Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 279 of 313
Found at i:85285245 original size:10 final size:10
Alignment explanation
Indices: 85285230--85285278 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
85285220 AATTTTAGTT
*
85285230 TTTATCTTTG
1 TTTATCTTTA
85285240 TTTATCTTTA
1 TTTATCTTTA
*
85285250 ATTATCTTTA
1 TTTATCTTTA
85285260 TTTAT-TTGTA
1 TTTATCTT-TA
85285270 TTTATCTTT
1 TTTATCTTT
85285279 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:85287734 original size:3 final size:3
Alignment explanation
Indices: 85287726--85287856 Score: 72
Period size: 3 Copynumber: 44.0 Consensus size: 3
85287716 TAAATTAATA
* * * * *
85287726 TAT TAT TAT TACT TAT TAT T-T TAC TAC TAT TAT TAT TGT CAT GAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
85287771 TAT CAC TAT TAT TAT TAC T-T TAC TAT TAT AAT T-T AAT GTAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
** *
85287815 CGT TAT TAT TAT TAT TAT TAC TAT T-T TCAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
85287857 CTTCATACTA
Statistics
Matches: 96, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
2 6 0.06
3 83 0.86
4 7 0.07
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:85287795 original size:41 final size:41
Alignment explanation
Indices: 85287729--85287839 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 41
85287719 ATTAATATAT
* * *
85287729 TATTATTACTTATTATT-TTAC--TACTATTATTATTGTCATG
1 TATTATCAC-TATTATTATTACTTTACTATTATAATT-TAATG
85287769 -ATTATCACTATTATTATTACTTTACTATTATAATTTAATG
1 TATTATCACTATTATTATTACTTTACTATTATAATTTAATG
* ** *
85287809 TATTGTCGTTATTATTATTATTATTACTATT
1 TATTATCACTATTATTATTACT-TTACTATT
85287840 TTCATTATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
38 7 0.12
39 11 0.19
40 4 0.07
41 29 0.49
42 8 0.14
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (41 bp):
TATTATCACTATTATTATTACTTTACTATTATAATTTAATG
Found at i:85287861 original size:18 final size:18
Alignment explanation
Indices: 85287825--85287862 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
85287815 CGTTATTATT
*
85287825 ATTATTATTACTATTTTC
1 ATTATTATTACTATCTTC
*
85287843 ATTATTATTATTATCTTC
1 ATTATTATTACTATCTTC
85287861 AT
1 AT
85287863 ACTAAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTATTATTACTATCTTC
Found at i:85287966 original size:7 final size:7
Alignment explanation
Indices: 85287918--85287977 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
85287908 TCTTTTTGTG
85287918 TTTATTTA
1 TTTA-TTA
*
85287926 TTTATTGT
1 TTTATT-A
85287934 TTTATTA
1 TTTATTA
*
85287941 TTAATTAA
1 TTTATT-A
*
85287949 TTTAGTA
1 TTTATTA
85287956 -TTATTA
1 TTTATTA
85287962 TTTATTA
1 TTTATTA
85287969 TTTATTA
1 TTTATTA
85287976 TT
1 TT
85287978 GTCCTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
6 5 0.12
7 23 0.53
8 15 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:85288183 original size:3 final size:3
Alignment explanation
Indices: 85288177--85288223 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
85288167 ATTGTCAATA
85288177 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
85288224 CTACTGTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:85288774 original size:33 final size:33
Alignment explanation
Indices: 85288729--85288795 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
85288719 GGCAATGATC
85288729 CGTATTTAGAATTTCGAGAAAATCGTGCCCTAA
1 CGTATTTAGAATTTCGAGAAAATCGTGCCCTAA
*
85288762 CGTATTTGGAATTTCGAGAAAATCGTGCCCTAA
1 CGTATTTAGAATTTCGAGAAAATCGTGCCCTAA
85288795 C
1 C
85288796 TTACTGGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (33 bp):
CGTATTTAGAATTTCGAGAAAATCGTGCCCTAA
Found at i:85289592 original size:20 final size:21
Alignment explanation
Indices: 85289555--85289596 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
85289545 GATTCATGCA
85289555 TAAGTTTAGAAGAAACACATG
1 TAAGTTTAGAAGAAACACATG
*
85289576 TAAGTTTAG-ATAAACACATG
1 TAAGTTTAGAAGAAACACATG
85289596 T
1 T
85289597 TAAAATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
TAAGTTTAGAAGAAACACATG
Found at i:85292634 original size:23 final size:24
Alignment explanation
Indices: 85292599--85292643 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
85292589 TCTTTACCCC
*
85292599 TTTTGTTACTTTT-GTCTTTAACTT
1 TTTTATTACTTTTAG-CTTTAACTT
85292623 TTTTATTA-TTTTAGCTTTAAC
1 TTTTATTACTTTTAGCTTTAAC
85292644 CATTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.18, C:0.11, G:0.07, T:0.64
Consensus pattern (24 bp):
TTTTATTACTTTTAGCTTTAACTT
Found at i:85295398 original size:30 final size:32
Alignment explanation
Indices: 85295326--85295398 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 32
85295316 ATAAATAATG
85295326 AAACAATTTT-AAATAAGTAATTCATAAAAAA
1 AAACAATTTTAAAATAAGTAATTCATAAAAAA
* **
85295357 AAAGAGCTTTAAAAT-AG-ATATT-ATAAAAAA
1 AAACAATTTTAAAATAAGTA-ATTCATAAAAAA
85295387 AAACAATTTTAA
1 AAACAATTTTAA
85295399 GGGAATAGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
30 18 0.53
31 12 0.35
32 4 0.12
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (32 bp):
AAACAATTTTAAAATAAGTAATTCATAAAAAA
Found at i:85295915 original size:7 final size:7
Alignment explanation
Indices: 85295905--85295933 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
85295895 GTACAAATTG
85295905 AAAATAA
1 AAAATAA
85295912 AAAATAA
1 AAAATAA
85295919 AAAATAA
1 AAAATAA
85295926 AAAA-AA
1 AAAATAA
85295932 AA
1 AA
85295934 CTAAAGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAATAA
Found at i:85296598 original size:19 final size:19
Alignment explanation
Indices: 85296566--85296604 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85296556 AAATAGAAAT
* * *
85296566 AAGAAAATAGGAAATCGAA
1 AAGAAAAAAAGAAAGCGAA
85296585 AAGAAAAAAAGAAAGCGAA
1 AAGAAAAAAAGAAAGCGAA
85296604 A
1 A
85296605 TCAACCTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (19 bp):
AAGAAAAAAAGAAAGCGAA
Found at i:85297355 original size:43 final size:44
Alignment explanation
Indices: 85297308--85297390 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
85297298 TAGACTTGTA
*
85297308 GCTTCAA-CTTGCTCCACTGC-ACTTCAGAGAGACAAGATTTGCG
1 GCTTCAATC-TGCTCCACTACAACTTCAGAGAGACAAGATTTGCG
* *
85297351 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 GCTTCAATCTGCTCCACTACAACTTCAGAGAGACAAGATT
85297391 CACCATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTACAACTTCAGAGAGACAAGATTTGCG
Found at i:85297669 original size:86 final size:86
Alignment explanation
Indices: 85297442--85297953 Score: 412
Period size: 86 Copynumber: 5.9 Consensus size: 86
85297432 TATAAGACTT
* * ** * *
85297442 GTGGCTTTAATCTG-TCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTC-AGCCTACTCCAC
1 GTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGA-TCTGCTCCAC
* *
85297505 TACTACTAAGGGAGATAGGATG
65 TACTGCTTAGGGAGATAGGATG
* * *
85297527 GTGGCTTAAATCTGTTCCACTACTGCTTAAGGG-GACAAGATTTGCCGTCTTGGATCTGCTCCAC
1 GTGGCTTAAATCTGCTCCACTACTGCTT-AGGGAGACAAGATTTGCCATCTTCGATCTGCTCCAC
*
85297591 TACTGCTTAGGAAGATAGGATG
65 TACTGCTTAGGGAGATAGGATG
* *
85297613 GTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCTACT
1 GTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACT
*
85297678 ACTGCTTAGGGAGATAAGAT-
66 ACTGCTTAGGGAGATAGGATG
* ** * ** * * * * * * ** *
85297698 CTACAATCTTCAGCCTACTCCGCTACTGCTTAGGGAGATAGGATGGTG---GCTTAAATTTGCTC
1 GT---GGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGAT-TTGCCATCTTCGATCTGCTC
* **
85297760 CACTACTGCTTAGGGAGACAAAAT-
62 CACTACTGCTTAGGGAGATAGGATG
* * ** * * * * * * * *
85297784 TTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTC-AGCCTACTC
1 GTG---GCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGA-TCTGCTC
85297848 CACTACTGCTTAGGGAGATAGGATG
62 CACTACTGCTTAGGGAGATAGGATG
* * * * * *
85297873 GTGCCTTAAATCTACTCCATTACTGCTTGGGGAGACAAGATTTGCCGTCTTTGATCTGCTCCACT
1 GTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACT
85297938 ACTGCTTAGGGAGATA
66 ACTGCTTAGGGAGATA
85297954 AGATCTACAA
Statistics
Matches: 336, Mismatches: 74, Indels: 33
0.76 0.17 0.07
Matches are distributed among these distances:
85 19 0.06
86 249 0.74
87 7 0.02
88 57 0.17
89 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (86 bp):
GTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAGGATG
Found at i:85297670 original size:130 final size:130
Alignment explanation
Indices: 85297585--85298113 Score: 860
Period size: 130 Copynumber: 4.1 Consensus size: 130
85297575 CTTGGATCTG
* * *
85297585 CTCCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
*
85297650 AGATTTGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* * *
85297715 CTCCGCTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * *
85297780 AAATTTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* * *
85297845 CTCCACTACTGCTTAGGGAGATAGGATGGTGCCTTAAATCTACTCCATTACTGCTTGGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* *
85297910 AGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
*
85297975 CTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * * * * *
85298040 CGATTTGTCTTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCCAACCTA
66 AGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
85298105 CTCCACTAC
1 CTCCACTAC
85298114 CGCTGATACG
Statistics
Matches: 369, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 369 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (130 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
AGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
Found at i:85297899 original size:216 final size:215
Alignment explanation
Indices: 85297456--85297913 Score: 510
Period size: 216 Copynumber: 2.1 Consensus size: 215
85297446 CTTTAATCTG
* * * * *
85297456 TCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTCAGCCTACTCCACTACTACTAAGGGAGAT
1 TCCACTACTGCTTAGGGAGACAAGATCTACAATCGTCAGCCTACTCCACTACTACTAAGGGAGAT
* * * *
85297521 AGGATGGTGGCTTAAATCTGTTCCACTACTGCTTAAGGGGACAAGATTTGCCGTCTTGGATCTGC
66 AGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGGGACAAAATTTGCCATCTTCGATCTGC
* * * * * *
85297586 TCCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACAA
131 TCCACTACTGCTTAGGAAGATAAGATGCTAGCTTAAACCTACTCCACTACTGCTTAGGGAGACAA
* ** *
85297651 GATTTGCCATCTTCGATCTGC
196 GATGTGCCA-CTTAAATCTAC
* * * * * *
85297672 TCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTACTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGACAAGATCTACAATCGTCAGCCTACTCCACTACTACTAAGGGAGAT
*
85297737 AGGATGGTGGCTTAAATTTGCTCCACTACTGCTT-AGGGAGACAAAATTTGCCATCTTCGATCTG
66 AGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGG-GACAAAATTTGCCATCTTCGATCTG
* * * * * *
85297801 CTCCACTATTTCTTAGGGAGATAAGAT-CTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAG
130 CTCCACTACTGCTTAGGAAGATAAGATGCT---AGCTTAAACCTACTCCACTACTGCTTAGGGAG
* *
85297865 ATAGGATGGTG-C-CTTAAATCTAC
192 ACAAGAT-GTGCCACTTAAATCTAC
* *
85297888 TCCATTACTGCTTGGGGAGACAAGAT
1 TCCACTACTGCTTAGGGAGACAAGAT
85297914 TTGCCGTCTT
Statistics
Matches: 199, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
215 5 0.03
216 161 0.81
218 31 0.16
219 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (215 bp):
TCCACTACTGCTTAGGGAGACAAGATCTACAATCGTCAGCCTACTCCACTACTACTAAGGGAGAT
AGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAAGGGGACAAAATTTGCCATCTTCGATCTGC
TCCACTACTGCTTAGGAAGATAAGATGCTAGCTTAAACCTACTCCACTACTGCTTAGGGAGACAA
GATGTGCCACTTAAATCTAC
Found at i:85298021 original size:86 final size:85
Alignment explanation
Indices: 85297666--85298087 Score: 325
Period size: 86 Copynumber: 4.9 Consensus size: 85
85297656 GCCATCTTCG
* *
85297666 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
*
85297731 GGAGATAGGATGGTGGCTTAA
66 GGAGATAAGAT-GTGGCTTAA
* * * * * * * * * *
85297752 ATTTGCTCCACTACTGCTTAGGGAGACAAAATTTGCCATCTTC-GATCTGCTCCACTATTTCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG-CCTACTCCACTACTGCTTA
* ** *
85297816 GGGAGATAAGATCTACAATCTTCA
65 GGGAGATAAGATGT---GGCTTAA
** * * * * * ** * *
85297840 GCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGC---CTTAAATCTACTCCATTACTGCTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACAATCTTCAGCCTACTCCACTACTGCTTA
* * **
85297902 GGGAGACAAGATTTGCCGTCTTTG
65 GGGAGATAAGATGTG--G-CTTAA
*
85297926 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
*
85297991 GGAGATAGGATGGTGGCTTAA
66 GGAGATAAGAT-GTGGCTTAA
* * * * * * *
85298012 ATCTACTCCACTACTGCTTAGGGAGACACGATTTGTC-TTCTTC-GATCTACTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAG-CCTACTCCACTACTGCTT
85298075 AGGGAGATAAGAT
64 AGGGAGATAAGAT
85298088 CTACAATCTC
Statistics
Matches: 257, Mismatches: 64, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
85 5 0.02
86 187 0.73
87 2 0.01
88 58 0.23
89 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (85 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
GGAGATAAGATGTGGCTTAA
Found at i:85298106 original size:44 final size:43
Alignment explanation
Indices: 85297456--85298113 Score: 375
Period size: 44 Copynumber: 15.2 Consensus size: 43
85297446 CTTTAATCTG
* * * ** **
85297456 TCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTCAGCCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTG-CATCTTCAATCTAC
* * * * * * **
85297500 TCCACTACTACTAAGGGAGATAGGATGGTG--GCTTAAATCTGT
1 TCCACTACTGCTTAGGGAGATAAGAT-CTGCATCTTCAATCTAC
* * * ** *
85297542 TCCACTACTGCTTAAGGG-GACAAGATTTGCCGTCTTGGATCTGC
1 TCCACTACTGCTT-AGGGAGATAAGATCTG-CATCTTCAATCTAC
* * * * * *
85297586 TCCACTACTGCTTAGGAAGATAGGATGGTG--GCTTAAATCTGC
1 TCCACTACTGCTTAGGGAGATAAGAT-CTGCATCTTCAATCTAC
* * * * *
85297628 TCCACTATTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGATCTG-CATCTTCAATCTAC
* * **
85297672 TCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGC-ATCTTCAATCTAC
* * * * * * *
85297716 TCCGCTACTGCTTAGGGAGATAGGATGGTG--GCTTAAATTTGC
1 TCCACTACTGCTTAGGGAGATAAGAT-CTGCATCTTCAATCTAC
* * * * *
85297758 TCCACTACTGCTTAGGGAGACAAAATTTGCCATCTTCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGATCTG-CATCTTCAATCTAC
* * * **
85297802 TCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAGCCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGC-ATCTTCAATCTAC
* * *
85297846 TCCACTACTGCTTAGGGAGATAGGATGGTGC--CTTAAATCTAC
1 TCCACTACTGCTTAGGGAGATAAGAT-CTGCATCTTCAATCTAC
* * * * * ** *
85297888 TCCATTACTGCTTGGGGAGACAAGATTTGCCGTCTTTGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGATCTG-CATCTTCAATCTAC
* **
85297932 TCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGC-ATCTTCAATCTAC
* * * * *
85297976 TCCACTACTACTTAGGGAGATAGGATGGTG--GCTTAAATCTAC
1 TCCACTACTGCTTAGGGAGATAAGAT-CTGCATCTTCAATCTAC
* * * * *
85298018 TCCACTACTGCTTAGGGAGACACGATTTGTCTTCTTCGATCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTG-CATCTTCAATCTAC
* * *
85298062 TCCACTACTGCTTAGGGAGATAAGATCTACAATCTCCAACCTAC
1 TCCACTACTGCTTAGGGAGATAAGATCTGC-ATCTTCAATCTAC
85298106 TCCACTAC
1 TCCACTAC
85298114 CGCTGATACG
Statistics
Matches: 461, Mismatches: 127, Indels: 52
0.72 0.20 0.08
Matches are distributed among these distances:
41 10 0.02
42 142 0.31
43 11 0.02
44 290 0.63
45 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGCATCTTCAATCTAC
Found at i:85299526 original size:44 final size:43
Alignment explanation
Indices: 85299337--85299850 Score: 231
Period size: 44 Copynumber: 11.7 Consensus size: 43
85299327 GGTGGCTTAA
* * * * *
85299337 ATCTACTCCACTACTGCTTAGGGAGACAAGATTCGCCATTTTC
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTC
* * ** * * * *
85299380 GATCTGCTCTACTGCAACTTCAGGGGGACAAGATCT-ACAATCTTC
1 -ATCTGCTCCACTACTGCTT-AGGGAGACAAGATTTGTC-GTCTTC
* * * * * * *
85299425 AGCCTACTCCACTACTGCTTTAGGGAGATAGGA-TGGT-GGCTTAA
1 A-TCTGCTCCACTACTGC-TTAGGGAGACAAGATTTGTCGTCTT-C
*
85299469 ATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTC
* * * * *
85299512 GATCTGCTCCACTACTGCTTAGGAAGATAAGATCT-ACAATCTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTC-GTCTTC
* * * * * * *
85299556 AGCCTACTCCACTACTGCTTAGGAAGATAAGATCT-ACAATCTTC
1 A-TCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTC-GTCTTC
* * * * * * * *
85299600 AGCCTACTCCACTACTGTTTAGGGAGATAGGA-TGGT-GGCTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTT-C
* * * * *
85299643 ATCTGCTCCACTGCTGCTTAGGAAGACAAGATTCGCCGTCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTC-TTC
* * * * *
85299687 ATCTGCTCCACT-GTAACTTCAGGGAGACAAGATCT-ACAATCTTC
1 ATCTGCTCCACTACT-GCTT-AGGGAGACAAGATTTGTC-GTCTTC
* * * * * * *
85299731 AGCCTACTCCACTACTGCTTTAGGGAGATAGGA-TGGT-GGCTTAA
1 A-TCTGCTCCACTACTGC-TTAGGGAGACAAGATTTGTCGTCTT-C
85299775 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTC
* *
85299818 GATCTGCTCCACTACTGCTTAGGAAGATAAGAT
1 -ATCTGCTCCACTACTGCTTAGGGAGACAAGAT
85299851 CTGTGAATTT
Statistics
Matches: 353, Mismatches: 90, Indels: 54
0.71 0.18 0.11
Matches are distributed among these distances:
42 49 0.14
43 46 0.13
44 181 0.51
45 72 0.20
46 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTC
Found at i:85299600 original size:175 final size:176
Alignment explanation
Indices: 85299409--85299760 Score: 566
Period size: 174 Copynumber: 2.0 Consensus size: 176
85299399 TCAGGGGGAC
85299409 AAGATCTACAATCTTCAGCCTACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTG
1 AAGATCTACAATCTTCAGCCTACTCCACTACTG-TTTAGGGAGATAGGATGGTGGCTTAAATCTG
* * * *
85299474 CTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTCGATCTGCTCCACTACT-GCTT-AGGAA
65 CTCCACTACTGCTTAGGAAGACAAAATTCGCCGTCTTCGATCTGCTCCACT-CTAACTTCAGGAA
*
85299537 GATAAGATCTACAATCTTCAGCCTACTCCACTACTGC-TTAGGAAGAT
129 GACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTTAGGAAGAT
85299584 AAGATCTACAATCTTCAGCCTACTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
1 AAGATCTACAATCTTCAGCCTACTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
* * * * *
85299649 TCCACTGCTGCTTAGGAAGACAAGATTCGCCGTCTTTGATCTGCTCCACTGTAACTTCAGGGAGA
66 TCCACTACTGCTTAGGAAGACAAAATTCGCCGTCTTCGATCTGCTCCACTCTAACTTCAGGAAGA
*
85299714 CAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTTAGGGAGAT
131 CAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTTAGGAAGAT
85299760 A
1 A
85299761 GGATGGTGGC
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
173 1 0.01
174 79 0.48
175 73 0.45
176 10 0.06
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (176 bp):
AAGATCTACAATCTTCAGCCTACTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
TCCACTACTGCTTAGGAAGACAAAATTCGCCGTCTTCGATCTGCTCCACTCTAACTTCAGGAAGA
CAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTTAGGAAGAT
Found at i:85299610 original size:132 final size:132
Alignment explanation
Indices: 85299406--85299852 Score: 405
Period size: 132 Copynumber: 3.4 Consensus size: 132
85299396 ACTTCAGGGG
* * * **
85299406 GACAAGATCT-ACAATCTTCAG-CCTACTCCACTACTGCTTTAGGGAGATAGGATGGT---GGCT
1 GACAAGATCTCACAATCTTCAGACCTACTCCACTACTGC-TTAGGAAGATAAGAT-CTACAATCT
* ** * * * * **
85299466 TAAATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCT
64 TCAGCCTACTCCACTACTGCTTAGGGAGACAAGA-TGGT-GGCTTAAATCTGCTCCACTACTGCT
85299531 TAGGAA
127 TAGGAA
*
85299537 GATAAGATCT-ACAATCTTCAG-CCTACTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTC
1 GACAAGATCTCACAATCTTCAGACCTACTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTC
* * * *
85299600 AGCCTACTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCTGCTTAGG
66 AGCCTACTCCACTACTGCTTAGGGAGACAAGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGG
85299665 AA
131 AA
* ** * * * * * * *
85299667 GACAAGAT-TCGCCGTCTT-TGATCTGCTCCACT-GTAACTTCAGGGAGACAAGATCTACAATCT
1 GACAAGATCTCACAATCTTCAGACCTACTCCACTACT-GCTT-AGGAAGATAAGATCTACAATCT
* *
85299729 TCAGCCTACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
64 TCAGCCTACTCCACTACTGC-TTAGGGAGACAAGATGGTGGCTTAAATCTGCTCCACTACTGCTT
*
85299794 AGGGA
128 AGGAA
* ** * * *
85299799 GACAAGATTTGTC-GTCTTC-GATCTGCTCCACTACTGCTTAGGAAGATAAGATCT
1 GACAAGATCTCACAATCTTCAGACCTACTCCACTACTGCTTAGGAAGATAAGATCT
85299853 GTGAATTTAC
Statistics
Matches: 266, Mismatches: 39, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
129 4 0.02
130 64 0.24
131 91 0.34
132 104 0.39
133 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (132 bp):
GACAAGATCTCACAATCTTCAGACCTACTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTC
AGCCTACTCCACTACTGCTTAGGGAGACAAGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGG
AA
Found at i:85303813 original size:18 final size:19
Alignment explanation
Indices: 85303777--85303814 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
85303767 ATATGATAAA
*
85303777 ATGCAATGCAAATACAAAG
1 ATGCAATGCAAAAACAAAG
*
85303796 ATGC-ATGCAAAAAGAAAG
1 ATGCAATGCAAAAACAAAG
85303814 A
1 A
85303815 GAGGCGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (19 bp):
ATGCAATGCAAAAACAAAG
Found at i:85307456 original size:34 final size:34
Alignment explanation
Indices: 85307417--85307491 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
85307407 GCATATGTTT
* *
85307417 TATATAAATATTTTCTTTTAAATCCATTTATGTA
1 TATATAAATACTTTCTTCTAAATCCATTTATGTA
* **
85307451 TATATATATACTTTCTTCTAAATTTATTTATGTA
1 TATATAAATACTTTCTTCTAAATCCATTTATGTA
85307485 -A-ATAAAT
1 TATATAAAT
85307492 TTCTTTCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 5 0.14
33 1 0.03
34 29 0.83
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (34 bp):
TATATAAATACTTTCTTCTAAATCCATTTATGTA
Found at i:85318049 original size:16 final size:17
Alignment explanation
Indices: 85318018--85318051 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
85318008 AGATAAAAAT
*
85318018 GAATACTACGATATAAA
1 GAATAATACGATATAAA
85318035 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
85318051 G
1 G
85318052 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:85318713 original size:72 final size:72
Alignment explanation
Indices: 85318594--85318771 Score: 165
Period size: 72 Copynumber: 2.5 Consensus size: 72
85318584 TGATATACAT
* * *
85318594 AACATATATATAAAAAAAATAGATAATATAAAAATGAAACATAATAAAGATTATATAATAAAATG
1 AACATATATAGAAAAAAAATAGATAATATAAAAATGAAACATAATAAACAATATAT-ATAAAA-G
85318659 TAA-T-ATA
64 TAATTAATA
* *
85318666 AACATATA-AGAAAAAAAATA-ATAGATATAATATGAA-GTAACAT-ATAAACAATATATATATA
1 AACATATATAGAAAAAAAATAGATA-ATATAA-A--AATGAAACATAATAAACAATATATATAAA
85318727 AGTAATTAATA
62 AGTAATTAATA
*
85318738 AACATAATATATGAAAATATAATA-AT-ATATAAAA
1 AACAT-ATATA-GAAAA-AAAATAGATAATATAAAA
85318772 GAGATGTAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
70 7 0.08
71 24 0.27
72 28 0.31
73 10 0.11
74 9 0.10
75 5 0.06
76 7 0.08
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (72 bp):
AACATATATAGAAAAAAAATAGATAATATAAAAATGAAACATAATAAACAATATATATAAAAGTA
ATTAATA
Found at i:85318829 original size:10 final size:10
Alignment explanation
Indices: 85318798--85318830 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
85318788 ATTTAAGAAA
85318798 AATAATATAT
1 AATAATATAT
85318808 AATAAGTA-AT
1 AATAA-TATAT
85318818 AATAATATAT
1 AATAATATAT
85318828 AAT
1 AAT
85318831 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:85318829 original size:17 final size:18
Alignment explanation
Indices: 85318798--85318841 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
85318788 ATTTAAGAAA
85318798 AATAAT-ATATAATAAGT
1 AATAATAATATAATAAGT
*
85318815 AATAATAATAT-ATAATT
1 AATAATAATATAATAAGT
*
85318832 AAAAATAATA
1 AATAATAATA
85318842 CTTATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATAATAAGT
Found at i:85318838 original size:20 final size:21
Alignment explanation
Indices: 85318756--85318841 Score: 78
Period size: 20 Copynumber: 4.3 Consensus size: 21
85318746 ATATGAAAAT
85318756 ATAATAATATATAA--AAGAGA
1 ATAATAATATATAATTAAGA-A
*
85318776 TGTAA-AATA-ATAATTTAAGAA
1 -ATAATAATATATAA-TTAAGAA
*
85318797 A-AATAATATATAA-TAAGTA
1 ATAATAATATATAATTAAGAA
85318816 ATAATAATATATAATTAA-AA
1 ATAATAATATATAATTAAGAA
85318836 ATAATA
1 ATAATA
85318842 CTTATAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
19 12 0.22
20 27 0.50
21 11 0.20
22 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATAATAATATATAATTAAGAA
Found at i:85318856 original size:37 final size:32
Alignment explanation
Indices: 85318779--85318857 Score: 77
Period size: 37 Copynumber: 2.2 Consensus size: 32
85318769 AAAGAGATGT
*
85318779 AAAATAATAATTTAAGAAAAATAATATATAAT
1 AAAATAATAATTTAAGAAAAATAATATATAAC
*
85318811 AAGTAATAATAATATATAATTAAAAATAATACTTATAAC
1 AA--AATAATAAT-T-TAA-GAAAAATAATA--TATAAC
85318850 AAAATAAT
1 AAAATAAT
85318858 TTTATAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 2 0.05
34 9 0.24
35 1 0.03
36 3 0.08
37 16 0.42
39 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAATAATAATTTAAGAAAAATAATATATAAC
Found at i:85320575 original size:83 final size:84
Alignment explanation
Indices: 85320435--85320619 Score: 293
Period size: 83 Copynumber: 2.2 Consensus size: 84
85320425 CGATTTGTGG
* * * *
85320435 GGATGCTAAATCAACTTGAGTCTGTTTTGAGAACATCTGTGAGTCAAATCTGCTACGTCCTT-GA
1 GGATGCCAAACCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCTACGT-CTTCGA
85320499 TTTGTTCCTTGTAAGCACAA
65 TTTGTTCCTTGTAAGCACAA
* *
85320519 GGATGCCAAACCATCTTGAGTCTG-TTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCGAT
1 GGATGCCAAACCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCTTCGAT
85320583 TTGTTCCTTGTAAGCACAA
66 TTGTTCCTTGTAAGCACAA
85320602 GGATGCCAAACCATCTTG
1 GGATGCCAAACCATCTTG
85320620 GATCTACTTC
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
82 3 0.03
83 70 0.74
84 21 0.22
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (84 bp):
GGATGCCAAACCATCTTGAGTCTGTTTTGAGAACATCTGAGAGTCAAATCTGCTACGTCTTCGAT
TTGTTCCTTGTAAGCACAA
Found at i:85320754 original size:119 final size:119
Alignment explanation
Indices: 85320543--85321488 Score: 1750
Period size: 119 Copynumber: 7.9 Consensus size: 119
85320533 CTTGAGTCTG
* * * * *
85320543 TTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85320608 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
85320662 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85320727 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
85320781 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85320846 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
85320900 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85320965 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
85321019 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85321084 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
85321138 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85321203 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
85321257 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
85321322 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
* * * *
85321376 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
* * * **
85321441 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCT
66 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGT-TAGATCT
85321489 GTTGTCTTCA
Statistics
Matches: 812, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
118 2 0.00
119 810 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCGTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
Found at i:85332920 original size:16 final size:17
Alignment explanation
Indices: 85332889--85332922 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
85332879 GATAAAAAAT
*
85332889 GAATACTACGATATAAA
1 GAATAATACGATATAAA
85332906 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
85332922 G
1 G
85332923 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:85333715 original size:20 final size:21
Alignment explanation
Indices: 85333633--85333718 Score: 69
Period size: 20 Copynumber: 4.3 Consensus size: 21
85333623 ATATGAAAAT
85333633 ATAATAATATATAA--AAGAGA
1 ATAATAATATATAATTAAGA-A
*
85333653 TGTAA-AATA-ATAATTTAAGAA
1 -ATAATAATATATAA-TTAAGAA
* *
85333674 A-AATAGTATATAA-TAAGTA
1 ATAATAATATATAATTAAGAA
85333693 ATAATAATATATAATTAA-AA
1 ATAATAATATATAATTAAGAA
85333713 ATAATA
1 ATAATA
85333719 CTTATAACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
19 12 0.23
20 25 0.48
21 11 0.21
22 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
ATAATAATATATAATTAAGAA
Found at i:85345225 original size:17 final size:18
Alignment explanation
Indices: 85345193--85345227 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85345183 CAAAAAATTA
*
85345193 TAAAATTTATTTAAAAAG
1 TAAAAATTATTTAAAAAG
85345211 TAAAAATTA-TTAAAAAG
1 TAAAAATTATTTAAAAAG
85345228 GTATAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TAAAAATTATTTAAAAAG
Found at i:85346878 original size:20 final size:21
Alignment explanation
Indices: 85346836--85346880 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
85346826 GTGGAAGTCT
* *
85346836 ACACGCCCATGTGGAAGAGGC
1 ACACGCCCATCTGGAAGAAGC
85346857 ACACGCCCATCT-GAAGAAGC
1 ACACGCCCATCTGGAAGAAGC
85346877 ACAC
1 ACAC
85346881 ACCTGTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.33, C:0.33, G:0.24, T:0.09
Consensus pattern (21 bp):
ACACGCCCATCTGGAAGAAGC
Found at i:85348710 original size:103 final size:104
Alignment explanation
Indices: 85348531--85348795 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
85348521 AACCGTTATT
* * * *
85348531 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
85348596 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
85348634 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
85348698 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
85348738 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
85348796 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:85349157 original size:30 final size:29
Alignment explanation
Indices: 85349123--85349187 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
85349113 TAATCCACCA
85349123 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
85349153 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
85349183 CCCAA
1 CCCAA
85349188 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:85349161 original size:31 final size:30
Alignment explanation
Indices: 85349130--85349187 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
85349120 CCACCCAACT
85349130 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
85349160 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
85349188 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:85356202 original size:103 final size:104
Alignment explanation
Indices: 85356023--85356287 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
85356013 AACCGTTATT
* * * *
85356023 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
85356088 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
85356126 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
85356191 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
85356230 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
85356288 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:85356649 original size:30 final size:29
Alignment explanation
Indices: 85356615--85356679 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
85356605 TAATCCACCA
85356615 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
85356645 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
85356675 CCCAA
1 CCCAA
85356680 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:85356653 original size:31 final size:30
Alignment explanation
Indices: 85356622--85356679 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
85356612 CCACCCAACT
85356622 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
85356652 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
85356680 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:85358455 original size:18 final size:18
Alignment explanation
Indices: 85358415--85358457 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
85358405 TTGGAAATTA
*
85358415 GTAAAAAATATTAGAAAT
1 GTAAAAAATATTACAAAT
*
85358433 ATAAAAAATA-TACAAAT
1 GTAAAAAATATTACAAAT
85358450 GGTAAAAA
1 -GTAAAAA
85358458 GAAATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
GTAAAAAATATTACAAAT
Found at i:85360502 original size:147 final size:139
Alignment explanation
Indices: 85360340--85360639 Score: 428
Period size: 140 Copynumber: 2.1 Consensus size: 139
85360330 AAAGGAAGGC
*
85360340 ATATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATAT
1 ATATAATATAATAATAATATTAAAATAAAGTAATAAAAAATAATAC--TATAT--ATA-A-ATAT
* * * *
85360405 ATATACACATATAATAAAAACATACACTAATATTAATAATGATAATAATACTA-ACAATAGTAAT
60 ATATACACATATAAT-AAAACATACACTAATAATAATAATAATAATAATAATAGA-AATAATAAT
85360469 GAAATACAAAAAAAGTAA
123 GAAATACAAAAAAA-TAA
85360487 ATATAATATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATAC
1 ATATAATATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATAC
* *
85360552 ATATATAATAAAACATATACTAATAATAATAATAATAATAATAATAGAAATAATAATGAAATACA
66 ACATATAATAAAACATACACTAATAATAATAATAATAATAATAATAGAAATAATAATGAAATACA
85360617 AAAAAATAA
131 AAAAAATAA
85360626 A-ATAATA-AA-AATAA
1 ATATAATATAATAATAA
85360640 ACATAAAAAT
Statistics
Matches: 145, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
136 5 0.03
137 2 0.01
138 6 0.04
139 4 0.03
140 55 0.38
141 19 0.13
142 1 0.01
143 3 0.02
145 5 0.03
147 45 0.31
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.30
Consensus pattern (139 bp):
ATATAATATAATAATAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATATATAC
ACATATAATAAAACATACACTAATAATAATAATAATAATAATAATAGAAATAATAATGAAATACA
AAAAAATAA
Found at i:85360505 original size:6 final size:6
Alignment explanation
Indices: 85360489--85360783 Score: 99
Period size: 6 Copynumber: 49.0 Consensus size: 6
85360479 AAAAGTAAAT
* *
85360489 ATAAT- ATAATA ATAATA TTAA-A ATAA-A GTAATA A-AA-A ATAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * *
85360532 CT-ATA TATAA-A TATATATA CATATATA ATAA-A ACATATA CTAATA
1 ATAATA -ATAATA -ATA-ATA -ATA-ATA ATAATA ATA-ATA ATAATA
* * *
85360577 ATAATA ATAATA ATAATA ATAGA-A ATAATA ATGA-A ATACAAA AAAATA
1 ATAATA ATAATA ATAATA ATA-ATA ATAATA ATAATA ATA-ATA ATAATA
* *
85360625 A-AATA ATAAAA ATAA-A CATAAAA ATAA-A CATAA-A CATAAT- ATAATA
1 ATAATA ATAATA ATAATA -ATAATA ATAATA -ATAATA -ATAATA ATAATA
* * * *
85360671 ATAATA TTAA-A ATAA-A GTAATTA AAAATA ATACT- ATATATAA ATATATA
1 ATAATA ATAATA ATAATA ATAA-TA ATAATA ATAATA ATA-AT-A ATA-ATA
* *
85360720 TATACCTA TATAATA A-AA-A CATACACTA ATATTA ATAATA ATAATA
1 -ATA-ATA -ATAATA ATAATA -ATA-A-TA ATAATA ATAATA ATAATA
* *
85360766 ATACTA ATAGTA ATAATA
1 ATAATA ATAATA ATAATA
85360784 TTGAAATACA
Statistics
Matches: 227, Mismatches: 32, Indels: 61
0.71 0.10 0.19
Matches are distributed among these distances:
4 3 0.01
5 53 0.23
6 125 0.55
7 19 0.08
8 26 0.11
9 1 0.00
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (6 bp):
ATAATA
Found at i:85360569 original size:20 final size:19
Alignment explanation
Indices: 85360517--85360580 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
85360507 TAAAATAAAG
85360517 TAATAAAAAATAATACTATA
1 TAATAAAAAAT-ATACTATA
*
85360537 T-ATAAATATATATACATATA
1 TAATAAA-AAATATAC-TATA
*
85360557 TAATAAAACATATACTA-A
1 TAATAAAAAATATACTATA
85360575 TAATAA
1 TAATAA
85360581 TAATAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 7 0.18
19 11 0.28
20 16 0.41
21 5 0.13
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAAAAAATATACTATA
Found at i:85360587 original size:12 final size:12
Alignment explanation
Indices: 85360432--85360783 Score: 100
Period size: 12 Copynumber: 29.2 Consensus size: 12
85360422 AAACATACAC
*
85360432 TAATATTAATAA
1 TAATAATAATAA
* *
85360444 TGATAATAATAC
1 TAATAATAATAA
* *
85360456 TAACAATAGTAA
1 TAATAATAATAA
* *
85360468 TGA-AATACAAAA
1 TAATAATA-ATAA
*
85360480 AAAGTAA-ATATAA
1 TAA-TAATA-ATAA
85360493 T-ATAATAATAA
1 TAATAATAATAA
*
85360504 TATTAA-AATAA
1 TAATAATAATAA
*
85360515 -AGTAATAA-AA
1 TAATAATAATAA
*
85360525 -AATAATACT-A
1 TAATAATAATAA
85360535 TATATAA-ATATATA
1 TA-ATAATA-ATA-A
85360549 TACATATATAATAA
1 TA-ATA-ATAATAA
* *
85360563 -AACATATACTAA
1 TAATA-ATAATAA
85360575 TAATAATAATAA
1 TAATAATAATAA
85360587 TAATAATAATAGA
1 TAATAATAATA-A
*
85360600 -AATAATAATGA
1 TAATAATAATAA
* *
85360611 -AATACAAAAAAA
1 TAATA-ATAATAA
85360623 TAA-AATAATAA
1 TAATAATAATAA
*
85360634 AAATAA-ACATAA
1 TAATAATA-ATAA
*
85360646 AAATAA-ACATAA
1 TAATAATA-ATAA
85360658 -ACATAAT-ATAA
1 TA-ATAATAATAA
*
85360669 TAATAATATTAA
1 TAATAATAATAA
*
85360681 -AATAA-AGTAA
1 TAATAATAATAA
* *
85360691 TTAAAAATAATAC
1 -TAATAATAATAA
85360704 T-ATATATAAATATA
1 TAATA-AT-AATA-A
*
85360718 TATATACCTATATAA
1 TA-ATA-ATA-ATAA
85360733 TAA-AA-ACATACA
1 TAATAATA-ATA-A
*
85360745 CTAATATTAATAA
1 -TAATAATAATAA
*
85360758 TAATAATAATAC
1 TAATAATAATAA
*
85360770 TAATAGTAATAA
1 TAATAATAATAA
85360782 TA
1 TA
85360784 TTGAAATACA
Statistics
Matches: 255, Mismatches: 48, Indels: 74
0.68 0.13 0.20
Matches are distributed among these distances:
10 17 0.07
11 55 0.22
12 128 0.50
13 23 0.09
14 15 0.06
15 9 0.04
16 8 0.03
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (12 bp):
TAATAATAATAA
Found at i:85360603 original size:18 final size:17
Alignment explanation
Indices: 85360489--85360702 Score: 115
Period size: 18 Copynumber: 12.2 Consensus size: 17
85360479 AAAAGTAAAT
*
85360489 ATAATATAATAATAATA
1 ATAAAATAATAATAATA
* *
85360506 TTAAAATAA-AGTAATA
1 ATAAAATAATAATAATA
*
85360522 A-AAAATAATACT-ATA
1 ATAAAATAATAATAATA
85360537 TATAAATATATATACATATATA
1 -ATAAA-ATA-ATA-ATA-ATA
* *
85360559 ATAAAACATATACTAATA
1 ATAAAATA-ATAATAATA
85360577 ATAATAATAATAATAATA
1 ATAA-AATAATAATAATA
85360595 ATAGAAATAATAATGAAATA
1 ATA-AAATAATAAT--AATA
85360615 CA-AAAA-AATAA-AATA
1 -ATAAAATAATAATAATA
*
85360630 ATAAAAATAA-ACATAAAA
1 AT-AAAATAATA-ATAATA
85360648 ATAAACATAA-ACATAAT-
1 ATAAA-ATAATA-ATAATA
*
85360665 ATAATAATAATATTAA-A
1 ATAA-AATAATAATAATA
* *
85360682 ATAAAGTAATTAAAAATA
1 ATAAAATAA-TAATAATA
85360700 ATA
1 ATA
85360703 CTATATATAA
Statistics
Matches: 157, Mismatches: 16, Indels: 47
0.71 0.07 0.21
Matches are distributed among these distances:
14 1 0.01
15 14 0.09
16 18 0.11
17 35 0.22
18 56 0.36
19 12 0.08
20 12 0.08
21 6 0.04
22 3 0.02
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAATAATAATAATA
Found at i:85360834 original size:146 final size:148
Alignment explanation
Indices: 85360661--85360932 Score: 401
Period size: 152 Copynumber: 1.8 Consensus size: 148
85360651 AACATAAACA
85360661 TAATATAATAATAATATTAAAATAAAGTAATT-AAAAATAATACTATATATAAATAT-AT-ATAT
1 TAATATAATAATAATATTAAAATAAAGTAATTAAAAAATAATACTATATATAAATATAATAATAT
*
85360723 ACCTATATAAT-AAAAACATACACTAATATTAATAATAATAATAATACTAATAGTAATAATATTG
66 ACCTATATAATAAAAAACATACACTAATA-T-ATAATAATAATAATACTAATAATAATAATATTG
85360787 AAATACAAAAGAAGCAAATG
129 AAATACAAAAGAAGCAAATG
*
85360807 TAATATAATAGA-AATATTAAAATAAAGTAATTAAAAAAATAATACTATGTATAAATATAAATAC
1 TAATATAATA-ATAATATTAAAATAAAGTAATT-AAAAAATAATACTATATATAAATAT-AATA-
* * *
85360871 ATATACGTATATAATAAAAAAATATACACTAATATATAATAATAATAATAGTAATAATAATA
62 ATATACCTATATAAT-AAAAAACATACACTAATATATAATAATAATAATACTAATAATAATA
85360933 TAAAAAATAA
Statistics
Matches: 112, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
146 30 0.27
147 1 0.01
148 23 0.21
150 2 0.02
152 39 0.35
153 1 0.01
154 16 0.14
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (148 bp):
TAATATAATAATAATATTAAAATAAAGTAATTAAAAAATAATACTATATATAAATATAATAATAT
ACCTATATAATAAAAAACATACACTAATATATAATAATAATAATACTAATAATAATAATATTGAA
ATACAAAAGAAGCAAATG
Found at i:85360914 original size:3 final size:3
Alignment explanation
Indices: 85360900--85360956 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
85360890 AAATATACAC
*
85360900 TAA TATA TAA TAA TAA TAA TAG TAA TAA TAA T-A TAA -AA -AA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
85360943 AAA TAA AAA TAA TA
1 TAA TAA TAA TAA TA
85360957 GTGTTAGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:85363556 original size:88 final size:88
Alignment explanation
Indices: 85363444--85363875 Score: 598
Period size: 88 Copynumber: 4.9 Consensus size: 88
85363434 GCCATCATCC
* *
85363444 TAACCCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGCAG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
* *
85363509 AGCAGATTGAAGACGGTGAGCCT
66 AGTAGATCGAAGACGGTGAGCCT
* * *
85363532 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATATCCCTATGCAGTAG-TG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
*
85363596 AAGCAGATCGAAGACGGTGAGCCT
66 -AGTAGATCGAAGACGGTGAGCCT
* * * * * * *
85363620 TAACACCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCTCCTTATGCAGTAGCGG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
*
85363685 AGTAGATAGAAGACGGTGAGCCT
66 AGTAGATCGAAGACGGTGAGCCT
* * * * *
85363708 TAACCCCCTAAACAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCTTAAGCAGTAGCGG
1 TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
*
85363773 AGTAGATCGAAGACCGTGAGCCT
66 AGTAGATCGAAGACGGTGAGCCT
* * * *
85363796 TAATCCCCTAAGTAGTAGGGTAAC-AGACCGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA
1 TAACCCCCTAAGCAGTAGGGTAACAAG-CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCA
85363860 GAGTAGATCGAAGACG
65 GAGTAGATCGAAGACG
85363876 ACGAATCTTG
Statistics
Matches: 308, Mismatches: 33, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 305 0.99
89 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
TAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAG
AGTAGATCGAAGACGGTGAGCCT
Found at i:85363673 original size:44 final size:44
Alignment explanation
Indices: 85363625--85363769 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
85363615 AGCCTTAACA
85363625 CCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCT
1 CCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCT
* ** * * *** * * *
85363669 CCTTATGCAGTAGCGG-AGTA-GATAGAAGACGGT-GAGCCTTAACC
1 CCTTAAGCAGTAG-GGTAACAGGCT-GAAAATTATAGA-TCTTATCT
* * * *
85363713 CCCTAAACAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCT
1 CCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCT
85363757 CCTTAAGCAGTAG
1 CCTTAAGCAGTAG
85363770 CGGAGTAGAT
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
43 6 0.09
44 55 0.82
45 6 0.09
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (44 bp):
CCTTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCT
Found at i:85363884 original size:44 final size:44
Alignment explanation
Indices: 85363748--85364166 Score: 236
Period size: 44 Copynumber: 9.6 Consensus size: 44
85363738 GAAATTACAG
* * *
85363748 ATCTTATCTCCTTAAGCAGTAGCGGAGTAGATCGAAGACCG-TGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGACGA
** * ** * * **
85363792 GCCTTAATC-CCCTAAGTAGTAG-GGTAACAGACCGAAAATTAC-A
1 ATCTT-ATCTCCCTAAGCAGTAGTGG-AGTAGATCGAAGACGACGA
*
85363835 GATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGACGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGA
* ** * *
85363880 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAG-CCAC-C
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGA
* * *
85363922 ATCCTATCTCCCTAAGCAGTAGTGGAGTA-AGCTGAAGATTGTA-G-
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC-GAAGA-CG-ACGA
* * *
85363966 ATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGA
** * * ** * *
85364010 ATCTTGCCTCCCTAAGTAGTAGTGGAGCAGATTTAAG-CCAC-T
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGA
* * * * *
85364052 ATCCTATCTTCCTAAGCAGTAGTGGAGTA-AGCTAA-A-GATTGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGA-CG-A
* * ** *
85364095 GATCTTATCTCCCTCAGCAGTAGTGGAGCAGATCGAAGATAACAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGA
* * * *
85364140 ATTTTGTTTTCCTAAGCAGTAGTGGAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAG
85364167 CATATTTAAG
Statistics
Matches: 278, Mismatches: 74, Indels: 46
0.70 0.19 0.12
Matches are distributed among these distances:
40 1 0.00
41 5 0.02
42 53 0.19
43 13 0.05
44 191 0.69
45 13 0.05
46 1 0.00
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGA
Found at i:85363959 original size:86 final size:86
Alignment explanation
Indices: 85363840--85363997 Score: 214
Period size: 86 Copynumber: 1.8 Consensus size: 86
85363830 TTACAGATCT
*
85363840 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGA-CG-ACGAATCTTGTCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATCGTA-G-ATCTTATCTCCCTAAGCAGTAGT
*
85363903 GGAGTAGATTTAAGCCACCATCC
64 GGAGCAGATTTAAGCCACCATCC
* * * *
85363926 TATCTCCCTAAGCAGTAGTGGAGTA-AGCTGAAGATTGTAGATCTTATCTCCTTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTAGAGTAGATC-GAAGATCGTAGATCTTATCTCCCTAAGCAGTAGTG
85363990 GAGCAGAT
65 GAGCAGAT
85363998 CGAAGACGGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.03
86 58 0.92
87 2 0.03
88 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (86 bp):
TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATCGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATTTAAGCCACCATCC
Found at i:85364234 original size:130 final size:130
Alignment explanation
Indices: 85363834--85364208 Score: 570
Period size: 130 Copynumber: 2.9 Consensus size: 130
85363824 CGAAAATTAC
* *
85363834 AGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
*
85363899 TAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTGAAGATTGT
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTGAAGATTGT
* * * *
85363964 AGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTGCCTCCCTAAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
* * *
85364029 TAGTGGAGCAGATTTAAGCCACTATCCTATCTTCCTAAGCAGTAGTGGAGTAAGCTAAAGATTGT
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTGAAGATTGT
* ** * * * *
85364094 AGATCTTATCTCCCTCAGCAGTAGTGGAGCAGATCGAAGATAACAAATTTTGTTTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
* * *
85364159 TAGTGGAGCATATTTAAGCCACCATCCTATCTCCCTAAACAATAGTGGAG
66 TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAG
85364209 CAGGTTGAAA
Statistics
Matches: 219, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
130 219 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (130 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTGTCTCCCTAAGCAG
TAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTGAAGATTGT
Found at i:85364337 original size:88 final size:88
Alignment explanation
Indices: 85364222--85365122 Score: 1130
Period size: 88 Copynumber: 10.3 Consensus size: 88
85364212 GTTGAAATCA
** *
85364222 ACAATTCGTATCTAATTGAAGTTCCAGCGGAGTAGATTGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
85364287 TGACAATGAAGCGGCTCGAAGCC
66 TGGCATTGAAGCGGCTCGAAGCC
85364310 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTA-AAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
85364374 TGGCATTGGAGCGGCTCGAAGCC
66 TGGCATTGAAGCGGCTCGAAGCC
* * * * * * *
85364397 ACAGTTCGTATCTCTTTGAAGTTCCAGTGGAGTAGATCGAGGCTACAAATCCCTTCTCCTTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* **
85364462 TGGCATTGGAGCGATTCGAAGCC
66 TGGCATTGAAGCGGCTCGAAGCC
* * * * * *
85364485 ACAGTTGGTATCTCCTTGAAGTTTCATCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGATA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
85364550 TTGTATTGAAACGGCTCGAAGCC
66 TGGCATTGAAGCGGCTCGAAGCC
* * * * *
85364573 ACAGTTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCAAAGCTACAAATCTATTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
85364638 TGGTATT-AGAGCGGCTCTAAGCC
66 TGGCATTGA-AGCGGCTCGAAGCC
** * * ** * * *
85364661 ACAATTTTTATCTCTTTGAAATTTTAGCGGAGTAGATTGAAACTATAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
85364726 TGGCATTGGAGCGGCTTGAAGCC
66 TGGCATTGAAGCGGCTCGAAGCC
* * *
85364749 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAAACTGTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
85364814 TGGCATTGGAA-CAGCTCGAAGCC
66 TGGCATT-GAAGCGGCTCGAAGCC
* * * *
85364837 GCAATTCGTATCTCTTTGAAGTT-CATGCGGAGTAGATCGAGGCTACAAATCTTTTCTCCCTGAA
1 ACAATTCGTATCTCCTTGAAGTTCCA-GCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
* *
85364901 ATGGCATTGGAGCGACTCGAAGCC
65 ATGGCATTGAAGCGGCTCGAAGCC
* *
85364925 ACAATTTGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
85364990 TGGTATTGGAA-CGGCTCAAAGCC
66 TGGCATT-GAAGCGGCTCGAAGCC
* *
85365013 ACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTGCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
85365078 TGGCATTGGAGC-GATTGAAGCC
66 TGGCATTGAAGCGGCTCGAAGCC
** * *
85365100 ACAAACCTTATCTCCCTGAAGTT
1 ACAATTCGTATCTCCTTGAAGTT
85365123 ACAGTGGGGC
Statistics
Matches: 704, Mismatches: 100, Indels: 19
0.86 0.12 0.02
Matches are distributed among these distances:
87 114 0.16
88 584 0.83
89 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCATTGAAGCGGCTCGAAGCC
Found at i:85364393 original size:43 final size:43
Alignment explanation
Indices: 85364260--85364395 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
85364250 GGAGTAGATT
*
85364260 GAAGCTACAAATCTCTTCTCCCTGAAATGACAATGAAGCGGCTC
1 GAAGCTA-AAATCTCTTCTCCCTGAAATGACAATGGAGCGGCTC
* * * * ** ** ** *
85364304 GAAGCCACAAT-TCGTATCTCCTTGAAGTTCCAGCGGAGTAGATC
1 GAAGCTAAAATCTC-T-TCTCCCTGAAATGACAATGGAGCGGCTC
* *
85364348 GAAGCTAAAATCTCTTCTCCCTGAAATGGCATTGGAGCGGCTC
1 GAAGCTAAAATCTCTTCTCCCTGAAATGACAATGGAGCGGCTC
85364391 GAAGC
1 GAAGC
85364396 CACAGTTCGT
Statistics
Matches: 66, Mismatches: 23, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
42 2 0.03
43 28 0.42
44 34 0.52
45 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (43 bp):
GAAGCTAAAATCTCTTCTCCCTGAAATGACAATGGAGCGGCTC
Found at i:85365288 original size:45 final size:45
Alignment explanation
Indices: 85365239--85365345 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
85365229 AAGCTATAAA
* *
85365239 CCTTATCCCCCTGAAGTTGT-AATAGGGCAGGTTAAAGTTACGAGT
1 CCTTATCCCCCTGAAGTT-TCAATAGGGCAAGTTAAAGTTACAAGT
* * *
85365284 CCTTATCCCTCTGAAGTTTCAGTAGGGCAAGTTGAAGTTACAAGT
1 CCTTATCCCCCTGAAGTTTCAATAGGGCAAGTTAAAGTTACAAGT
*
85365329 -CTTATCTCCCTGAAGTT
1 CCTTATCCCCCTGAAGTT
85365346 ACAGTGGAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 16 0.30
45 38 0.70
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
CCTTATCCCCCTGAAGTTTCAATAGGGCAAGTTAAAGTTACAAGT
Found at i:85366509 original size:36 final size:36
Alignment explanation
Indices: 85366468--85366556 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
85366458 TATAACACTA
* *
85366468 CCAAAACGTCGCCGTTTCATTTAGTTGCAAAACACC
1 CCAAAACGGCACCGTTTCATTTAGTTGCAAAACACC
*
85366504 CCAAAACGGCATCGTTTCATTTAGTTGCAAAACACC
1 CCAAAACGGCACCGTTTCATTTAGTTGCAAAACACC
*
85366540 CCAAAACGGCATCGTTT
1 CCAAAACGGCACCGTTT
85366557 AGGCGCCAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (36 bp):
CCAAAACGGCACCGTTTCATTTAGTTGCAAAACACC
Found at i:85367079 original size:10 final size:10
Alignment explanation
Indices: 85367064--85367153 Score: 99
Period size: 10 Copynumber: 8.6 Consensus size: 10
85367054 TTGCTATATG
85367064 TATATACATA
1 TATATACATA
85367074 TATATACATA
1 TATATACATA
85367084 TGTATATACATA
1 --TATATACATA
* *
85367096 TGTATATATA
1 TATATACATA
*
85367106 CATATACATA
1 TATATACATA
85367116 TATATACATA
1 TATATACATA
85367126 TGTATATACATA
1 --TATATACATA
**
85367138 TATATGTATA
1 TATATACATA
85367148 TATATA
1 TATATA
85367154 TTTTAATTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
10 47 0.70
12 20 0.30
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (10 bp):
TATATACATA
Found at i:85367087 original size:22 final size:22
Alignment explanation
Indices: 85367059--85367142 Score: 127
Period size: 22 Copynumber: 3.9 Consensus size: 22
85367049 TTTATTTGCT
85367059 ATATGTATATACATATATATAC
1 ATATGTATATACATATATATAC
*
85367081 ATATGTATATACATATGTAT--
1 ATATGTATATACATATATATAC
**
85367101 ATATACATATACATATATATAC
1 ATATGTATATACATATATATAC
85367123 ATATGTATATACATATATAT
1 ATATGTATATACATATATAT
85367143 GTATATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.31
22 37 0.69
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (22 bp):
ATATGTATATACATATATATAC
Found at i:85367115 original size:42 final size:42
Alignment explanation
Indices: 85367065--85367153 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
85367055 TGCTATATGT
*
85367065 ATATACATATATATACATATGTATATACATATGTATATATAC
1 ATATACATATATATACATATGTATATACATATATATATATAC
* *
85367107 ATATACATATATATACATATGTATATACATATATATGTATAT
1 ATATACATATATATACATATGTATATACATATATATATATAC
85367149 ATATA
1 ATATA
85367154 TTTTAATTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (42 bp):
ATATACATATATATACATATGTATATACATATATATATATAC
Found at i:85367147 original size:6 final size:6
Alignment explanation
Indices: 85367058--85367154 Score: 86
Period size: 6 Copynumber: 16.2 Consensus size: 6
85367048 GTTTATTTGC
* * * * * *
85367058 TATATG TATATA CATATA TATACA TATGTA TATACA TATGTA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * * * *
85367106 CATATA CATATA TATACA TATGTA TATACA TATATA TGTATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
85367154 T
1 T
85367155 TTTAATTCTT
Statistics
Matches: 70, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:85367148 original size:22 final size:22
Alignment explanation
Indices: 85367058--85367154 Score: 126
Period size: 22 Copynumber: 4.5 Consensus size: 22
85367048 GTTTATTTGC
85367058 TATATGTATATACATATATATA
1 TATATGTATATACATATATATA
* *
85367080 CATATGTATATACATATGTATA
1 TATATGTATATACATATATATA
*
85367102 TATA--CATATACATATATATA
1 TATATGTATATACATATATATA
* *
85367122 CATATGTATATACATATATATG
1 TATATGTATATACATATATATA
*
85367144 TATATATATAT
1 TATATGTATAT
85367155 TTTAATTCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 17 0.27
22 46 0.73
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
TATATGTATATACATATATATA
Found at i:85367260 original size:22 final size:22
Alignment explanation
Indices: 85367235--85367282 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
85367225 TTTACGCCTT
* * *
85367235 TATTGTTATTAATTTTTTTATC
1 TATTATTATTAATTTATTCATC
85367257 TATTATTATTAATTTATTCATC
1 TATTATTATTAATTTATTCATC
85367279 TATT
1 TATT
85367283 TGTTTATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTATTAATTTATTCATC
Found at i:85372766 original size:11 final size:11
Alignment explanation
Indices: 85372750--85372789 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
85372740 TATTTTCTTA
85372750 TATTTTGCTAC
1 TATTTTGCTAC
* *
85372761 TATTTTACTAT
1 TATTTTGCTAC
*
85372772 TATATTGCTAC
1 TATTTTGCTAC
85372783 TATTTTG
1 TATTTTG
85372790 TTGTTATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:85372871 original size:30 final size:30
Alignment explanation
Indices: 85372831--85372889 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
85372821 TTTTATTGTT
*
85372831 ATTTTTTTATTATTTTA-AAGACATTTGCTA
1 ATTTTGTTATTATTTTAGAA-ACATTTGCTA
85372861 ATTTTGTTATTATTTTAGAAACATTTGCT
1 ATTTTGTTATTATTTTAGAAACATTTGCT
85372890 TGTTAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (30 bp):
ATTTTGTTATTATTTTAGAAACATTTGCTA
Found at i:85373041 original size:12 final size:11
Alignment explanation
Indices: 85373011--85373043 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
85373001 TATATTTTTT
85373011 AAAATAATATA
1 AAAATAATATA
85373022 AAAATAATATA
1 AAAATAATATA
85373033 AAAATTAATAT
1 AAAA-TAATAT
85373044 GGGCGGATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATAATATA
Found at i:85376297 original size:21 final size:21
Alignment explanation
Indices: 85376273--85376312 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85376263 GACCTAAATT
85376273 TTAAAGTTC-GAAAAATAAAGA
1 TTAAAGTTCTG-AAAATAAAGA
*
85376294 TTAAATTTCTGAAAATAAA
1 TTAAAGTTCTGAAAATAAA
85376313 AATATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
TTAAAGTTCTGAAAATAAAGA
Found at i:85377248 original size:9 final size:10
Alignment explanation
Indices: 85377225--85377270 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
85377215 ACTTCTACTT
*
85377225 TTTTTTTGAA
1 TTTTTATGAA
85377235 TTTTTATGAA
1 TTTTTATGAA
85377245 TTTTTTAT-ATA
1 -TTTTTATGA-A
85377256 TTTTT-TGAA
1 TTTTTATGAA
85377265 TTTTTA
1 TTTTTA
85377271 AAAGTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTTTATGAA
Found at i:85377278 original size:29 final size:30
Alignment explanation
Indices: 85377226--85377292 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
85377216 CTTCTACTTT
* * *
85377226 TTTTTTGAATTTTTATGAATTTTTTATATA
1 TTTTTTGAATTTTTATAAAGTTTTAATATA
*
85377256 TTTTTTGAATTTTTA-AAAGTTTTAATTTA
1 TTTTTTGAATTTTTATAAAGTTTTAATATA
*
85377285 TTTATTGA
1 TTTTTTGA
85377293 TGACGCATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.64
Consensus pattern (30 bp):
TTTTTTGAATTTTTATAAAGTTTTAATATA
Found at i:85380562 original size:24 final size:22
Alignment explanation
Indices: 85380516--85380588 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 22
85380506 TATAAATTGT
*
85380516 AATATATATTAGTATTAGAATATTA
1 AATA-ATATTA-T-TTAAAATATTA
* *
85380541 ACATAATATTTTTTAATAATATATT
1 A-ATAATATTATTTAA-AATAT-TA
85380566 AATAATATTATTTAAAATTATTA
1 AATAATATTATTTAAAA-TATTA
85380589 TAGTTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
23 6 0.15
24 22 0.56
25 8 0.21
26 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
AATAATATTATTTAAAATATTA
Found at i:85380747 original size:21 final size:22
Alignment explanation
Indices: 85380715--85380757 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
85380705 ATATTTAATA
85380715 ATATTAAATATTATAATATTTG
1 ATATTAAATATTATAATATTTG
*
85380737 ATATT-AATATTTTAATATTTG
1 ATATTAAATATTATAATATTTG
85380758 TAGAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTAAATATTATAATATTTG
Found at i:85382390 original size:17 final size:18
Alignment explanation
Indices: 85382354--85382402 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
85382344 TTAAACTCCT
**
85382354 TAAAATTATAAAAATTTA
1 TAAAATTATAAAAAGATA
85382372 TAAAATT-TAAAAAGATA
1 TAAAATTATAAAAAGATA
85382389 T-AAATTATAAAAAG
1 TAAAATTATAAAAAG
85382403 TCAAATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 5 0.18
17 16 0.57
18 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TAAAATTATAAAAAGATA
Found at i:85386898 original size:20 final size:21
Alignment explanation
Indices: 85386850--85386898 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
85386840 GAATTAATTA
*
85386850 AAATTTTAAAATTAATTTTTT
1 AAATTTTTAAATTAATTTTTT
* *
85386871 ATAGTTTTAAA-TAATTTTTT
1 AAATTTTTAAATTAATTTTTT
85386891 AAATTTTT
1 AAATTTTT
85386899 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
AAATTTTTAAATTAATTTTTT
Found at i:85388470 original size:16 final size:16
Alignment explanation
Indices: 85388445--85388476 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85388435 TTAGTTTATA
*
85388445 ATTAATCATAATTAAC
1 ATTAAGCATAATTAAC
85388461 ATTAAGCATAATTAAC
1 ATTAAGCATAATTAAC
85388477 CAATTTGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTAAGCATAATTAAC
Found at i:85391255 original size:181 final size:181
Alignment explanation
Indices: 85390950--85391318 Score: 621
Period size: 181 Copynumber: 2.0 Consensus size: 181
85390940 TATTTTATGT
* * *
85390950 AAATTTGACGGTGGGTGCTCCGACAACAAATGTAGCATTCTATAGCTCGGACCCAGTGGCCGGGT
1 AAATTTGACGGTGGGTGCTCCGACAACAAATGTAGCATCCTATAGCTCAGACCCAGTGACCGGGT
* * *
85391015 TGGGCGAGGAGTGCTATAGAATCCCAAATGATTTAAGAATTATTTAAGCTAGGCAACCTCTTGCA
66 TGGGCGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
*
85391080 CTGCAATAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
131 CTGCAAGAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
* *
85391131 AAATTTGACGGTGGGTGCTCCGACAACGAATGTAGCATCCTGTAGCTCAGACCCAGTGACCGGGT
1 AAATTTGACGGTGGGTGCTCCGACAACAAATGTAGCATCCTATAGCTCAGACCCAGTGACCGGGT
*
85391196 TGGGTGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
66 TGGGCGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
* *
85391261 CTGCAAGAAAAGTTCTCACAAACTCAACTTCCATTGTGGACAATGCAATAC
131 CTGCAAGAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
*
85391312 AAGTTTG
1 AAATTTG
85391319 TTTCATACTG
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 175 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (181 bp):
AAATTTGACGGTGGGTGCTCCGACAACAAATGTAGCATCCTATAGCTCAGACCCAGTGACCGGGT
TGGGCGAGGAGTGCTACAGAATCCCAAATGATTCAAGAATTATTTAAGCTAGACAACCTCTTGCA
CTGCAAGAAAAATTCTCACAAACTCAACTTCCATTGTGGACAATACAATAC
Found at i:85392049 original size:21 final size:21
Alignment explanation
Indices: 85391991--85392049 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
85391981 ATATAATATT
85391991 TTAATAAATAAA-AAA-TTAAA
1 TTAATAAA-AAATAAATTTAAA
*
85392011 TTAATAAAAATTAAATTTAAA
1 TTAATAAAAAATAAATTTAAA
*
85392032 -TAATATAAAAATACATTT
1 TTAATA-AAAAATAAATTT
85392050 CAAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 16 0.48
21 15 0.45
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATAAAAAATAAATTTAAA
Found at i:85394616 original size:22 final size:23
Alignment explanation
Indices: 85394565--85394617 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
85394555 AATTTACTAT
* *
85394565 TATCATTATTTATTTTTATATTA
1 TATCATAATTTATTATTATATTA
*
85394588 TAT-ATAATTTATTATTATGTTA
1 TATCATAATTTATTATTATATTA
85394610 T-TCATAAT
1 TATCATAAT
85394618 ATTTATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.85
23 3 0.12
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TATCATAATTTATTATTATATTA
Found at i:85394629 original size:24 final size:26
Alignment explanation
Indices: 85394583--85394656 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 26
85394573 TTTATTTTTA
* *
85394583 TATTATATATAATTTATTA-TTATGT
1 TATTATAAATTATTTATTACTTATGT
85394608 TATTCAT-AA-TATTTA-TACTTATG-
1 TATT-ATAAATTATTTATTACTTATGT
85394631 TATTATAAATTATTTATTAC-TATGT
1 TATTATAAATTATTTATTACTTATGT
85394656 T
1 T
85394657 TACCTCTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
22 2 0.05
23 8 0.20
24 20 0.49
25 9 0.22
26 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TATTATAAATTATTTATTACTTATGT
Found at i:85399410 original size:15 final size:13
Alignment explanation
Indices: 85399376--85399403 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85399366 ACATCAATTA
85399376 ATTTTTTTGATAT
1 ATTTTTTTGATAT
85399389 ATTTTTTTGATAT
1 ATTTTTTTGATAT
85399402 AT
1 AT
85399404 AATTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (13 bp):
ATTTTTTTGATAT
Found at i:85401736 original size:85 final size:86
Alignment explanation
Indices: 85401592--85401762 Score: 274
Period size: 85 Copynumber: 2.0 Consensus size: 86
85401582 CAAACAAGTG
* *
85401592 GTGGCTCGTCCACAAAATCCAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACTCATAACA
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACA
85401657 AGTGGCAATAACTGCAAATAT
66 AGTGGCAATAACTGCAAATAT
* *
85401678 GTGGCTCGTCCAC-AAACCCAGTGGCAGTTTGTTTAATCTGC-AATCATGTTGTGCACTCACAAC
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAAT-ATGTTGTGCACTCACAAC
*
85401741 AAGTGGCAATAATTGCAAATAT
65 AAGTGGCAATAACTGCAAATAT
85401763 TTTTATCTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 3 0.04
85 63 0.80
86 13 0.16
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACTCACAACA
AGTGGCAATAACTGCAAATAT
Found at i:85415577 original size:29 final size:30
Alignment explanation
Indices: 85415509--85415588 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
85415499 AAATATATAT
* *
85415509 ATTAGGAGCTCAATTGATTGTCAACTTTCA
1 ATTAGGGGCTTAATTGATTGTCAACTTTCA
** * *
85415539 ATTAATGGCTTAATTTATTG-CAATTTTCA
1 ATTAGGGGCTTAATTGATTGTCAACTTTCA
85415568 ATTAGGGGCTTAATTGATTGT
1 ATTAGGGGCTTAATTGATTGT
85415589 ATTCTTAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.42
Consensus pattern (30 bp):
ATTAGGGGCTTAATTGATTGTCAACTTTCA
Found at i:85418938 original size:11 final size:11
Alignment explanation
Indices: 85418922--85418947 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
85418912 TTCCTTACTT
85418922 TTTTTTTTCCC
1 TTTTTTTTCCC
85418933 TTTTTTTTCCC
1 TTTTTTTTCCC
85418944 TTTT
1 TTTT
85418948 ATAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCCC
Found at i:85424689 original size:19 final size:19
Alignment explanation
Indices: 85424643--85424695 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
85424633 AGGTTGACTC
85424643 ATATGGCAATCTTAGATATG
1 ATAT-GCAATCTTAGATATG
85424663 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
85424681 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
85424696 AGATATGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.53
19 13 0.41
20 2 0.06
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:85424721 original size:22 final size:22
Alignment explanation
Indices: 85424656--85424718 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
85424646 TGGCAATCTT
85424656 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
85424674 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
85424696 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
85424719 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:85433373 original size:220 final size:220
Alignment explanation
Indices: 85432994--85433936 Score: 1495
Period size: 220 Copynumber: 4.3 Consensus size: 220
85432984 CAGGCTAAAG
* * * * * * * * *
85432994 CATAGCATATTTGACCTTCAGGTGTTTATGCTGAAGCGGATCCAAGATGATTT-AACATTTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGA-ATCTCTGT
* * *
85433058 ATTGTCAGAG----AATCGAAGAAATAGATTTGGCATCTCTATATTTGACGGAGAGCAGATCGAA
65 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
* *
85433119 GACATAGCAGATCTAACCTTTGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 GACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
85433184 TGCGTTGACAAGGAGCAGATCGAAGA
195 TGCGTTGACAAGGAGCAGATCGAAGA
*
85433210 CATAGCAGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCTAAGATGATTTGGAATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGAATCTCTGTA
*
85433275 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
85433340 ACATAGCAGATCTAACCTTTGGATGTCTTCACATCGAAGTAAATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
85433405 GCGTTGACAAGGAGCAGATAGAAGA
196 GCGTTGACAAGGAGCAGATCGAAGA
* * * *
85433430 CATAGCAGATTTGG-TCTTCAGGTGTTTACGCTGAAGCGGATCCAAGATGATTT-AACATCTCTG
1 CATAGCAGATTTGGCT-TTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGA-ATCTCTG
* *
85433493 TATTGTCAGAGAACAAATCAAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGA
64 TATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGA
* *
85433558 AGACATAGCAGATCTAACCTTCGAATGTCTTCACATTGAAGTAGATCCAAGATGATTTGGCATCC
129 AGACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCC
85433623 TTGCGTTGACAAGGAGCAGATCGAAGA
194 TTGCGTTGACAAGGAGCAGATCGAAGA
85433650 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGAATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGAATCTCTGTA
*
85433715 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* * * *
85433780 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTAGGCATCATT
131 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
*
85433845 GCGTTGACAAGGAGCAGATCAAAGA
196 GCGTTGACAAGGAGCAGATCGAAGA
* *
85433870 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATATCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGAATCTCTGTA
85433935 TT
66 TT
85433937 ATACGGGGAG
Statistics
Matches: 672, Mismatches: 46, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
216 61 0.09
217 1 0.00
219 2 0.00
220 606 0.90
221 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGAATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTGACAAGGAGCAGATCGAAGA
Found at i:85434030 original size:78 final size:78
Alignment explanation
Indices: 85433901--85434368 Score: 711
Period size: 78 Copynumber: 6.0 Consensus size: 78
85433891 GTGTTTACGC
* * * *
85433901 TGAAGCAGATCTAAGATGATTTGGCATATCTGTATTATACGGGGAGCAAATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
85433966 ATCTGACCTTCAT
66 ATCTGACCTTCAT
* * * *
85433979 TGAAGTAGATCCAAGATGATTTGGCATATCTGTATTATACGGGGAGCAAATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
85434044 ATCTGACCTTCAT
66 ATCTGACCTTCAT
* ** * * * * *
85434057 TGAAGCAGATCCAAGATGATTTGGCATTTCCATATTCGACTGAGAGCAGATTGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
85434122 ATCTGACCTTCAT
66 ATCTGACCTTCAT
* *
85434135 TGAAGCAGATCCAAGATGATTTGGCATCTGTTTATTAGACGGGGAGCAGATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
*
85434200 ATCTGACCTTTAT
66 ATCTGACCTTCAT
* * *
85434213 TGAAGTAGATCCAAGATGATTTGGTATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
85434278 ATCTGACCTTCAT
66 ATCTGACCTTCAT
* * *
85434291 TGAAGCAGATCCAAGATGATTTGGCATCTGTTTATTAGACGGGGAGCAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
85434356 ATCTGACCTTCAT
66 ATCTGACCTTCAT
85434369 GTGTTTACAT
Statistics
Matches: 357, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 357 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
ATCTGACCTTCAT
Found at i:85434503 original size:89 final size:89
Alignment explanation
Indices: 85434399--85434567 Score: 257
Period size: 89 Copynumber: 1.9 Consensus size: 89
85434389 CCAAGATGAT
* *
85434399 AGATTTGACATCTCTGTATTAGACAGGGAGTAAATCGGAGATAACAGATTTGGCATCTCTGTATT
1 AGATTTGACATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
85434464 AGACAGGGAGCAGATTGAAAAAGC
66 AGACAGGGAGCAGATTGAAAAAGC
* * * * * *
85434488 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCATTTTTGTATT
1 AGATTTGACATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
*
85434553 AGACGGGGAGCAGAT
66 AGACAGGGAGCAGAT
85434568 CAAAGATAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (89 bp):
AGATTTGACATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
AGACAGGGAGCAGATTGAAAAAGC
Found at i:85434574 original size:45 final size:45
Alignment explanation
Indices: 85434382--85434575 Score: 221
Period size: 45 Copynumber: 4.3 Consensus size: 45
85434372 TTTACATCGA
* * * *
85434382 AGCAGATCCAAGATGATAGATTTGACATCTCTGTATTAGACAGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * **
85434427 AGTAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * * *
85434472 AGCAGATTGAAA-A-AGCAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGA-TCAAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * * *
85434516 AGCAGATCGAAGATAACAGATTTGGCATTTTTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
85434561 AGCAGATCAAAGATA
1 AGCAGATCAAAGATA
85434576 GTAGATATCG
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.02
44 35 0.28
45 84 0.68
46 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (45 bp):
AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
Found at i:85435008 original size:17 final size:19
Alignment explanation
Indices: 85434930--85435001 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
85434920 ATAATCTTCA
*
85434930 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
85434949 ATGATAT--AATATTAGAT
1 ATGATATGCAATCTTAGAT
85434966 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
85434984 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
85435002 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.29
18 14 0.29
19 19 0.40
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:85435027 original size:22 final size:22
Alignment explanation
Indices: 85434962--85435024 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
85434952 ATATAATATT
85434962 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
85434980 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
85435002 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
85435025 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:85435326 original size:12 final size:10
Alignment explanation
Indices: 85435291--85435318 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
85435281 TGTTTCCCTG
85435291 TTTTTTTATA
1 TTTTTTTATA
85435301 TTTTTTTATA
1 TTTTTTTATA
85435311 TTTTTTTA
1 TTTTTTTA
85435319 ATAATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:85437610 original size:26 final size:26
Alignment explanation
Indices: 85437581--85437632 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
85437571 AAGGAAACCA
85437581 TTAAGAAATAAGTGCAACATTTATTC
1 TTAAGAAATAAGTGCAACATTTATTC
* *
85437607 TTAAGAAATGAGTGTAACATTTATTC
1 TTAAGAAATAAGTGCAACATTTATTC
85437633 ATGAAACAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (26 bp):
TTAAGAAATAAGTGCAACATTTATTC
Found at i:85444218 original size:15 final size:15
Alignment explanation
Indices: 85444195--85444224 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85444185 CAGAAAAACA
*
85444195 AACATTTAAATAATT
1 AACACTTAAATAATT
85444210 AACACTTAAATAATT
1 AACACTTAAATAATT
85444225 TTACCCAGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
AACACTTAAATAATT
Found at i:85447582 original size:2 final size:2
Alignment explanation
Indices: 85447575--85447599 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85447565 CAAAAATCTT
85447575 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
85447600 TGCATAATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85454234 original size:13 final size:13
Alignment explanation
Indices: 85454218--85454255 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
85454208 TTTAAATCAA
*
85454218 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
*
85454231 ACTTTTCATAAGC
1 ACTTTTCAAAAGC
85454244 ACTTTTCAAAAG
1 ACTTTTCAAAAG
85454256 TAACGAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:85454945 original size:13 final size:14
Alignment explanation
Indices: 85454920--85454948 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85454910 ACTCTCCTGA
85454920 AACATATAAATTTC
1 AACATATAAATTTC
85454934 AACATA-AAATTTC
1 AACATATAAATTTC
85454947 AA
1 AA
85454949 AGTATATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
AACATATAAATTTC
Found at i:85456857 original size:12 final size:12
Alignment explanation
Indices: 85456826--85456859 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
85456816 TCAAATCCAA
*
85456826 ATATCTAAATTC
1 ATATTTAAATTC
85456838 ATTATTTAAATTC
1 A-TATTTAAATTC
85456851 ATATTTAAA
1 ATATTTAAA
85456860 CTCAATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAAATTC
Found at i:85462299 original size:45 final size:45
Alignment explanation
Indices: 85462242--85462456 Score: 168
Period size: 45 Copynumber: 4.8 Consensus size: 45
85462232 TATGCATTTC
* * *
85462242 CGAA-GTAGTGCCACAGTATCTTTCAACTATGGTTTTGA-TCATTAT
1 CGAATGTAATGCCACAGTATCTTTCAACTATGGTCTT-ATTC-GTAT
* * *
85462287 C-AATGTGATGCCATAGTATATTTCAACTATGGTCTTATTCGTAT
1 CGAATGTAATGCCACAGTATCTTTCAACTATGGTCTTATTCGTAT
* * ** * *
85462331 CGGATTTAATGCCACAGTATCTTTCAACTATGGTCTTACACATTT
1 CGAATGTAATGCCACAGTATCTTTCAACTATGGTCTTATTCGTAT
* * * * * * * *
85462376 CTAGTTTAGTGCCATAGTATCTTTCAACTATAGTCTTATTCATTT
1 CGAATGTAATGCCACAGTATCTTTCAACTATGGTCTTATTCGTAT
* * * *
85462421 TG-ATTTAATGTCATAGTATCTTTCAACTATGGTCTT
1 CGAATGTAATGCCACAGTATCTTTCAACTATGGTCTT
85462457 TCTCATTTCG
Statistics
Matches: 138, Mismatches: 29, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
44 37 0.27
45 101 0.73
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (45 bp):
CGAATGTAATGCCACAGTATCTTTCAACTATGGTCTTATTCGTAT
Found at i:85462455 original size:89 final size:90
Alignment explanation
Indices: 85462250--85462465 Score: 260
Period size: 90 Copynumber: 2.4 Consensus size: 90
85462240 TCCGAAGTAG
* * * *
85462250 TGCCACAGTATCTTTCAACTATGGTTTTGA-TCATTATC-AATGT-GATGCCATAGTATATTTCA
1 TGCCACAGTATCTTTCAACTATGGTCTT-ACACATT-TCTAGTTTAG-TGCCATAGTATATTTCA
* *
85462312 ACTATGGTCTTATTCGTATCGGATTTAA
63 ACTATAGTCTTATTCATATCGGATTTAA
*
85462340 TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATCTTTCAACT
1 TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATATTTCAACT
**
85462405 ATAGTCTTATTCAT-TTTGATTTAA
66 ATAGTCTTATTCATATCGGATTTAA
* * * *
85462429 TGTCATAGTATCTTTCAACTATGGTCTTTCTCATTTC
1 TGCCACAGTATCTTTCAACTATGGTCTTACACATTTC
85462466 GGGTAAAATG
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
89 44 0.40
90 65 0.59
91 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.44
Consensus pattern (90 bp):
TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATATTTCAACT
ATAGTCTTATTCATATCGGATTTAA
Found at i:85462501 original size:89 final size:89
Alignment explanation
Indices: 85462250--85462509 Score: 253
Period size: 89 Copynumber: 2.9 Consensus size: 89
85462240 TCCGAAGTAG
* * * * *
85462250 TGCCACAGTATCTTTCAACTATGGTTTTGA-TCATTATCAATGT--GATGCCATAGTATATTTCA
1 TGCCACAGTATCTTTCAACTATGGTCTT-ACACATT-TCGA-GTAAAATGCCATAGTATCTTTCA
* *
85462312 ACTATGGTCTTATTCGTATCGGATTTAA
63 ACTATGGTCTTATTCAT-TTGGATTTAA
* ** *
85462340 TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCTAGTTTAGTGCCATAGTATCTTTCAACT
1 TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCGAGTAAAATGCCATAGTATCTTTCAACT
* *
85462405 ATAGTCTTATTCATTTTGATTTAA
66 ATGGTCTTATTCATTTGGATTTAA
* * * * *
85462429 TGTCATAGTATCTTTCAACTATGGTCTTTCTCATTTCGGGTAAAATGCCAT-GATATCTTTCAA-
1 TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCGAGTAAAATGCCATAG-TATCTTTCAAC
85462492 TCATGGTCTT-TCTCATTT
65 T-ATGGTCTTAT-TCATTT
85462510 CTCGATCCAA
Statistics
Matches: 144, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
88 5 0.03
89 77 0.53
90 62 0.43
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (89 bp):
TGCCACAGTATCTTTCAACTATGGTCTTACACATTTCGAGTAAAATGCCATAGTATCTTTCAACT
ATGGTCTTATTCATTTGGATTTAA
Found at i:85472600 original size:7 final size:7
Alignment explanation
Indices: 85472573--85472613 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
85472563 AAGTAGGTTG
85472573 TATATTA
1 TATATTA
*
85472580 TAT-TTC
1 TATATTA
85472586 TAATATTA
1 T-ATATTA
85472594 TATATTA
1 TATATTA
85472601 TATATTA
1 TATATTA
85472608 T-TATTA
1 TATATTA
85472614 ATTCATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 8 0.27
7 19 0.63
8 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:85475045 original size:39 final size:39
Alignment explanation
Indices: 85474991--85475067 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
85474981 AAGGGAAGAA
*
85474991 AAGAAGAAGAAGAAGAAAGATGATAAAAATGAAGAGGGC
1 AAGAAGAAGAAGAAGAAAGATGATAAAAACGAAGAGGGC
*
85475030 AAGAAGAAGAAGAAGAAAGATGATAAGAACGAAGAGGG
1 AAGAAGAAGAAGAAGAAAGATGATAAAAACGAAGAGGG
85475068 GGATCCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.58, C:0.03, G:0.32, T:0.06
Consensus pattern (39 bp):
AAGAAGAAGAAGAAGAAAGATGATAAAAACGAAGAGGGC
Found at i:85482864 original size:91 final size:87
Alignment explanation
Indices: 85482768--85482982 Score: 209
Period size: 88 Copynumber: 2.4 Consensus size: 87
85482758 CTTAAGGGTG
* * * **
85482768 CAAAAAGCCCTCAAAGTTTTTCAAAAAAAGCAATTAAATCCCTAACTTTTTTTTTGCATTCGTTT
1 CAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAACCCCT-AC--TTTTTTTGCACTCAATT
*
85482833 G-GATACTTGAACATTCAAAATTCAT
63 GAG-TACTTGAACATTCAAAATACAT
* * * * * *
85482858 CAAAAAAACCCTCAAACCTTTTAAAAAAAAACAATTAAGCCCCTACTTTTTTTGTACTCAATTGA
1 C-AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAACCCCTACTTTTTTTGCACTCAATTGA
*
85482923 GTACTTGAACTTTCAAAATACAT
65 GTACTTGAACATTCAAAATACAT
* ** *
85482946 CAAAAAGATCCTCAATTTTTTTC-AAAAAAGTAATTAA
1 CAAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAA
85482983 GCCCTTGCTT
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
87 17 0.17
88 45 0.45
89 1 0.01
90 3 0.03
91 35 0.35
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (87 bp):
CAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAACCCCTACTTTTTTTGCACTCAATTGAG
TACTTGAACATTCAAAATACAT
Found at i:85483100 original size:27 final size:28
Alignment explanation
Indices: 85483070--85483135 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
85483060 TTAACTATTA
*
85483070 AAAATTTATTATAAAT-TAAAAAAATAT
1 AAAATTTATTAGAAATATAAAAAAATAT
** *
85483097 AAAACATA-TAGAAATATAAAAAAGTAT
1 AAAATTTATTAGAAATATAAAAAAATAT
85483124 AAAATTTTATTA
1 AAAA-TTTATTA
85483136 AGTCGTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
26 6 0.20
27 20 0.67
28 2 0.07
29 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTTATTAGAAATATAAAAAAATAT
Found at i:85483128 original size:17 final size:16
Alignment explanation
Indices: 85483090--85483128 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
85483080 ATAAATTAAA
*
85483090 AAAATATAAAACATAT
1 AAAATATAAAAAATAT
85483106 AGAAATATAAAAAAGTAT
1 A-AAATATAAAAAA-TAT
85483124 AAAAT
1 AAAAT
85483129 TTTATTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAATATAAAAAATAT
Found at i:85491710 original size:16 final size:15
Alignment explanation
Indices: 85491689--85491736 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
85491679 GATGTGAATA
85491689 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
85491705 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
85491720 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
85491736 A
1 A
85491737 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:85491712 original size:24 final size:24
Alignment explanation
Indices: 85491685--85491740 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
85491675 TAATGATGTG
*
85491685 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
85491709 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
85491733 AATAATAA
1 AATAATAA
85491741 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:85491719 original size:8 final size:8
Alignment explanation
Indices: 85491685--85491736 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
85491675 TAATGATGTG
*
85491685 AATAATAA
1 AATATTAA
85491693 AATATATAA
1 AATAT-TAA
85491702 AATA-TAA
1 AATATTAA
85491709 AATATTAA
1 AATATTAA
*
85491717 AATATCAA
1 AATATTAA
*
85491725 AATATTAG
1 AATATTAA
85491733 AATA
1 AATA
85491737 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:85503964 original size:9 final size:9
Alignment explanation
Indices: 85503950--85504007 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
85503940 TTTTAAAATC
85503950 AAAATATAT
1 AAAATATAT
85503959 AAAATATAT
1 AAAATATAT
*
85503968 AAAATCTA-
1 AAAATATAT
85503976 AAAATATA-
1 AAAATATAT
*
85503984 ATATATATAT
1 A-AAATATAT
*
85503994 AAAAATTTAT
1 -AAAATATAT
85504004 AAAA
1 AAAA
85504008 ATTATTTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
8 8 0.20
9 26 0.63
10 6 0.15
11 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATATAT
Found at i:85503970 original size:24 final size:26
Alignment explanation
Indices: 85503943--85503997 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
85503933 ATTATCATTT
85503943 TAAAATC-AAAATATATAA-A-ATATA
1 TAAAATCTAAAA-ATATAATATATATA
85503967 TAAAATCTAAAAATATAATATATATA
1 TAAAATCTAAAAATATAATATATATA
85503993 TAAAA
1 TAAAA
85503998 ATTTATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.46
25 5 0.18
26 10 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAAATCTAAAAATATAATATATATA
Found at i:85505618 original size:27 final size:25
Alignment explanation
Indices: 85505585--85505636 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 25
85505575 TTCTCTCCCA
85505585 AAAACTCTCCAAAAAAAATTCCCCCCC
1 AAAACTCTCC-AAAAAAA-TCCCCCCC
85505612 AAAACTCTCCAAAAAAATCCCCCCC
1 AAAACTCTCCAAAAAAATCCCCCCC
85505637 TTTTACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 8 0.32
26 7 0.28
27 10 0.40
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.13
Consensus pattern (25 bp):
AAAACTCTCCAAAAAAATCCCCCCC
Found at i:85505787 original size:30 final size:30
Alignment explanation
Indices: 85505717--85505816 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
85505707 TAGGTACAAG
*
85505717 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* ** * *
85505747 AGGTAATGGAGCAAGTGTGGCTAGTGAATT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
85505777 TGGTGGTGGAG-AAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAA-GTGTGGCTAGTGGAGT
85505807 TGGTGGTGGA
1 TGGTGGTGGA
85505817 AAAGGAGTGG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 56 0.97
ACGTcount: A:0.20, C:0.04, G:0.48, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:85505827 original size:30 final size:30
Alignment explanation
Indices: 85505763--85505831 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
85505753 TGGAGCAAGT
* * *
85505763 GTGGCTAGTGAATTTGGTGGTGGAGAAGGT
1 GTGGCTAGTGAAGTTGGTGGTGGAAAAGGA
*
85505793 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTGAAGTTGGTGGTGGAAAAGGA
85505823 GTGGCTAGT
1 GTGGCTAGT
85505832 TGAGAAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.20, C:0.04, G:0.48, T:0.28
Consensus pattern (30 bp):
GTGGCTAGTGAAGTTGGTGGTGGAAAAGGA
Found at i:85505827 original size:60 final size:60
Alignment explanation
Indices: 85505717--85505831 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
85505707 TAGGTACAAG
* * *
85505717 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGAATT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGTAGGTAATGGAGAAAGAGTGGCTAGTGAATT
* **
85505777 TGGTGGTGGAG-AAGGTGTGGCTAGTGGAGTTGGTGGTGGA-AAAGGAGTGGCTAGT
1 TGGTGGTGGAGCAA-GTGTGGCTAGTGGAGTAGGTAATGGAGAAA-GAGTGGCTAGT
85505832 TGAGAAAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 4 0.09
60 43 0.91
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (60 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGTAGGTAATGGAGAAAGAGTGGCTAGTGAATT
Found at i:85507532 original size:31 final size:32
Alignment explanation
Indices: 85507480--85507546 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 32
85507470 AACCTTATGT
85507480 GTTT-TAAACAACTAATGCGTGAGCTTAAAAA
1 GTTTATAAACAACTAATGCGTGAGCTTAAAAA
85507511 GTTTATAAACAACT-ATGCGTGAGCTTAAAAA
1 GTTTATAAACAACTAATGCGTGAGCTTAAAAA
85507542 GTTTA
1 GTTTA
85507547 GTAAGCGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (32 bp):
GTTTATAAACAACTAATGCGTGAGCTTAAAAA
Found at i:85508245 original size:14 final size:14
Alignment explanation
Indices: 85508226--85508255 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
85508216 AATGAGACTT
85508226 TAAGGATGTTACAA
1 TAAGGATGTTACAA
85508240 TAAGGATGTTACAA
1 TAAGGATGTTACAA
85508254 TA
1 TA
85508256 GTATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
TAAGGATGTTACAA
Found at i:85519820 original size:20 final size:21
Alignment explanation
Indices: 85519797--85519844 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
85519787 GATTAATAGT
*
85519797 GTAGTTTACTCTAAAACTT-A
1 GTAGTTTACCCTAAAACTTAA
85519817 GTAGTTTACCCTAAAACTTAA
1 GTAGTTTACCCTAAAACTTAA
85519838 GTAGTTT
1 GTAGTTT
85519845 TGTACACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
GTAGTTTACCCTAAAACTTAA
Found at i:85521077 original size:17 final size:16
Alignment explanation
Indices: 85521057--85521103 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
85521047 AAATTTAATT
85521057 AAAAAATAAAATTAAC
1 AAAAAATAAAATTAAC
*
85521073 AAAAAAATATAAA-TATC
1 -AAAAAATA-AAATTAAC
*
85521090 AAAAATTAAAATTA
1 AAAAAATAAAATTA
85521104 TCATTATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 11 0.42
18 3 0.12
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATAAAATTAAC
Found at i:85521105 original size:16 final size:16
Alignment explanation
Indices: 85521057--85521106 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
85521047 AAATTTAATT
*
85521057 AAAAAATAAAATTAAC
1 AAAAAATAAAATTATC
85521073 AAAAAAATATAAA-TATC
1 -AAAAAATA-AAATTATC
*
85521090 AAAAATTAAAATTATC
1 AAAAAATAAAATTATC
85521106 A
1 A
85521107 TTATGCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 3 0.10
16 12 0.41
17 11 0.38
18 3 0.10
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATAAAATTATC
Done.