5 Consensus size: 81
16993367 CTCAAATTGT
* *
16993377 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCAT
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCAT
16993442 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* **** * * * * **
16993458 AGAATTACTGTTTTACCCTCAATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCAT
16993523 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
16993539 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCA
16993576 AAATACCCTC
Statistics
Matches: 95, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:16993650 original size:80 final size:80
Alignment explanation
Indices: 16993539--16993746 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
16993529 CTCGATTTAC
** *
16993539 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAG-TCAGTAAAATTACCAA
16993604 AATACC-CTAGTCTAT
65 AATACCACTAGTCTAT
* * **
16993619 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCATAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-TAGTCAGTAAAATTACCAA
* * *
16993684 AATACCACTGGTTTGT
65 AATACCACTAGTCTAT
* ** **
16993700 GAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATATCCCT
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCT
16993747 GATTTACAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 61 0.56
81 44 0.41
82 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGTCAGTAAAATTACCAAA
ATACCACTAGTCTAT
Found at i:16993695 original size:54 final size:53
Alignment explanation
Indices: 16993539--16993747 Score: 240
Period size: 54 Copynumber: 3.9 Consensus size: 53
16993529 CTCGATTTAC
* * * * **
16993539 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCT-GGTTTGT
* * *
16993593 AAAATTACCAAAATACCC-TAGTCTATAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGT
* *
16993646 AAAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACC-CTGGTTTGT
* * * *
16993700 GAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATATCCCTG
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATA-CCCTG
16993748 ATTTACAAAG
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 42 0.31
54 90 0.67
55 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTGGTTTGT
Found at i:16993767 original size:54 final size:52
Alignment explanation
Indices: 16993525--16993855 Score: 236
Period size: 54 Copynumber: 6.1 Consensus size: 52
16993515 ATTACTGTTT
* **
16993525 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCT-GATTTACAAAATTAC-AAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * * *
16993579 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTATAAAATTGCTAAAA
1 TACCCT-GATTTA-CAAAATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAA
* ** *
16993632 TACCCCTGGTTTGTAAAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAA
1 TA-CCCTGATTTACAAAATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAA
* *** * *
16993686 TACCACTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
1 TACC-CTGATTTACAAAATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
16993740 TATCCCTGATTTACAAAGTTACAGAAATACCATTAACTTTCTAAAAATTA-TAGAAA
1 TA-CCCTGATTTACAAAATTACA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAA
* * * *
16993796 TACCATTGATTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAA
1 TACC-CTGATTTACAAAATTAC-AAAATACCCTTAGTTTGTAAAATTACCAAAA
*
16993850 CACCCT
1 TACCCT
16993856 TGTAGGATGA
Statistics
Matches: 224, Mismatches: 39, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
53 44 0.20
54 127 0.57
55 17 0.08
56 36 0.16
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (52 bp):
TACCCTGATTTACAAAATTACAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:16993822 original size:27 final size:27
Alignment explanation
Indices: 16993701--16993826 Score: 94
Period size: 27 Copynumber: 4.6 Consensus size: 27
16993691 CTGGTTTGTG
* **
16993701 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCATTAATTTACA
* * *
16993728 AAATTACCAAAATATCC-CTGATTTACA
1 AAATTACCGAAATA-CCATTAATTTACA
* *
16993755 AAGTTACAGAAATACCATTAACTTT-CTAA
1 AAATTACCGAAATACCATTAA-TTTAC--A
** *
16993784 AAATTATAGAAATACCATTGATTTACA
1 AAATTACCGAAATACCATTAATTTACA
*
16993811 AAATTACTGAAATACC
1 AAATTACCGAAATACC
16993827 CTTAGTTTGT
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
26 2 0.03
27 48 0.62
28 8 0.10
29 20 0.26
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCATTAATTTACA
Found at i:16993917 original size:27 final size:26
Alignment explanation
Indices: 16993887--16993979 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
16993877 TACCCCTATT
*
16993887 AGGTAAAAAGACCGTAGAGCCCCTGTA
1 AGGTAAAATGACCGTA-AGCCCCTGTA
*
16993914 AGGTAAAGTGACCGTAAAGCCCCTGT-
1 AGGTAAAATGACCGT-AAGCCCCTGTA
* *
16993940 AGAGTAAAGTGACCGTAATACCCCTGTA
1 AG-GTAAAATGACCGTAA-GCCCCTGTA
*
16993968 TGGTAAAATGAC
1 AGGTAAAATGAC
16993980 GAATATGCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.07
27 51 0.89
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (26 bp):
AGGTAAAATGACCGTAAGCCCCTGTA
Found at i:16994695 original size:4 final size:5
Alignment explanation
Indices: 16994679--16994743 Score: 57
Period size: 5 Copynumber: 13.4 Consensus size: 5
16994669 CATGGGATTT
* * *
16994679 TGATA T-ATA TGAT- TGATA TGATA TGCTCA TGATA TG-CA TGATA TGCACA
1 TGATA TGATA TGATA TGATA TGATA TGAT-A TGATA TGATA TGATA TG-ATA
16994728 TGATA T-ATA TGATA TG
1 TGATA TGATA TGATA TG
16994744 CACATGATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
4 15 0.31
5 25 0.52
6 8 0.17
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (5 bp):
TGATA
Found at i:16994710 original size:11 final size:11
Alignment explanation
Indices: 16994696--16994751 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
16994686 TATGATTGAT
*
16994696 ATGATATGCTC
1 ATGATATGCAC
16994707 ATGATATG--C
1 ATGATATGCAC
16994716 ATGATATGCAC
1 ATGATATGCAC
*
16994727 ATGATAT--AT
1 ATGATATGCAC
16994736 ATGATATGCAC
1 ATGATATGCAC
16994747 ATGAT
1 ATGAT
16994752 GTATTCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 17 0.44
11 22 0.56
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:16994719 original size:20 final size:20
Alignment explanation
Indices: 16994696--16994751 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
16994686 TATGATTGAT
* *
16994696 ATGATATGCTCATGATATGC
1 ATGATATGCACATGATATAC
*
16994716 ATGATATGCACATGATATAT
1 ATGATATGCACATGATATAC
16994736 ATGATATGCACATGAT
1 ATGATATGCACATGAT
16994752 GTATTCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGATATGCACATGATATAC
Found at i:16994830 original size:26 final size:26
Alignment explanation
Indices: 16994801--16994938 Score: 183
Period size: 26 Copynumber: 5.3 Consensus size: 26
16994791 GAGGAAGTGC
*
16994801 AAAAGAGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
16994827 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
16994854 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
16994880 AAAAGGGCTTATGCCCTAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
16994906 AAAATGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
16994929 AAAAGAGGCT
1 AAAAG-GGCT
16994939 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
23 4 0.04
24 7 0.07
25 6 0.06
26 57 0.58
27 25 0.25
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:16996156 original size:42 final size:43
Alignment explanation
Indices: 16996066--16996180 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
16996056 TCTAGGACGT
* * * * *
16996066 TGGCATCGATTTGAT-ATTTACATGTAAGACTATGTCTGGGATAT
1 TGGCATCGATAT-ATGATTT-CATGTAAGACTATATCTGAGACAG
*
16996110 TGGCATCG-TATATGATTTCATGTAAGACTCTATCTGAGACAG
1 TGGCATCGATATATGATTTCATGTAAGACTATATCTGAGACAG
* *
16996152 TGGCATCGATATTTGATTACATGTAAGAC
1 TGGCATCGATATATGATTTCATGTAAGAC
16996181 CACGTCTAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.48
43 24 0.39
44 8 0.13
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (43 bp):
TGGCATCGATATATGATTTCATGTAAGACTATATCTGAGACAG
Found at i:16996199 original size:43 final size:42
Alignment explanation
Indices: 16996044--16996200 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
16996034 TGTGTTATTG
*
16996044 TGTAAGACCACGTCTAGGACGTTGGCATCG-ATTTGATATTTACA
1 TGTAAGACCACGTCTAGGATGTTGGCATCGTATTTG--A-TTACA
* * * * * *
16996088 TGTAAGACTATGTCTGGGATATTGGCATCGTATATGATTTCA
1 TGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGATTACA
*
16996130 TGTAAGACTCTA--TCT-GAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGAC-C-ACGTCTAG-GA-TGTTGGCATCG-TATTTGATTACA
16996173 TGTAAGACCACGTCTAGGATGTTGGCAT
1 TGTAAGACCACGTCTAGGATGTTGGCAT
16996201 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 30 0.33
44 27 0.30
45 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGATTACA
Found at i:16997323 original size:22 final size:22
Alignment explanation
Indices: 16997276--16997320 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
16997266 GAATGGTCAT
16997276 TTTGGTATGTTCATAGCTGTGAA
1 TTTGGTATGTT-ATAGCTGTGAA
16997299 TTTGGTAATGTT-TAGCATGTGA
1 TTTGGT-ATGTTATAGC-TGTGA
16997321 TTTTAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (22 bp):
TTTGGTATGTTATAGCTGTGAA
Found at i:17020781 original size:33 final size:33
Alignment explanation
Indices: 17020744--17020922 Score: 139
Period size: 33 Copynumber: 5.4 Consensus size: 33
17020734 TGGCCCTGCC
* * **
17020744 ATGGTCTTACATTCGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTCATAGTGCCATAGCCCAACT
* *
17020777 ATGGTCTTATCA-TCAGAATGCCATAGCCCAACT
1 ATGGTCTTA-CATTCATAGTGCCATAGCCCAACT
* * * *
17020810 ATGGTCTTACATATAATTACTGCCATAGTCCAACC
1 ATGGTCTTACAT-TCA-TAGTGCCATAGCCCAACT
* * * *
17020845 ATGGTCTTACGTTCAAAGTGCCATAACCCAATT
1 ATGGTCTTACATTCATAGTGCCATAGCCCAACT
* * *
17020878 ATCGTCTTTTCATTAATA-TGCCATAGCCCAGA-T
1 ATGGTC-TTACATTCATAGTGCCATAGCCCA-ACT
17020911 ATGGTCTTACAT
1 ATGGTCTTACAT
17020923 ATAAACACTT
Statistics
Matches: 113, Mismatches: 27, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
32 7 0.06
33 67 0.59
34 14 0.12
35 25 0.22
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACATTCATAGTGCCATAGCCCAACT
Found at i:17020843 original size:35 final size:33
Alignment explanation
Indices: 17020744--17020954 Score: 135
Period size: 33 Copynumber: 6.3 Consensus size: 33
17020734 TGGCCCTGCC
** * * **
17020744 ATGGTCTTACATTCGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTAATACTGCCATAGCCCAACT
*
17020777 ATGGTCTTATCATCAGA-A-TGCCATAGCCCAACT
1 ATGGTCTTA-CATTA-ATACTGCCATAGCCCAACT
* *
17020810 ATGGTCTTACATATAATTACTGCCATAGTCCAACC
1 ATGGTCTTACAT-TAA-TACTGCCATAGCCCAACT
* * * *
17020845 ATGGTCTTACGTTCAA-AGTGCCATAACCCAATT
1 ATGGTCTTACATT-AATACTGCCATAGCCCAACT
* *
17020878 ATCGTCTTTTCATTAATA-TGCCATAGCCCAGA-T
1 ATGGTC-TTACATTAATACTGCCATAGCCCA-ACT
* * * *
17020911 ATGGTCTTACATATAAACACTTCCATAGTCCAACC
1 ATGGTCTTACAT-T-AATACTGCCATAGCCCAACT
17020946 ATGGTCTTA
1 ATGGTCTTA
17020955 TCCGTCAATT
Statistics
Matches: 139, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
32 9 0.06
33 68 0.49
34 17 0.12
35 45 0.32
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACATTAATACTGCCATAGCCCAACT
Found at i:17020872 original size:101 final size:101
Alignment explanation
Indices: 17020742--17020954 Score: 304
Period size: 101 Copynumber: 2.1 Consensus size: 101
17020732 CATGGCCCTG
** * *
17020742 CCATGGTCTTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGA-ATGCCATAGCCC
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAATTATCGTCTTATCATCA-ATATGCCATAGCCC
**
17020806 A-ACTATGGTCTTACATATAATTACTGCCATAGTCCAA
65 AGA-TATGGTCTTACATATAAACACTGCCATAGTCCAA
* * *
17020843 CCATGGTCTTACGTTCAAAGTGCCATAACCCAATTATCGTCTTTTCATTAATATGCCATAGCCCA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAATTATCGTCTTATCATCAATATGCCATAGCCCA
*
17020908 GATATGGTCTTACATATAAACACTTCCATAGTCCAA
66 GATATGGTCTTACATATAAACACTGCCATAGTCCAA
17020944 CCATGGTCTTA
1 CCATGGTCTTA
17020955 TCCGTCAATT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 98 0.98
102 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (101 bp):
CCATGGTCTTACATTCAAAGTGCCATAACCCAATTATCGTCTTATCATCAATATGCCATAGCCCA
GATATGGTCTTACATATAAACACTGCCATAGTCCAA
Found at i:17027583 original size:38 final size:38
Alignment explanation
Indices: 17027532--17027703 Score: 254
Period size: 38 Copynumber: 4.5 Consensus size: 38
17027522 ACTTAAGGTT
17027532 CGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCC
1 CGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCC
*
17027570 CGCAGGCTTAGTGCTTGTATTATATCCGGGTTAAATCC
1 CGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCC
* *
17027608 CACAGGCTTAGTGCTGGTATTATATCCGAGTTAAATCC
1 CGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCC
** *
17027646 CGCAGGCTTAGTGCTGGTATTATATTTGAGCTTAAAGTCC
1 CGCAGGCTTAGTGCTGGTATTATATCCG-GGTTAAA-TCC
* *
17027686 CGCAGGTTTTGTGCTGGT
1 CGCAGGCTTAGTGCTGGT
17027704 GACTGGATTT
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
38 97 0.80
39 5 0.04
40 19 0.16
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
CGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCC
Found at i:17034952 original size:2 final size:2
Alignment explanation
Indices: 17034947--17034985 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
17034937 AAAGTCGAAC
17034947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17034986 TTCTGAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17037618 original size:38 final size:39
Alignment explanation
Indices: 17037540--17037667 Score: 107
Period size: 40 Copynumber: 3.3 Consensus size: 39
17037530 ATTTGATGTG
* * * *
17037540 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTGGAATTA
1 TATCCGGG-TTAAAGTCCCGTAGGCCTA-GTGCTGGTATTA
17037580 TATCCGGGTTAAA-TCCCGTAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGTAGGCCTAGTGCTGGTATTA
* * * * * *
17037618 TATCTGAGTTTAAAGTCTCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAAGTCCCGTAGGCCTAGTGCTGGTATTA
* *
17037658 TGTTCGGGTT
1 TATCCGGGTT
17037668 TTATACCTCG
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
38 22 0.31
39 17 0.24
40 32 0.45
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGTAGGCCTAGTGCTGGTATTA
Found at i:17038956 original size:38 final size:38
Alignment explanation
Indices: 17038913--17039014 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
17038903 GACTTAAGGT
17038913 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
17038951 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
* *
17038989 CCGCAGGCTTAATGTTGGTATTATAT
1 CCGCAGGCTTAGTGCTGGTATTATAT
17039015 TTGAGCTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
Found at i:17041138 original size:46 final size:46
Alignment explanation
Indices: 17041085--17041260 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
17041075 TATTTGGGCA
17041085 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
17041131 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
17041178 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*
17041224 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17041261 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.04
45 6 0.05
46 63 0.56
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:17041240 original size:93 final size:93
Alignment explanation
Indices: 17041081--17041252 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
17041071 GGGATATTTG
* *
17041081 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
17041146 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
17041174 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
17041238 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
17041253 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:17045424 original size:25 final size:25
Alignment explanation
Indices: 17045346--17045489 Score: 117
Period size: 25 Copynumber: 5.8 Consensus size: 25
17045336 TCTTGTACAT
* * * *
17045346 GTATGCTCAAATGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTAAATTG
* * * * * **
17045371 GTATGCTCACTCAAGTTTTAGATCA
1 GTATGCTCACACGAGCTGTAAATTG
* *
17045396 GTATGCTCTCACCAGCTGTAAATTG
1 GTATGCTCACACGAGCTGTAAATTG
*
17045421 GTATGCTCACACGAGCTGTAGATTG
1 GTATGCTCACACGAGCTGTAAATTG
* * * * *
17045446 ATATGCTCTCGCGACCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATTG
17045471 GTATGCTCACACGAGCTGT
1 GTATGCTCACACGAGCTGT
17045490 GGAGTATCTG
Statistics
Matches: 89, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATTG
Found at i:17045424 original size:50 final size:50
Alignment explanation
Indices: 17045359--17045489 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
17045349 TGCTCAAATG
* * * *
17045359 AGCTGTGAATCGGTATGCTCACTCAAGTTTTAGATCAG-TATGCTCTCACC
1 AGCTGTAAATCGGTATGCTCACACAAGCTGTAGAT-AGATATGCTCTCACC
* * * * *
17045409 AGCTGTAAATTGGTATGCTCACACGAGCTGTAGATTGATATGCTCTCGCG
1 AGCTGTAAATCGGTATGCTCACACAAGCTGTAGATAGATATGCTCTCACC
* *
17045459 ACCTGTAAATCGGTATGCTCACACGAGCTGT
1 AGCTGTAAATCGGTATGCTCACACAAGCTGT
17045490 GGAGTATCTG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (50 bp):
AGCTGTAAATCGGTATGCTCACACAAGCTGTAGATAGATATGCTCTCACC
Found at i:17047763 original size:2 final size:2
Alignment explanation
Indices: 17047758--17047782 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17047748 TAAAAAAAAC
17047758 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 A
17047783 AATAGATTTA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17049439 original size:18 final size:18
Alignment explanation
Indices: 17049416--17049450 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17049406 TATGGATATT
17049416 GGACTTTAATTAAATTTG
1 GGACTTTAATTAAATTTG
* *
17049434 GGACTTTTATTATATTT
1 GGACTTTAATTAAATTT
17049451 TTATATTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (18 bp):
GGACTTTAATTAAATTTG
Found at i:17049985 original size:177 final size:177
Alignment explanation
Indices: 17049719--17050516 Score: 1075
Period size: 177 Copynumber: 4.5 Consensus size: 177
17049709 TCAGGGACAC
* * *
17049719 AAGGCTGGTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCC-GCATTCGATC
1 AAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATC
* * * * ** *
17049783 TGTTCTACTATTGCTTAAAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGA
65 TGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* * *
17049848 AGATAAGACTACAATCGCCAACCTGCTCACTTGCTACCTCAAAGACAT
130 AGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGAT
*
17049896 AAGGCTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCT
1 AAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCT
* * * * * *
17049961 ACTCCACTACTGCTTAGGGAGATAAGATCTTCCATCTTCAGTCTGTTTCCTTGCTACTTCAAGAA
66 GCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAA
*
17050026 GATAAGACTACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGAT
131 GATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* ** *
17050073 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATAAAGATAAGATTCGCC-GCATTCGATC
1 AAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATC
* * * *
17050137 TGCTCCACCACTACTTAGGGAGATAAGATCCTCAATCTTCAGTCTGTTTCC-TGCAACCTCAGGA
65 TGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGA
* **
17050201 AGATAAGACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
130 AGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * * *
17050249 AAGGCTAGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTTGCCATCTTCAATCT
1 AAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCT
* * * *
17050314 GCTCTACTACTACTTAGGAAGATAAGATCTTCAATCCTT-AGTCTGCTTCCTTGCTACATCAGAA
66 GCTCCACTACTACTTAGGGAGATAAGATCTTCAAT-CTTCAGTCTGCTTCCTTGCTACCTCAGGA
* *
17050378 AGATAAGACCACAATCGCCAACCTGCTCTCTTGATACCTCAGAGAGAT
130 AGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGAT
* * * * *
17050426 AAGGCTGGTGGCTTAAATCTACTCCATTACCGATACATGGAGATAAGATTCACCATCTT-TACTC
1 AAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGA-TC
* *
17050490 TGCTCCACTGCAACTTTAGGGAGATAA
65 TGCTCCACTACTAC-TTAGGGAGATAA
17050517 AACATGTCAC
Statistics
Matches: 550, Mismatches: 64, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
176 155 0.28
177 383 0.70
178 12 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (177 bp):
AAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCT
GCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAA
GATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGAT
Found at i:17050339 original size:353 final size:354
Alignment explanation
Indices: 17049719--17050476 Score: 1126
Period size: 353 Copynumber: 2.1 Consensus size: 354
17049709 TCAGGGACAC
*
17049719 AAGGCTGGTGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGCATTCGATCT
1 AAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGCATTCGATCT
* * * * * * *
17049784 GTTCTACTATTGCTTAAAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGAA
66 GCTCCACCACTACTTAAAGAGATAAGATCCTCAATCTTCAGTCTGCTTCCTTACAACCTCAGGAA
*
17049849 GATAAGACTACAATCGCCAACCTGCTCACTTGCTACCTCAAAGACATAAGGCTGGTGGCTAAAAT
131 GATAAGACTACAATCGCCAACCTGCTCACTTGCTACCTCAAAGACATAAGGCTAGTGGCTAAAAT
* * *
17049914 CTACTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGG
196 CTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGG
* * * * *
17049979 GAGATAAGATCTTCCAT-CTTCAGTCTGTTTCCTTGCTACTTCA-AGAAGATAAGACTACAATCA
261 AAGATAAGATCTTCAATCCTT-AGTCTGCTTCCTTGCTACATCAGA-AAGATAAGACCACAATCA
*
17050042 CCAACCTGCTCTCTTGCTACCTCAGAGAGAT
324 CCAACCTGCTCTCTTGATACCTCAGAGAGAT
* * **
17050073 AAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATAAAGATAAGATTCGCCGCATTCGATCT
1 AAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGCATTCGATCT
** * *
17050138 GCTCCACCACTACTTAGGGAGATAAGATCCTCAATCTTCAGTCTGTTTCC-TGCAACCTCAGGAA
66 GCTCCACCACTACTTAAAGAGATAAGATCCTCAATCTTCAGTCTGCTTCCTTACAACCTCAGGAA
* ** * * *
17050202 GATAAGACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAAT
131 GATAAGACTACAATCGCCAACCTGCTCACTTGCTACCTCAAAGACATAAGGCTAGTGGCTAAAAT
* * * *
17050267 CTGCTCCATTACCGATACATGGAGATAAGATTTGCCATCTTCAATCTGCTCTACTACTACTTAGG
196 CTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGG
*
17050332 AAGATAAGATCTTCAATCCTTAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACCACAATCGCC
261 AAGATAAGATCTTCAATCCTTAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACCACAATCACC
17050397 AACCTGCTCTCTTGATACCTCAGAGAGAT
326 AACCTGCTCTCTTGATACCTCAGAGAGAT
* *
17050426 AAGGCTGGTGGCTTAAATCTACTCCATTACCGATACATGGAGATAAGATTC
1 AAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
17050477 ACCATCTTTA
Statistics
Matches: 359, Mismatches: 43, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
353 254 0.71
354 105 0.29
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (354 bp):
AAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGCATTCGATCT
GCTCCACCACTACTTAAAGAGATAAGATCCTCAATCTTCAGTCTGCTTCCTTACAACCTCAGGAA
GATAAGACTACAATCGCCAACCTGCTCACTTGCTACCTCAAAGACATAAGGCTAGTGGCTAAAAT
CTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTACTTAGG
AAGATAAGATCTTCAATCCTTAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACCACAATCACC
AACCTGCTCTCTTGATACCTCAGAGAGAT
Found at i:17050878 original size:64 final size:64
Alignment explanation
Indices: 17050772--17050895 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
17050762 GTATCTATGC
* * * *
17050772 TTATGTCAACTAATTAGGACACTATAATTGAAATGAATCAAATGTTCCTAACTACATGTGATGT
1 TTATGTCAAATAATTAGGACACTATAATCGAAATGAAACAAATGCTCCTAACTACATGTGATGT
** * *
17050836 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAAACAAATGCTCCTAACTAGATGTG
1 TTATGTCAAATAATTAGGACACTATAATCGAAATGAAACAAATGCTCCTAACTACATGTG
17050896 TTATGAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGACACTATAATCGAAATGAAACAAATGCTCCTAACTACATGTGATGT
Found at i:17052021 original size:14 final size:15
Alignment explanation
Indices: 17051995--17052029 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17051985 TGGCTTCTCC
*
17051995 TTTTCTTTTTTTTTTA
1 TTTTC-TTTTTTTTAA
17052011 TTTTCTTTTTTTTAA
1 TTTTCTTTTTTTTAA
17052026 TTTT
1 TTTT
17052030 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTCTTTTTTTTAA
Found at i:17052030 original size:16 final size:16
Alignment explanation
Indices: 17051995--17052029 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17051985 TGGCTTCTCC
*
17051995 TTTTCTTTTTTTTTTA
1 TTTTCTTTTTTTTATA
17052011 TTTTCTTTTTTTTA-A
1 TTTTCTTTTTTTTATA
17052026 TTTT
1 TTTT
17052030 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTTTTTATA
Found at i:17052057 original size:19 final size:19
Alignment explanation
Indices: 17051995--17052059 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
17051985 TGGCTTCTCC
*
17051995 TTTTCTTTTT-TTTTTATT
1 TTTTATTTTTATTTTTATT
*
17052013 TTCTTTTTTTTAATTTTT-TT
1 TT-TTATTTTT-ATTTTTATT
**
17052033 CCTTATTTTTATTTTTATT
1 TTTTATTTTTATTTTTATT
17052052 TTTTATTT
1 TTTTATTT
17052060 CGATCTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.22
19 22 0.59
20 2 0.05
21 5 0.14
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTATTTTTATTTTTATT
Found at i:17057305 original size:2 final size:2
Alignment explanation
Indices: 17057300--17057336 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
17057290 TAAAAAAAAC
17057300 AT AT AT AT 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 AT AT AT AT A
17057337 AATAGATTTA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17067636 original size:40 final size:40
Alignment explanation
Indices: 17067599--17067773 Score: 169
Period size: 40 Copynumber: 4.4 Consensus size: 40
17067589 GCTACTCGTT
*
17067599 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
17067639 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
17067679 CAAATGCCTTCGGG-CTTATCTCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * ** * * *
17067718 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
17067759 CAAA-GCCTTCGGGAC
1 CAAATGCCTTCGGGAC
17067774 TTAGCCCAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.27
40 69 0.61
41 12 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:17067717 original size:79 final size:80
Alignment explanation
Indices: 17067627--17067776 Score: 207
Period size: 79 Copynumber: 1.9 Consensus size: 80
17067617 AGCCCGGTTA
* *
17067627 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
17067690 GGG-CTTATCTCGAAAT
64 GGGACTTATCTCGAAAT
* ** *
17067706 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
17067771 GACTTA
66 GACTTA
17067777 GCCCAGACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 3 0.05
79 47 0.76
80 12 0.19
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTATCTCGAAAT
Found at i:17081049 original size:19 final size:17
Alignment explanation
Indices: 17081025--17081059 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
17081015 TTAAAAGGAA
17081025 ATAAAAAGTAAATATAAAG
1 ATAAAAA-TAAA-ATAAAG
17081044 ATAAAAATAAAATAAA
1 ATAAAAATAAAATAAA
17081060 TAATAGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
ATAAAAATAAAATAAAG
Found at i:17089303 original size:56 final size:56
Alignment explanation
Indices: 17089243--17089376 Score: 223
Period size: 56 Copynumber: 2.4 Consensus size: 56
17089233 CTAGACACGA
17089243 TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
** **
17089299 TCTTACTCGGGCACATATATCGGAGTCACATATCGATGCCAATGTATAAAACGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
*
17089355 TCTTACTTGCACACATATATCG
1 TCTTACTCGCACACATATATCG
17089377 ATGCCATGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (56 bp):
TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
Found at i:17090545 original size:14 final size:15
Alignment explanation
Indices: 17090528--17090556 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17090518 TCACGAAAAT
17090528 TTCACACAT-ATAAA
1 TTCACACATAATAAA
17090542 TTCACACATAATAAA
1 TTCACACATAATAAA
17090557 CAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:17094213 original size:27 final size:27
Alignment explanation
Indices: 17094190--17094265 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
17094180 AAGTACCTTT
* *
17094190 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
17094217 GATTTACAGAATTATCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
17094244 GATTTATAGAATTACCATTTTA
1 GATTTACAGAATTACCATTTTA
17094266 TCCGTTTTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCATTTTACCCTC
Found at i:17094311 original size:27 final size:27
Alignment explanation
Indices: 17094267--17094321 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
17094257 ACCATTTTAT
** * *
17094267 CCGTTTTACCCTTTATTTATAGAATTA
1 CCGTTTTACCCTCGATTTACAAAATTA
17094294 CCGTTTTACCCTCGATTTACAAAATTA
1 CCGTTTTACCCTCGATTTACAAAATTA
17094321 C
1 C
17094322 TAAAATACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (27 bp):
CCGTTTTACCCTCGATTTACAAAATTA
Found at i:17094347 original size:54 final size:55
Alignment explanation
Indices: 17094300--17094523 Score: 199
Period size: 54 Copynumber: 4.1 Consensus size: 55
17094290 ATTACCGTTT
* * *
17094300 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCCTTGGTTTACAAAATTACCGAAA
* * * ***
17094354 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCGAAA
* * * * * *
17094408 TACCTTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCCTTGGTTTACAAAATTACCGAAA
* * * *
17094462 TACCCTTGACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGACTTTGC--AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCGAAA
17094518 TACCCT
1 TACCCT
17094524 TGGTTTGTAG
Statistics
Matches: 138, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
53 3 0.02
54 89 0.64
55 7 0.05
56 39 0.28
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (55 bp):
TACCCTCGACTTTGCAAAATTACCAAAATACCCTTGGTTTACAAAATTACCGAAA
Found at i:17094347 original size:90 final size:91
Alignment explanation
Indices: 17094185--17094350 Score: 219
Period size: 90 Copynumber: 1.8 Consensus size: 91
17094175 TACCAAAGTA
* ***
17094185 CCTTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTA
1 CCTTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATCAAAATACCCTCGATTTA
* *
17094250 TAGAATTACCATTTTATCCGTTTTAC
66 CAAAATTACCATTTTATCCGTTTTAC
* * * *
17094276 CCTTT-ATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTA-CTAAAATACCCTTGGTTT
1 CCTTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATC-AAAATACCCTCGATTT
17094339 ACAAAATTACCA
65 ACAAAATTACCA
17094351 AAATACCCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
89 1 0.02
90 58 0.91
91 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (91 bp):
CCTTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATCAAAATACCCTCGATTTA
CAAAATTACCATTTTATCCGTTTTAC
Found at i:17094517 original size:27 final size:27
Alignment explanation
Indices: 17094300--17094552 Score: 165
Period size: 27 Copynumber: 9.3 Consensus size: 27
17094290 ATTACCGTTT
* * *
17094300 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
17094327 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * **
17094354 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** *
17094381 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
** **
17094408 TA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GGTTTACAAAATTACCAAAA
* *
17094435 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
17094462 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
17094491 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
17094518 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
17094545 CACCCTTG
1 TACCCTTG
17094553 TAGAATGAAA
Statistics
Matches: 184, Mismatches: 32, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 4 0.02
27 148 0.80
28 11 0.06
29 20 0.11
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:17094624 original size:27 final size:27
Alignment explanation
Indices: 17094585--17094646 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
17094575 CCCTAATAGG
*
17094585 AAAAAGACTGTAA-AGCCCCTGTAGGGT
1 AAAATGACTGTAATA-CCCCTGTAGGGT
* * *
17094612 AAAGTGACTGTAATACCCCTTTATGGT
1 AAAATGACTGTAATACCCCTGTAGGGT
17094639 AAAATGAC
1 AAAATGAC
17094647 GAATATGCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
AAAATGACTGTAATACCCCTGTAGGGT
Found at i:17095183 original size:24 final size:25
Alignment explanation
Indices: 17095156--17095208 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
17095146 AAAAGCCCGA
17095156 ATTTGAT-AAAGTGGGTTAAAGATC
1 ATTTGATAAAAGTGGGTTAAAGATC
**
17095180 ATTTTTTAAAAGTGGGTTAAAGATC
1 ATTTGATAAAAGTGGGTTAAAGATC
17095205 ATTT
1 ATTT
17095209 TTTAAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTGATAAAAGTGGGTTAAAGATC
Found at i:17095209 original size:24 final size:25
Alignment explanation
Indices: 17095163--17095214 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
17095153 CGAATTTGAT
17095163 AAAGTGGGTTAAAGATCATTTTTTA
1 AAAGTGGGTTAAAGATCATTTTTTA
17095188 AAAGTGGGTTAAAGATCATTTTTTA
1 AAAGTGGGTTAAAGATCATTTTTTA
17095213 AA
1 AA
17095215 CACTCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (25 bp):
AAAGTGGGTTAAAGATCATTTTTTA
Found at i:17095556 original size:24 final size:25
Alignment explanation
Indices: 17095480--17095549 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
17095470 AGGAAGTGCT
* *
17095480 AAAAGGG-TTATGCCCCAGTTTA-CTG
1 AAAAGGGCTT-TGCCTCAGTTTATC-A
17095505 AAAAGGGCTTTGCCTCAGTTTATCA
1 AAAAGGGCTTTGCCTCAGTTTATCA
17095530 AAAAGGGCTTTGTCC-CAGTT
1 AAAAGGGCTTTG-CCTCAGTT
17095550 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTGCCTCAGTTTATCA
Found at i:17095562 original size:24 final size:25
Alignment explanation
Indices: 17095490--17095562 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
17095480 AAAAGGGTTA
* *
17095490 TGCCCCAGTTTACTGAAAAG-GGCTT
1 TGCCTCAGTTTA-TCAAAAGAGGCTT
17095515 TGCCTCAGTTTATCAAAA-AGGGCTT
1 TGCCTCAGTTTATCAAAAGA-GGCTT
*
17095540 TGTCC-CAG-TTATTAAAAGAGGCT
1 TG-CCTCAGTTTATCAAAAGAGGCT
17095563 AGGCCTCCAG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 17 0.41
25 22 0.54
26 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
TGCCTCAGTTTATCAAAAGAGGCTT
Found at i:17097060 original size:27 final size:26
Alignment explanation
Indices: 17097023--17097134 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
17097013 AGCATGGCTG
* *
17097023 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17097049 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
17097077 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
17097104 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
17097131 CCAG
1 CCAG
17097135 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17097115 original size:54 final size:54
Alignment explanation
Indices: 17097023--17097134 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
17097013 AGCATGGCTG
* *
17097023 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
17097077 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
17097131 CCAG
1 CCAG
17097135 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17098173 original size:15 final size:15
Alignment explanation
Indices: 17098153--17098184 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17098143 ATAGGGTTTT
17098153 ACTGTGGTCTTGTCG
1 ACTGTGGTCTTGTCG
17098168 ACTGTGGTCTTGTCG
1 ACTGTGGTCTTGTCG
17098183 AC
1 AC
17098185 AAAAACTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.22, G:0.31, T:0.38
Consensus pattern (15 bp):
ACTGTGGTCTTGTCG
Found at i:17104905 original size:27 final size:26
Alignment explanation
Indices: 17104870--17104980 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
17104860 AGCATGGCTG
* *
17104870 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17104896 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
17104924 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
17104951 CCAGATCAGATAATTTGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17104977 CCAG
1 CCAG
17104981 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 21 0.28
27 37 0.49
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17111492 original size:46 final size:46
Alignment explanation
Indices: 17111442--17111617 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17111432 TGGTTGAGCA
17111442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17111488 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17111533 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17111581 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17111618 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17111598 original size:93 final size:93
Alignment explanation
Indices: 17111439--17111610 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17111429 GGATGGTTGA
* *
17111439 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17111504 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
17111532 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
17111597 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17111611 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17113741 original size:131 final size:131
Alignment explanation
Indices: 17113448--17113836 Score: 462
Period size: 132 Copynumber: 2.9 Consensus size: 131
17113438 AGAAAATATT
** * * * *
17113448 AGTGAAATTCCGAAGGGATATTCGATTA-TTTAATACAAACGGGAGATTGCAACCCAGCACGATA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAA-GCAAACGAGAAATTGCAACCCAGCACGTTA
* * ** * *
17113512 GGGCACT-ACTCCCCGAATTGCCAAACATCGAGTATTTCCTTTGTTTTAAAGAGTTTTTAGAAGA
65 GGGCA-TGATTCCCCGAATTGCCAAATATCGA-TATCGCCTTCGTTTTAAAGAGTTTTTAAAAGA
17113576 CATG
128 CATG
*
17113580 AGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
** * *
17113645 GGCATGATTCCTTGAATTGCCAAATATCGCATATCGCCTTCG-TTTAAGGGGTTTTTAAAAGACA
66 GGCATGATTCCCCGAATTGCCAAATATCG-ATATCGCCTTCGTTTTAAAGAGTTTTTAAAAGACA
17113709 T-
130 TG
* * *
17113710 AGGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTA
1 A-GTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTA
* * * * *
17113775 GGGCACGATTCCGCGAATTGCCAAAATATCAAATCTCGTCTTCGTTTTAAAGAGTTTTTAAA
65 GGGCATGATTCCCCGAATTGCC-AAATATC-GATATCGCCTTCGTTTTAAAGAGTTTTTAAA
17113837 TGAATAATTA
Statistics
Matches: 221, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
130 1 0.00
131 99 0.45
132 100 0.45
133 21 0.10
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (131 bp):
AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
GGCATGATTCCCCGAATTGCCAAATATCGATATCGCCTTCGTTTTAAAGAGTTTTTAAAAGACAT
G
Found at i:17117383 original size:30 final size:30
Alignment explanation
Indices: 17117347--17117404 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
17117337 TTTTGAAAAA
17117347 CAGAAATT-AAAAGACTCAACTCAACTCTTG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTTG
*
17117377 CAGAAATTAAAAAGCTCAACTCACCTCT
1 CAGAAATTAAAAAGCTCAACTCAACTCT
17117405 AGCAATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTTG
Found at i:17117642 original size:79 final size:77
Alignment explanation
Indices: 17117513--17118108 Score: 443
Period size: 75 Copynumber: 7.7 Consensus size: 77
17117503 AAACATAATC
** * * * * * *
17117513 TGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTTGCAATGT
1 TGAAAAACAGAAATTGAAAATACCTCAG-CGTGTGACCTGAAGCTCAACTCACCTCTCGCAATAT
17117577 GAGTTGATTTTTT
65 GAGTTGATTTTTT
* * * *
17117590 TGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATA
1 TGAAAAACAGAAATTG--AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATA
17117655 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
* * * *
17117669 TGAAAGACAGAAATTGAAAATAGCTCAGTGCGTGAGCC--AAGGCTCAACTCACCTCTCGCAATA
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGA-CCTGAA-GCTCAACTCACCTCTCGCAATA
17117732 TGAGTTGATTTTTTTT
64 TGAGTTGA--TTTTTT
** * * * *** * * * *
17117748 TGAAAGGCAAAAATTGAAAA-ACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTC
1 TGAAAAACAGAAATTGAAAATAC-----CTCAGCGT--GT-GAC--CTGA--AG---CTCAACTC
* * *
17117812 GCCTCTCACAATACGAGTTGATTTTTT
51 ACCTCTCGCAATATGAGTTGATTTTTT
* *
17117839 TG-ACAACAGAAATTGAAATTACCTCAGCGTGT--CCT-AAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAA-GCTCAACTCACCTCTCGCAATAT
17117900 GAGTTGATTTTTT
65 GAGTTGATTTTTT
* * *
17117913 TGAAAAACAGAAATTGAAAATACCTCAACGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATG
*
17117976 AGTTGATTTCTT
66 AGTTGATTTTTT
* * * * **
17117988 TGAAAAACAAAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATG
*
17118051 AGTTGA--ATTT
66 AGTTGATTTTTT
* * *
17118061 TG-AAAACAGAAATTGAAATTACCTCAGCGTGT--CTTGAGGCTCAACTCA
1 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCA
17118109 TTTTGAACAG
Statistics
Matches: 423, Mismatches: 68, Indels: 61
0.77 0.12 0.11
Matches are distributed among these distances:
72 43 0.10
73 4 0.01
74 34 0.08
75 126 0.30
76 3 0.01
77 60 0.14
78 3 0.01
79 89 0.21
80 1 0.00
81 1 0.00
83 2 0.00
84 1 0.00
85 2 0.00
86 4 0.01
89 1 0.00
90 13 0.03
91 10 0.02
93 26 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTT
Found at i:17117830 original size:93 final size:93
Alignment explanation
Indices: 17117668--17117839 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 93
17117658 GTTGATTTTT
* * * *
17117668 TTGAAAGACAGAAATTGAAAATAGCTCAGTGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
17117733 GAGTTGATTTTTTTTTGAAAGGCAAAAA
66 GAGTTGATTTTTTTTTGAAAGGCAAAAA
* * * *
17117761 TTGAAAAACGGAAATTGAAAATACCTC-G-GCGTGTGACCTGAGGCTCAACTCGCCTCTCACAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGTGCGTGAG-CC-AAGGCTCAACTCACCTCTCACAAT
17117824 ACGAGTTGATTTTTTT
64 ACGAGTTGATTTTTTT
17117840 GACAACAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 6 0.09
92 3 0.04
93 60 0.87
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGTGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAAAAA
Found at i:17117832 original size:170 final size:167
Alignment explanation
Indices: 17117608--17118061 Score: 496
Period size: 150 Copynumber: 2.8 Consensus size: 167
17117598 ATAAATTGAA
* * * *
17117608 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
*
17117673 AGACAGAAATTGAAAATAGCTCAGTGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAAATACCTCA--GCGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
17117737 TGATTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
127 TGATTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
* * * *
17117778 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
* *
17117843 AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
66 AACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
17117907 ---TTTTT------------TTGAAAAACAGAAATTG
131 TTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
* * * * * *
17117929 AAAATACCTCAACGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTG-A
* * * * * **
17117992 AAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
65 AAACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
17118057 ATTTT
130 TTTTT
17118062 GAAAACAGAA
Statistics
Matches: 251, Mismatches: 27, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
149 39 0.16
150 58 0.23
151 31 0.12
154 1 0.00
163 5 0.02
166 2 0.01
167 38 0.15
169 19 0.08
170 58 0.23
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (167 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
AACAGAAATTGAAAATACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
Found at i:17117883 original size:244 final size:242
Alignment explanation
Indices: 17117180--17118007 Score: 876
Period size: 248 Copynumber: 3.4 Consensus size: 242
17117170 ACAGACATTA
*
17117180 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCATCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * ** * ***
17117245 TGA-TTTTTTG-AAACTTAACTTGAAAAGA-AGATTTTGAAAATACCTCGATATGTGACTAAAGG
65 TGATTTTTTTGAAAACAAAAATTGAAAA-ACAGAAATTGAAAATACCTCGACATGTGACCCGAGG
* * * * *
17117307 TTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTC
129 CTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-A-T-ACCTC
* * * ** * *
17117369 AACTCTTGCAGAAATTAAAAAGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTTTTG
191 -A-GC--G-TGTACCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* *
17117429 AAAA-AAAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
* **
17117493 TGA--TTTTTGAAAAC-ATAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGG
65 TGATTTTTTTGAAAACAAAAAT-TGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGG
** ** * *
17117555 CTCAACTCACATCTTGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAG
129 CTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCTCAG
* *
17117620 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
193 CGTGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
17117671 AAAGACAGAAATTGAAAATAGCTCAGTGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAG-ACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
17117736 TTGATTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTG
64 TTGA--TTTTTTTGAAA-ACAAAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCG
* * * *
17117801 AGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC
126 AGGCTCAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
17117864 AGCGTGT-CCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
191 AGCGTGTACCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* ** *
17117915 AAAAACAGAAATTGAAAATACCTCA-ACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAACAGAAATTGAAAATAGCTCAGACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
*
17117979 TGATTTCTTTGAAAAACAAAAATTGAAAA
65 TGATTTTTTTG-AAAACAAAAATTGAAAA
17118008 TACCTCAGCA
Statistics
Matches: 504, Mismatches: 56, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
240 20 0.04
241 3 0.01
242 50 0.10
243 33 0.07
244 120 0.24
245 6 0.01
246 15 0.03
247 9 0.02
248 145 0.29
249 76 0.15
250 22 0.04
251 1 0.00
252 4 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (242 bp):
AAAACAGAAATTGAAAATAGCTCAGACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACAAAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGAGGCT
CAACTCACATCTCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGT
GTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:17117954 original size:75 final size:75
Alignment explanation
Indices: 17117761--17118108 Score: 479
Period size: 75 Copynumber: 4.7 Consensus size: 75
17117751 AAGGCAAAAA
* * * * *
17117761 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
17117826 GAGTTGATTTTT
64 GAGTTGATTTTT
* * *
17117838 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
17117902 GTTGATTTTT
66 GTTGATTTTT
* *
17117912 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
17117977 GTTGATTTCT
66 GTTGATTTTT
* * * **
17117987 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
17118052 GTTGA--ATT
66 GTTGATTTTT
* *
17118060 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
17118109 TTTTGAACAG
Statistics
Matches: 244, Mismatches: 26, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
72 43 0.18
73 4 0.02
74 40 0.16
75 128 0.52
76 26 0.11
77 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:17118131 original size:49 final size:49
Alignment explanation
Indices: 17118065--17118160 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
17118055 GAATTTTGAA
*
17118065 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
17118114 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
17118161 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:17118150 original size:121 final size:121
Alignment explanation
Indices: 17117993--17118232 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
17117983 TTCTTTGAAA
*
17117993 AACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
17118058 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * *
17118114 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
17118179 TTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
17118233 CTCGCAATAT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:17118223 original size:72 final size:72
Alignment explanation
Indices: 17118117--17118254 Score: 276
Period size: 72 Copynumber: 1.9 Consensus size: 72
17118107 CATTTTGAAC
17118117 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
17118182 TGAAAAT
66 TGAAAAT
17118189 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
17118254 T
66 T
17118255 TTTTTTGAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (72 bp):
AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
TGAAAAT
Found at i:17118359 original size:49 final size:50
Alignment explanation
Indices: 17118266--17118362 Score: 135
Period size: 49 Copynumber: 1.9 Consensus size: 50
17118256 TTTTTGAAAG
17118266 ACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACTCATTTTGA
1 ACAGAAATTGAAAATACCTCA-CATGTGGACCGAGGCTCAACTCATTTTGA
* * *
17118317 ACAGAAATTGAAATTACCTC-CATGT-GTCTTGAGGCTCAACTCATTT
1 ACAGAAATTGAAAATACCTCACATGTGGAC-CGAGGCTCAACTCATTT
17118363 CTCGCAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 21 0.50
51 19 0.45
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (50 bp):
ACAGAAATTGAAAATACCTCACATGTGGACCGAGGCTCAACTCATTTTGA
Found at i:17118360 original size:202 final size:201
Alignment explanation
Indices: 17117918--17118511 Score: 918
Period size: 202 Copynumber: 3.0 Consensus size: 201
17117908 TTTTTTGAAA
* ** **
17117918 AACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
* * * * *
17117983 TTCTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 AT-TTTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
* * *
17118048 ATGAGTTGAA-----TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GT-GTCTTGAGGCTCA
128 ATGAGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGAC-CGAGGCTCA
17118104 ACTCATTTTG
192 ACTCATTTTG
17118114 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
17118179 TTTTGAAAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
17118244 AGTTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
131 AGTTGAA-TTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACT
17118309 CATTTTG
195 CATTTTG
* *
17118316 AACAGAAATTGAAATTACCTCCATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
17118381 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
17118446 AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTC
131 AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACTC
17118511 A
196 A
17118512 CCTCTCGCAA
Statistics
Matches: 369, Mismatches: 19, Indels: 15
0.92 0.05 0.04
Matches are distributed among these distances:
193 62 0.17
194 4 0.01
195 1 0.00
196 59 0.16
199 8 0.02
200 22 0.06
201 58 0.16
202 153 0.41
203 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (201 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGGACCGAGGCTCAACTC
ATTTTG
Found at i:17118403 original size:72 final size:72
Alignment explanation
Indices: 17118316--17118540 Score: 274
Period size: 72 Copynumber: 3.0 Consensus size: 72
17118306 ACTCATTTTG
17118316 AACAGAAATTGAAATTACCTCCATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCCATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
17118381 TTTTGAA
66 TTTTGAA
* * *
17118388 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCCATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
17118453 TTTTTTTTTGAA
66 -----TTTTGAA
* * * ** *
17118465 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTC--CATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
17118529 TG-ATTTTGAA
62 TGAATTTTGAA
17118539 AA
1 AA
17118541 AGTAGAAATT
Statistics
Matches: 132, Mismatches: 12, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
72 62 0.47
73 1 0.01
74 8 0.06
77 8 0.06
78 19 0.14
79 1 0.01
80 32 0.24
81 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCCATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:17118604 original size:54 final size:54
Alignment explanation
Indices: 17118504--17118609 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
17118494 GAACCGAGGC
*
17118504 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
17118558 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
17118610 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:17118757 original size:72 final size:71
Alignment explanation
Indices: 17118600--17118765 Score: 242
Period size: 72 Copynumber: 2.3 Consensus size: 71
17118590 TGAACAACGT
* * * * *
17118600 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
17118665 GAGTTG
66 GAGTTG
*
17118671 AAATTAAAACACAAAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
17118736 TGAGTTG
65 TGAGTTG
**
17118743 ATTTTGAAAAACAAAAATTAAAA
1 AAATT-AAAAACAAAAATTAAAA
17118766 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 8 0.09
72 73 0.86
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:17118860 original size:122 final size:124
Alignment explanation
Indices: 17118640--17118886 Score: 401
Period size: 122 Copynumber: 2.0 Consensus size: 124
17118630 GCGTGACCTG
*
17118640 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
17118705 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
17118765 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
17118827 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
17118886 A
1 A
17118887 ATACCTCAAC
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
121 16 0.14
122 64 0.56
123 7 0.06
124 1 0.01
125 27 0.23
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:17118908 original size:71 final size:70
Alignment explanation
Indices: 17118765--17118939 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 70
17118755 AAAAATTAAA
* * * * * *
17118765 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
17118829 CCCCG
66 CCCCG
*
17118834 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
17118899 GTCTTG
65 GCCCCG
17118905 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
17118940 CCCTTGAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.06
71 61 0.66
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:17127155 original size:12 final size:12
Alignment explanation
Indices: 17127135--17127206 Score: 135
Period size: 12 Copynumber: 6.0 Consensus size: 12
17127125 TGGGATATGC
*
17127135 AATGTATGAATG
1 AATGCATGAATG
17127147 AATGCATGAATG
1 AATGCATGAATG
17127159 AATGCATGAATG
1 AATGCATGAATG
17127171 AATGCATGAATG
1 AATGCATGAATG
17127183 AATGCATGAATG
1 AATGCATGAATG
17127195 AATGCATGAATG
1 AATGCATGAATG
17127207 TCAAATGAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (12 bp):
AATGCATGAATG
Done.