Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 4 of 335
Found at i:1034162 original size:72 final size:72
Alignment explanation
Indices: 1034067--1034213 Score: 233
Period size: 72 Copynumber: 2.0 Consensus size: 72
1034057 CAATTTCTTC
*
1034067 CAAACTTGACATACTCCCCATCCACCTTGGTAGCTCCCCAGAAAGCTTGTTATTGCTTAA-ATCC
1 CAAACTTGACATACTCCCCATCCACCTTGGTAGCTCCCCAGAAAGCTCGTTATTGC-TAACATCC
*
1034131 ATTGTTGA
65 AATGTTGA
* * *
1034139 CAAACTTGACATATTCTCCATCCACCTTGGTATCTCCCCAGAAAGCTCGTTATTGCTAACATCCA
1 CAAACTTGACATACTCCCCATCCACCTTGGTAGCTCCCCAGAAAGCTCGTTATTGCTAACATCCA
1034204 ATGTTGA
66 ATGTTGA
1034211 CAA
1 CAA
1034214 GTAGGAGCAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
71 3 0.04
72 66 0.96
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (72 bp):
CAAACTTGACATACTCCCCATCCACCTTGGTAGCTCCCCAGAAAGCTCGTTATTGCTAACATCCA
ATGTTGA
Found at i:1037785 original size:18 final size:19
Alignment explanation
Indices: 1037750--1037795 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1037740 CTTTTATTTC
*
1037750 ATATATAA-ATAATACAAT
1 ATATATAATTTAATACAAT
*
1037768 -TATATAATTTAATCCAAT
1 ATATATAATTTAATACAAT
*
1037786 ATATTTAATT
1 ATATATAATT
1037796 ATATTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATAATTTAATACAAT
Found at i:1044572 original size:24 final size:23
Alignment explanation
Indices: 1044529--1044576 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
1044519 GTATAAATCA
1044529 TTATTTTAATAATAAAAGTAAAT
1 TTATTTTAATAATAAAAGTAAAT
*
1044552 TTATATTTAA-AATTAAGAGTAAAT
1 TTAT-TTTAATAA-TAAAAGTAAAT
1044576 T
1 T
1044577 ATAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
TTATTTTAATAATAAAAGTAAAT
Found at i:1046562 original size:18 final size:20
Alignment explanation
Indices: 1046518--1046556 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1046508 TAACAATTTT
1046518 AGAGAAAGTTTGAGAGAAAA
1 AGAGAAAGTTTGAGAGAAAA
1046538 AGAGAAA-TTTGAGAGAAAA
1 AGAGAAAGTTTGAGAGAAAA
1046557 GTGAAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (20 bp):
AGAGAAAGTTTGAGAGAAAA
Found at i:1052881 original size:18 final size:18
Alignment explanation
Indices: 1052858--1052893 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1052848 TATAATACTT
*
1052858 TATATTATGTTATTTATA
1 TATATTATGTAATTTATA
1052876 TATATTATGTAATTTATA
1 TATATTATGTAATTTATA
1052894 ACACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTAATTTATA
Found at i:1055859 original size:75 final size:75
Alignment explanation
Indices: 1055740--1055911 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
1055730 CATGGCAAAG
** *
1055740 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
1055799 CCATACTGAGC
65 CCATACCGAGC
1055810 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
1055875 CATACCGAGT
66 CATACCGAGC
***
1055885 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
1055912 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:1055878 original size:35 final size:35
Alignment explanation
Indices: 1055743--1055909 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
1055733 GGCAAAGTGT
* **
1055743 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
1055778 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
1055813 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
1055853 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
1055889 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
1055910 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:1055901 original size:36 final size:35
Alignment explanation
Indices: 1055839--1055909 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
1055829 ATTATCAAAT
* *
1055839 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
1055874 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
1055910 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:1059703 original size:13 final size:13
Alignment explanation
Indices: 1059685--1059714 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1059675 TCACTCTATT
1059685 ATATAACTAAAGA
1 ATATAACTAAAGA
*
1059698 ATATAAGTAAAGA
1 ATATAACTAAAGA
1059711 ATAT
1 ATAT
1059715 TTGTTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (13 bp):
ATATAACTAAAGA
Found at i:1059992 original size:2 final size:2
Alignment explanation
Indices: 1059985--1060009 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1059975 GAGAAACAGC
1059985 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1060010 CAAGATACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1064981 original size:2 final size:2
Alignment explanation
Indices: 1064971--1065009 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1064961 TCTCTCTCTC
*
1064971 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1065010 CCCTCAAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1065770 original size:2 final size:2
Alignment explanation
Indices: 1065763--1065789 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1065753 CCAAAAATGA
1065763 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1065790 CTTTGGGCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1073672 original size:93 final size:93
Alignment explanation
Indices: 1073513--1073683 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
1073503 GCCCATAAGT
* *
1073513 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1073578 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
1073606 GAACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1073671 CGAGTTCGGATGC
66 CGAGTTCGGATGC
1073684 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:1073680 original size:46 final size:46
Alignment explanation
Indices: 1073505--1073680 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
1073495 TGTAACCCGC
* * *
1073505 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
1073551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
1073601 -C-TCA-CGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
1073644 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1073681 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 63 0.58
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:1078366 original size:52 final size:48
Alignment explanation
Indices: 1078304--1078496 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
1078294 GAAATGTGAT
* *
1078304 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
1078356 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
1078403 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
1078449 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
1078497 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 26 0.21
47 54 0.44
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:1078484 original size:93 final size:97
Alignment explanation
Indices: 1078308--1078515 Score: 228
Period size: 93 Copynumber: 2.1 Consensus size: 97
1078298 TGTGATTTCC
* * *
1078308 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
1078373 TCCGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCCGGGATATGGCATCGGATGTGATATGTGACTA-T
* * * *
1078407 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
* *
1078469 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGG-ATGTGATATGTGACTAT
**
1078502 GTGCAAGACCATAG
1 GTATAAGACCATAG
1078516 TTTTACTATG
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
93 28 0.30
94 11 0.12
95 23 0.25
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:1087683 original size:46 final size:46
Alignment explanation
Indices: 1087616--1087790 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
1087606 TGTAACCCGC
*
1087616 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1087662 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * ** *
1087712 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
1087755 CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1087791 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:1087736 original size:93 final size:93
Alignment explanation
Indices: 1087624--1087795 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
1087614 GCCCATAAGT
** * *
1087624 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1087689 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
1087717 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1087782 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
1087796 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:1099499 original size:29 final size:29
Alignment explanation
Indices: 1099466--1099526 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
1099456 TAAATTTATT
1099466 ATTATGTCAAAATTAAAAATTATCACGTC
1 ATTATGTCAAAATTAAAAATTATCACGTC
* *
1099495 ATTATGTCAAATTTAAAAATTATTACGTC
1 ATTATGTCAAAATTAAAAATTATCACGTC
1099524 ATT
1 ATT
1099527 TTTTCATCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (29 bp):
ATTATGTCAAAATTAAAAATTATCACGTC
Found at i:1109177 original size:2 final size:2
Alignment explanation
Indices: 1109170--1109194 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1109160 ATAATATTTA
1109170 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1109195 ATGCATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1111455 original size:15 final size:15
Alignment explanation
Indices: 1111435--1111491 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
1111425 ATTCAATATT
1111435 AATATTTTAATAATA
1 AATATTTTAATAATA
*
1111450 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
1111469 AATATATTAATAATA
1 AATATTTTAATAATA
1111484 AATATTTT
1 AATATTTT
1111492 GTAATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:1111491 original size:49 final size:47
Alignment explanation
Indices: 1111370--1111491 Score: 112
Period size: 49 Copynumber: 2.6 Consensus size: 47
1111360 TATTTTAATA
*
1111370 ATAAAT-T-TTAAAAATAAATAATTTTAAATAATATTATTCACATATT
1 ATAAATATATTAATAATAAAT-ATTTTAAATAATATTATTCACATATT
*
1111416 ATTGAAA-ATATTCAAT-ATTAATATTTTAATAATAAATATTTATT-ACA-ATT
1 A-T-AAATATATT-AATAATAAATATTTT-A-AAT-AATA-TTATTCACATATT
1111466 ATAAATATATTAATAATAAATATTTT
1 ATAAATATATTAATAATAAATATTTT
1111492 GTAATATAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
46 1 0.02
47 1 0.02
48 15 0.24
49 24 0.39
50 9 0.15
51 7 0.11
52 5 0.08
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (47 bp):
ATAAATATATTAATAATAAATATTTTAAATAATATTATTCACATATT
Found at i:1120525 original size:124 final size:123
Alignment explanation
Indices: 1120306--1121010 Score: 852
Period size: 124 Copynumber: 5.8 Consensus size: 123
1120296 AACACTAAAC
* * * *
1120306 ATGAACTATAAAATAGACAT---G-A-AAAAAATTTGAATGAGCTAATTGTATTAATCGAATCTG
1 ATGAACTATAAAATAGACATGAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
* * * *
1120366 ATGTGTAATTACTTTAAAAAGAAAATGTCTTTTAAAAAATTTGACTTGAAACCTTGAAT
66 ATATGTAATTACTTAAAAAAGAAAATG-CCTTTAAAAAAATTGACTTGAAACCTTGAAT
* * *
1120425 ATGAACTACAAAGTAGACATGAAGAATCAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
1 ATGAACTATAAAATAGACATGAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
* *
1120490 ATATGTAATTACTTAAAAAAGAAAATGCCTCTTAAAAAAGTTGAATTGAAACCTTGAAT
66 ATATGTAATTACTTAAAAAAGAAAATGCCT-TTAAAAAAATTGACTTGAAACCTTGAAT
** * *
1120549 ATGAACTATAAAATAGACATGAAGAATGTAAAAATTGAATGAGTTAATTATATTAATCAGATCCG
1 ATGAACTATAAAATAGACATGAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
* * *
1120614 ATATGTAATTACTTGAAAAAGAAAATGCCTTCTAAAAAAATTGAATTGAAACCTTAAAT
66 ATATGTAATTACTTAAAAAAGAAAATGCCTT-TAAAAAAATTGACTTGAAACCTTGAAT
* * * * *
1120673 ATAAACTATAAAATAGACATGAATAA-AAAAAAATTGAATAAGTTAATTGTATTAATGGGATTCG
1 ATGAACTATAAAATAGACATGAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
* *
1120737 ATATGTAATTAC-TAAAAAAGAAAATACCTTTAAAAAAATTGACTTGAAACCTTGAAC
66 ATATGTAATTACTTAAAAAAGAAAATGCCTTTAAAAAAATTGACTTGAAACCTTGAAT
* * * * * *
1120794 ATAAATTATAAAATAGACATAAAGAATAAAAAAATTAAATGAGTTAATTGTATTAATCAGATCTG
1 ATGAACTATAAAATAGACATGAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
** * * * * *
1120859 ATATGTAATTACTT-AAAAAGAAAATATCTTTTAAAAATTTGACTTAGAAAACTTTAAA
66 ATATGTAATTACTTAAAAAAGAAAATGCCTTTAAAAAAATTGACTT-GAAACCTTGAAT
* * * * * * *
1120917 AAGAACTATAAAATAAATATGAAGAATAAAAAAAATTAAATAAGTTAATTATATTAATCGAATCC
1 ATGAACTATAAAATAGACATGAAGAAT-AAAAAAATTGAATGAGTTAATTGTATTAATCGGATCC
* *
1120982 GATATGAAAATT-CCTAAAAAAGAAAATGC
65 GATATG-TAATTACTTAAAAAAGAAAATGC
1121011 TTTTGGAAAA
Statistics
Matches: 508, Mismatches: 65, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
119 18 0.04
121 47 0.09
122 89 0.18
123 78 0.15
124 261 0.51
125 15 0.03
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (123 bp):
ATGAACTATAAAATAGACATGAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCG
ATATGTAATTACTTAAAAAAGAAAATGCCTTTAAAAAAATTGACTTGAAACCTTGAAT
Found at i:1120850 original size:245 final size:244
Alignment explanation
Indices: 1120303--1121008 Score: 881
Period size: 245 Copynumber: 2.9 Consensus size: 244
1120293 TCAAACACTA
* * *
1120303 AACATGAACTATAAAATAGACAT---G-A-AAAAAATTTGAATGAGCTAATTGTATTAATC-GAA
1 AACATAAACTATAAAATAGACATAAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCAG-A
* *
1120362 TCTGATGTGTAATTACTTTAAAAAGAAAATGTCTTTTAAAAAATTTGACTTGAAACCTTGAATAT
65 TCTGATATGTAATTAC-TTAAAAAGAAAATGTC-TTTAAAAAATTTGACTTGAAACCTTAAATAT
* * * ** *
1120427 GAACTACAAAGTAGACATGAAGAATCAAAAAATTGAATGAGTTAATTGTATTAATCGGATCCGAT
128 AAACTATAAAATAGACATGAA-AAAAAAAAAATTGAATAAGTTAATTGTATTAATCGGATCCGAT
* *
1120492 ATGTAATTACTTAAAAAAGAAAATGCCTCTTAAAAAAGTTGAATTGAAACCTTG
192 ATGTAATTAC-TAAAAAAGAAAATACCTCTTAAAAAAATTGAATTGAAACCTTG
* * * ** *
1120546 AATATGAACTATAAAATAGACATGAAGAATGTAAAAATTGAATGAGTTAATTATATTAATCAGAT
1 AACATAAACTATAAAATAGACATAAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCAGAT
* * * *
1120611 CCGATATGTAATTACTTGAAAAAGAAAATGCCTTCTAAAAAAATTGAATTGAAACCTTAAATATA
66 CTGATATGTAATTACTT-AAAAAGAAAATGTCTT-TAAAAAATTTGACTTGAAACCTTAAATATA
* * *
1120676 AACTATAAAATAGACATGAATAAAAAAAAATTGAATAAGTTAATTGTATTAATGGGATTCGATAT
129 AACTATAAAATAGACATGAAAAAAAAAAAATTGAATAAGTTAATTGTATTAATCGGATCCGATAT
*
1120741 GTAATTACTAAAAAAGAAAATACCT-TTAAAAAAATTGACTTGAAACCTTG
194 GTAATTACTAAAAAAGAAAATACCTCTTAAAAAAATTGAATTGAAACCTTG
* *
1120791 AACATAAATTATAAAATAGACATAAAGAATAAAAAAATTAAATGAGTTAATTGTATTAATCAGAT
1 AACATAAACTATAAAATAGACATAAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCAGAT
* * *
1120856 CTGATATGTAATTACTTAAAAAGAAAATATCTTTTAAAAATTTGACTTAGAAAACTTTAAA-A-A
66 CTGATATGTAATTACTTAAAAAGAAAATGTCTTTAAAAAATTTGACTT-G-AAACCTTAAATATA
* * * * *
1120919 GAACTATAAAATAAATATGAAGAATAAAAAAAATTAAATAAGTTAATTATATTAATCGAATCCGA
129 -AACTATAAAATAGACATGAA-AA-AAAAAAAATTGAATAAGTTAATTGTATTAATCGGATCCGA
* *
1120984 TATGAAAATTCCTAAAAAAGAAAAT
191 TATG-TAATTACTAAAAAAGAAAAT
1121009 GCTTTTGGAA
Statistics
Matches: 400, Mismatches: 49, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
243 35 0.09
244 34 0.09
245 106 0.26
246 56 0.14
247 70 0.17
248 98 0.25
249 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (244 bp):
AACATAAACTATAAAATAGACATAAAGAATAAAAAAATTGAATGAGTTAATTGTATTAATCAGAT
CTGATATGTAATTACTTAAAAAGAAAATGTCTTTAAAAAATTTGACTTGAAACCTTAAATATAAA
CTATAAAATAGACATGAAAAAAAAAAAATTGAATAAGTTAATTGTATTAATCGGATCCGATATGT
AATTACTAAAAAAGAAAATACCTCTTAAAAAAATTGAATTGAAACCTTG
Found at i:1128437 original size:31 final size:32
Alignment explanation
Indices: 1128402--1128467 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
1128392 ATTTTCAAAA
*
1128402 TTATACATAAATTTTAATTTAATGTATAAT-T
1 TTATACATAAATTTTAATTTAATATATAATAT
* *
1128433 TTATATATAAATTTTAATTTTATATATAATAT
1 TTATACATAAATTTTAATTTAATATATAATAT
1128465 TTA
1 TTA
1128468 GATTTAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (32 bp):
TTATACATAAATTTTAATTTAATATATAATAT
Found at i:1128452 original size:19 final size:20
Alignment explanation
Indices: 1128428--1128466 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1128418 ATTTAATGTA
1128428 TAATTTTATATATAA-ATTT
1 TAATTTTATATATAATATTT
1128447 TAATTTTATATATAATATTT
1 TAATTTTATATATAATATTT
1128467 AGATTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATTTTATATATAATATTT
Found at i:1130182 original size:16 final size:16
Alignment explanation
Indices: 1130161--1130211 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
1130151 TTTTTTAAAT
1130161 TTAAAAAATATAAAAA
1 TTAAAAAATATAAAAA
1130177 TTAAAAAATA-AATAAA
1 TTAAAAAATATAA-AAA
*
1130193 TT--AAAGTATAAAAA
1 TTAAAAAATATAAAAA
1130207 TTAAA
1 TTAAA
1130212 TTCATAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 10 0.33
15 4 0.13
16 16 0.53
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
TTAAAAAATATAAAAA
Found at i:1134309 original size:6 final size:6
Alignment explanation
Indices: 1134298--1134324 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1134288 AACAGTTATA
1134298 CCAGCT CCAGCT CCAGCT CCAGCT CCA
1 CCAGCT CCAGCT CCAGCT CCAGCT CCA
1134325 TGTTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.15, T:0.15
Consensus pattern (6 bp):
CCAGCT
Found at i:1137359 original size:51 final size:51
Alignment explanation
Indices: 1137280--1137534 Score: 350
Period size: 51 Copynumber: 5.0 Consensus size: 51
1137270 GATGCCGAAC
* * * *
1137280 CAGCAAGGCGGAAACATCGAATCTCAAACATACACTCAGCTACCACAACAG
1 CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCTACCACAACAG
* ** *
1137331 CAGCAAGGTGGTAACATCAAATCCCAAACATATACTCAACTACCACAACAG
1 CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCTACCACAACAG
* * * *
1137382 CAGCAAGGTGGAAACATTGGATACCAAACATATACTCAGCTGCCACAACAA
1 CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCTACCACAACAG
* * *
1137433 CAGCAAGGAGGAAACATTGAATCCCAAACTTATACTCAGCTACAACAACAG
1 CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCTACCACAACAG
*
1137484 GAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCCT-CCACAACAG
1 CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAG-CTACCACAACAG
1137535 TACTTAATGG
Statistics
Matches: 178, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
51 176 0.99
52 2 0.01
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.15
Consensus pattern (51 bp):
CAGCAAGGTGGAAACATTGAATCCCAAACATATACTCAGCTACCACAACAG
Found at i:1145328 original size:2 final size:2
Alignment explanation
Indices: 1145321--1145377 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1145311 AAGAAAGAAA
1145321 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1145363 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
1145378 ATGGTGGAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1146869 original size:62 final size:61
Alignment explanation
Indices: 1146799--1146927 Score: 242
Period size: 62 Copynumber: 2.1 Consensus size: 61
1146789 ACAGTATTTG
1146799 TTGAATATATATCAAAGTATCACATAGATAATTATATTAAAAGTAAGGTTGTATTTTTTTTA
1 TTGAATATATATCAAAGTATCACATAGATAATTATATTAAAAGTAAGGTTGTA-TTTTTTTA
1146861 TTGAATATATATCAAAGTATCACATAGATAATTATATTAAAAGTAAGGTTGTATTTTTTTA
1 TTGAATATATATCAAAGTATCACATAGATAATTATATTAAAAGTAAGGTTGTATTTTTTTA
1146922 TT-AATA
1 TTGAATA
1146928 AATAAATTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 4 0.06
61 10 0.15
62 53 0.79
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (61 bp):
TTGAATATATATCAAAGTATCACATAGATAATTATATTAAAAGTAAGGTTGTATTTTTTTA
Found at i:1149923 original size:50 final size:51
Alignment explanation
Indices: 1149846--1149974 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
1149836 GACCATGGCA
1149846 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
1149897 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
1149947 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
1149975 CTGATCAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:1149990 original size:31 final size:31
Alignment explanation
Indices: 1149950--1150057 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
1149940 ACAAATGACA
* *
1149950 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
1149981 AATGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1150012 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1150043 AGTGAAAAGTGGTAG
1 AGTGAAAAGTGGTAG
1150058 TACCTGTAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:1151265 original size:35 final size:35
Alignment explanation
Indices: 1151198--1151365 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
1151188 TCCTCATTGA
*** *
1151198 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
1151234 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
1151274 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
1151309 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
1151344 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
1151366 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:1151324 original size:75 final size:73
Alignment explanation
Indices: 1151193--1151365 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
1151183 GGTTTTCCTC
*** * * **
1151193 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
1151258 TCAGTATGG
65 TCAGTATGG
*
1151267 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
1151331 ACTCAGTATGG
63 ACTCAGTATGG
1151342 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
1151366 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:1152867 original size:47 final size:46
Alignment explanation
Indices: 1152793--1153007 Score: 152
Period size: 47 Copynumber: 4.7 Consensus size: 46
1152783 AAGTGATTTC
* * * * *
1152793 CGTACAAGACCATATCTAGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
1152839 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * * * * *
1152886 CGTGTAAGACCATAGCTGGGCTATGGCATTGATATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCA-TCA-GTGAGATATATGA-TA
* * * *
1152935 CGTGTGAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-ATA
* * * *
1152977 TGTGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
1153008 TTATGTGAAG
Statistics
Matches: 144, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
42 37 0.26
43 1 0.01
46 25 0.17
47 41 0.28
48 12 0.08
49 28 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:1152948 original size:49 final size:48
Alignment explanation
Indices: 1152844--1153006 Score: 191
Period size: 49 Copynumber: 3.5 Consensus size: 48
1152834 TGCTACTGTA
* * *
1152844 TAAGACCATATCTGGGATATGGCATC-AGT-GA-GATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGATATGTGATTCGTG
* *
1152890 TAAGACCATAGCTGGGCTATGGCATTGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATT-CGTG
*
1152939 TGAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATTCGTG
1152981 TAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATAGCTGGGCTATGGCATC
1153007 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
42 28 0.27
44 1 0.01
45 1 0.01
46 25 0.24
47 1 0.01
48 12 0.12
49 36 0.35
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGATATGTGATTCGTG
Found at i:1152987 original size:42 final size:43
Alignment explanation
Indices: 1152887--1153050 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 43
1152877 TATGTGATTC
* *
1152887 GTGTAAGACCATAGCTGGGCTATGGCATTGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
* *
1152934 ACGTGTGAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
1152978 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
1153020 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
1153051 GAAAACGAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 63 0.62
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 28 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:1158073 original size:22 final size:22
Alignment explanation
Indices: 1158048--1158110 Score: 56
Period size: 26 Copynumber: 2.7 Consensus size: 22
1158038 AAGTCCTAAT
*
1158048 TTCTCCTTTTTCTTTTCTTTTC
1 TTCTCCTTTTTCTTTTCGTTTC
*
1158070 TTCTTTCTTTCTTTCTATTTCGTTTC
1 TTC--TCCTT-TTTCT-TTTCGTTTC
*
1158096 TTC-CCTGTTTCTTTT
1 TTCTCCTTTTTCTTTT
1158111 TCTTGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 3 0.09
22 8 0.24
23 2 0.06
24 4 0.12
25 5 0.15
26 11 0.33
ACGTcount: A:0.02, C:0.25, G:0.03, T:0.70
Consensus pattern (22 bp):
TTCTCCTTTTTCTTTTCGTTTC
Found at i:1158298 original size:3 final size:3
Alignment explanation
Indices: 1158290--1158353 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
1158280 CAATTAATTG
1158290 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1158338 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
1158354 GTAAATATCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1162508 original size:19 final size:20
Alignment explanation
Indices: 1162480--1162518 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1162470 TCCCATTATT
1162480 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
1162499 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
1162519 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:1162536 original size:25 final size:23
Alignment explanation
Indices: 1162499--1162544 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
1162489 TTTGTTTTAA
*
1162499 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
1162522 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
1162545 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:1176590 original size:20 final size:21
Alignment explanation
Indices: 1176561--1176599 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1176551 ACTAAAGATA
1176561 TTTAAAAAATTTAC-TATTAT
1 TTTAAAAAATTTACATATTAT
*
1176581 TTTAATAAATTTACATATT
1 TTTAAAAAATTTACATATT
1176600 TAAATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAAAAAATTTACATATTAT
Found at i:1178097 original size:33 final size:33
Alignment explanation
Indices: 1178059--1178160 Score: 145
Period size: 33 Copynumber: 3.2 Consensus size: 33
1178049 AGATTAATTT
* *
1178059 ATATTTTATGTATCATTATATTAAATTATTTAA
1 ATATTTCATGTATCATTCTATTAAATTATTTAA
1178092 ATATTTCATGTATCATTCTATTAAATTATTTAA
1 ATATTTCATGTATCATTCTATTAAATTATTTAA
* * *
1178125 ATA--TCATTTACCATTCCATTAAATTATTTAA
1 ATATTTCATGTATCATTCTATTAAATTATTTAA
1178156 ATATT
1 ATATT
1178161 ATATAACTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
31 28 0.45
33 34 0.55
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (33 bp):
ATATTTCATGTATCATTCTATTAAATTATTTAA
Found at i:1178146 original size:31 final size:31
Alignment explanation
Indices: 1178078--1178159 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
1178068 GTATCATTAT
* *
1178078 ATTAAATTATTTAAATATTTCATGTATCATTCT
1 ATTAAATTATTTAAATA--TCATGTACCATTCC
*
1178111 ATTAAATTATTTAAATATCATTTACCATTCC
1 ATTAAATTATTTAAATATCATGTACCATTCC
1178142 ATTAAATTATTTAAATAT
1 ATTAAATTATTTAAATAT
1178160 TATATAACTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 29 0.63
33 17 0.37
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTAAATTATTTAAATATCATGTACCATTCC
Found at i:1187644 original size:50 final size:50
Alignment explanation
Indices: 1187569--1187745 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
1187559 CCATGGAAAC
1187569 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
1187619 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1187669 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
1187719 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
1187746 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:1187931 original size:31 final size:31
Alignment explanation
Indices: 1187723--1187924 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
1187713 AAATGACAAC
1187723 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
1187754 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
1187785 TGAAAAGTGGTAGCTTCTGCTACTTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
1187816 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
1187847 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
1187878 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
1187909 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
1187925 TGGCTACAAG
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:1187942 original size:7 final size:7
Alignment explanation
Indices: 1187930--1187958 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1187920 AGCTTTGGCT
1187930 ACAAGTG
1 ACAAGTG
1187937 ACAAGTG
1 ACAAGTG
1187944 ACAAGTG
1 ACAAGTG
1187951 ACAAGTG
1 ACAAGTG
1187958 A
1 A
1187959 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:1188031 original size:47 final size:48
Alignment explanation
Indices: 1187962--1188087 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 48
1187952 CAAGTGATTT
* *
1187962 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* *
1188009 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATATGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
1188057 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
1188088 TTATGTAAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
47 67 0.96
48 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:1192127 original size:48 final size:48
Alignment explanation
Indices: 1192056--1192153 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
1192046 AGGCCTTTAC
*
1192056 CTTCAAACTCTCTTCACTTTCATTCTCCACAACCCCCAGCTCTTTGTT
1 CTTCAAACTCTCTTCACTTTCATTCTCCACAACCCCCAACTCTTTGTT
*
1192104 CTTCAAACTCTCTTCACTTTCATTCTCCATAACCCCCAACTCTTTGTT
1 CTTCAAACTCTCTTCACTTTCATTCTCCACAACCCCCAACTCTTTGTT
1192152 CT
1 CT
1192154 AGCTGGGTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.19, C:0.39, G:0.03, T:0.39
Consensus pattern (48 bp):
CTTCAAACTCTCTTCACTTTCATTCTCCACAACCCCCAACTCTTTGTT
Found at i:1203750 original size:15 final size:14
Alignment explanation
Indices: 1203698--1203756 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
1203688 ATAATTTATG
1203698 TATTTTTTAA-AAT
1 TATTTTTTAATAAT
*
1203711 TATGATTTTAATAAT
1 TAT-TTTTTAATAAT
* *
1203726 GATTTTTTAATAGT
1 TATTTTTTAATAAT
1203740 TATTATTTTAA-AAT
1 TATT-TTTTAATAAT
1203754 TAT
1 TAT
1203757 GTTGTTTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
13 3 0.08
14 23 0.62
15 11 0.30
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
TATTTTTTAATAAT
Found at i:1204286 original size:22 final size:23
Alignment explanation
Indices: 1204256--1204299 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1204246 TTTTTACTTC
1204256 TTTAAACTTATATCCTG-ATTTT
1 TTTAAACTTATATCCTGTATTTT
*
1204278 TTTATACTTATATCCTGTATTT
1 TTTAAACTTATATCCTGTATTT
1204300 ATTACCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.25, C:0.14, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTAAACTTATATCCTGTATTTT
Found at i:1212787 original size:17 final size:18
Alignment explanation
Indices: 1212765--1212798 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1212755 TAAAAGAAAT
*
1212765 AATTATGAATT-TAAAAA
1 AATTATAAATTATAAAAA
1212782 AATTATAAATTATAAAA
1 AATTATAAATTATAAAA
1212799 CGAATCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTATAAATTATAAAAA
Found at i:1215160 original size:2 final size:2
Alignment explanation
Indices: 1215148--1215176 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1215138 ATTGATTAAA
1215148 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1215177 TAATGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1215701 original size:30 final size:29
Alignment explanation
Indices: 1215646--1215727 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
1215636 TGACTTCATT
* *
1215646 AATTTTAATAATAAAATTTAAAAAAAAACAA
1 AATTTTAA-AATAAAA-ATATAAAAAAACAA
* **
1215677 AATTTTTAAATAAAAAATATAAAAACTCAA
1 AATTTTAAAAT-AAAAATATAAAAAAACAA
* *
1215707 TATTTTAAAATTAAAATATAA
1 AATTTTAAAATAAAAATATAA
1215728 GGATTAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 9 0.21
30 22 0.52
31 11 0.26
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (29 bp):
AATTTTAAAATAAAAATATAAAAAAACAA
Found at i:1218041 original size:2 final size:2
Alignment explanation
Indices: 1218034--1218066 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1218024 AGAAAAGGGT
1218034 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1218067 GAGTTTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1228074 original size:22 final size:20
Alignment explanation
Indices: 1228048--1228106 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
1228038 AGTTTATATA
*
1228048 TAATTTATATATTACAAATTT
1 TAATTTATATATTA-AAATCT
*
1228069 TCAATTTAAAATATTAAAATCT
1 T-AATTT-ATATATTAAAATCT
1228091 TAATTT-TATAGTTAAA
1 TAATTTATATA-TTAAA
1228107 TTATAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 6 0.19
22 11 0.34
23 7 0.22
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATTTATATATTAAAATCT
Found at i:1231367 original size:24 final size:26
Alignment explanation
Indices: 1231310--1231374 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 26
1231300 ATTTACTTAT
1231310 ATTTAATTTTAAATAAAATATTAAAC
1 ATTTAATTTTAAATAAAATATTAAAC
* * *
1231336 A--TATTTTTAACTTAAAT-TT-AAC
1 ATTTAATTTTAAATAAAATATTAAAC
1231358 ATTTAATTTTTAAATAA
1 ATTTAA-TTTTAAATAA
1231375 TTACTTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
22 4 0.13
23 2 0.07
24 15 0.50
25 8 0.27
26 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAATTTTAAATAAAATATTAAAC
Found at i:1231539 original size:24 final size:25
Alignment explanation
Indices: 1231489--1231542 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
1231479 ATTATATACA
* *
1231489 AATAAATTTAACAAAAATAAAACAC
1 AATAAATTCAACAAAAAGAAAACAC
*
1231514 AATAAATTCAAC-ATAAGAAAACAC
1 AATAAATTCAACAAAAAGAAAACAC
1231538 AATAA
1 AATAA
1231543 CCAATCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.19
Consensus pattern (25 bp):
AATAAATTCAACAAAAAGAAAACAC
Found at i:1233062 original size:16 final size:18
Alignment explanation
Indices: 1233043--1233075 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1233033 TTATACTAAA
1233043 ATAAATA-AT-TAAAAAT
1 ATAAATATATATAAAAAT
1233059 ATAAATATATATAAAAA
1 ATAAATATATATAAAAA
1233076 AAAGCTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAATATATATAAAAAT
Found at i:1234495 original size:3 final size:3
Alignment explanation
Indices: 1234487--1234511 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1234477 TTATATTGAT
1234487 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
1234512 GTAGTTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:1242903 original size:75 final size:75
Alignment explanation
Indices: 1242782--1242922 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
1242772 CCAGGCTATG
* *
1242782 CTCCTCCAAGGCCAAGTCCTCAAGCGCCACCACCAGGACCTCGTCATCCTCC-GAGTCCACCACA
1 CTCCTCCAAGGCCAAGTCCTCAAGCGCCACCACCAAGACCACGTCATCCTCCAG-GTCCACCACA
1242846 TGCTGAGCATC
65 TGCTGAGCATC
* * * *
1242857 CTCCTCCAAGGCCAAGT-CTCTATGTGCCACCACCAAGACCAGGTCATCCTCCAGGTCCACTACA
1 CTCCTCCAAGGCCAAGTCCTC-AAGCGCCACCACCAAGACCACGTCATCCTCCAGGTCCACCACA
1242921 TG
65 TG
1242923 AGCATCCTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 3 0.05
75 54 0.93
76 1 0.02
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.18
Consensus pattern (75 bp):
CTCCTCCAAGGCCAAGTCCTCAAGCGCCACCACCAAGACCACGTCATCCTCCAGGTCCACCACAT
GCTGAGCATC
Found at i:1242943 original size:99 final size:99
Alignment explanation
Indices: 1242826--1243020 Score: 275
Period size: 99 Copynumber: 2.0 Consensus size: 99
1242816 AGGACCTCGT
* * * *
1242826 CATCCTCCGAGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCA-AGTCTCTATGTGCCACCAC
1 CATCCTCCAAGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAGA-TCCCCATGCGCCACCAC
* *
1242890 CAAGACCAGGTCATCCTCCAGGTCCACTACATGAG
65 CAAGACCAGGTCATCCTCCAAGTCCACCACATGAG
* ***
1242925 CATCCTCCAAGTCCACCACATGTTGAGCATCCTCCTCCAAGGCCAGATCCCCATGCGCCACCGTT
1 CATCCTCCAAGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAGATCCCCATGCGCCACCACC
*
1242990 AGGACCAGGTCATCCTCCAAGTCCACCACAT
66 AAGACCAGGTCATCCTCCAAGTCCACCACAT
1243021 AATAATCATC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 83 0.99
100 1 0.01
ACGTcount: A:0.24, C:0.41, G:0.16, T:0.19
Consensus pattern (99 bp):
CATCCTCCAAGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAGATCCCCATGCGCCACCACC
AAGACCAGGTCATCCTCCAAGTCCACCACATGAG
Found at i:1242959 original size:27 final size:24
Alignment explanation
Indices: 1242901--1242946 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1242891 AAGACCAGGT
* *
1242901 CATCCTCCAGGTCCACTACATGAG
1 CATCCTCCAAGTCCACCACATGAG
1242925 CATCCTCCAAGTCCACCACATG
1 CATCCTCCAAGTCCACCACATG
1242947 TTGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.41, G:0.13, T:0.20
Consensus pattern (24 bp):
CATCCTCCAAGTCCACCACATGAG
Found at i:1243038 original size:99 final size:99
Alignment explanation
Indices: 1242835--1243113 Score: 254
Period size: 99 Copynumber: 2.9 Consensus size: 99
1242825 TCATCCTCCG
* * *
1242835 AGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAAGTCTCTATGTGCCACCACCAAGACCAGG
1 AGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAAGTCCCCATGCGCCACCACCAAGACCAGG
* * * * *
1242900 TCATCCTCCAGGTCCACTACATGAGCATCCTCCA
66 TCATCCTCCAAGTCCACCACATAAGAATCATCCA
* *** *
1242934 AGTCCACCACATGTTGAGCATCCTCCTCCAAGGCC-AGATCCCCATGCGCCACCGTTAGGACCAG
1 AGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAAG-TCCCCATGCGCCACCACCAAGACCAG
* **
1242998 GTCATCCTCCAAGTCCACCACATAATAATCATCTT
65 GTCATCCTCCAAGTCCACCACATAAGAATCATCCA
* * *
1243033 CGTCCAGGC-CA---T--GC-TCCTCCTCC-AGGACCAAGTCCCCATGCTCCACCACC-AGAACC
1 AGTCCA-CCACATGCTGAGCATCCTCCTCCAAGG-CCAAGTCCCCATGCGCCACCACCAAG-ACC
* * *
1243089 AGGCCATCTTCCAAGTCAACCACAT
63 AGGTCATCCTCCAAGTCCACCACAT
1243114 CTTGGTCATC
Statistics
Matches: 149, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
92 4 0.03
93 50 0.34
94 4 0.03
96 1 0.01
98 2 0.01
99 87 0.58
100 1 0.01
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.19
Consensus pattern (99 bp):
AGTCCACCACATGCTGAGCATCCTCCTCCAAGGCCAAGTCCCCATGCGCCACCACCAAGACCAGG
TCATCCTCCAAGTCCACCACATAAGAATCATCCA
Found at i:1243102 original size:93 final size:93
Alignment explanation
Indices: 1242954--1243177 Score: 236
Period size: 93 Copynumber: 2.4 Consensus size: 93
1242944 ATGTTGAGCA
* *** * * *
1242954 TCCTCCTCCAAGGCC-AGATCCCCATGCGCCACCGTTAGGACCAGGTCATCCTCCAAGTCCACCA
1 TCCTCCTCCAAGGCCAAG-TCCCCATGCACCACCACCAGAACCAGGCCATCCTCCAAGTCAACCA
* * *
1243018 CATAATAATCATCTTCGTCCAGGCCATGC
65 CATAATAATCATCCTCATCCAGGCCACGC
* *
1243047 TCCTCCTCC-AGGACCAAGTCCCCATGCTCCACCACCAGAACCAGGCCATCTTCCAAGTCAACCA
1 TCCTCCTCCAAGG-CCAAGTCCCCATGCACCACCACCAGAACCAGGCCATCCTCCAAGTCAACCA
** ** *
1243111 CATCTTGGTCATCCTCATCCAGGCCACGG
65 CATAATAATCATCCTCATCCAGGCCACGC
* * *
1243140 TCCCCCTCCAAGGCCAGGTCCCCATGCACCACTACCAG
1 TCCTCCTCCAAGGCCAAGTCCCCATGCACCACCACCAG
1243178 GTCTAGGTCA
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
92 3 0.03
93 100 0.93
94 5 0.05
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (93 bp):
TCCTCCTCCAAGGCCAAGTCCCCATGCACCACCACCAGAACCAGGCCATCCTCCAAGTCAACCAC
ATAATAATCATCCTCATCCAGGCCACGC
Found at i:1245569 original size:15 final size:15
Alignment explanation
Indices: 1245549--1245585 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1245539 GCTGATCATC
1245549 CTCCTCCAGGCCATG
1 CTCCTCCAGGCCATG
1245564 CTCCTCCAGGCCATG
1 CTCCTCCAGGCCATG
1245579 CTCCTCC
1 CTCCTCC
1245586 TCCTGGACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.51, G:0.16, T:0.22
Consensus pattern (15 bp):
CTCCTCCAGGCCATG
Found at i:1245570 original size:18 final size:17
Alignment explanation
Indices: 1245547--1245588 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
1245537 ATGCTGATCA
1245547 TCCTCCTCCAGGCCATG
1 TCCTCCTCCAGGCCATG
1245564 --CTCCTCCAGGCCATG
1 TCCTCCTCCAGGCCATG
1245579 CTCCTCCTCC
1 -TCCTCCTCC
1245589 TGGACCAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 15 0.68
18 7 0.32
ACGTcount: A:0.10, C:0.52, G:0.14, T:0.24
Consensus pattern (17 bp):
TCCTCCTCCAGGCCATG
Found at i:1254474 original size:17 final size:19
Alignment explanation
Indices: 1254449--1254489 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
1254439 GCTAATAATT
*
1254449 TATTGTAATATT-ATA-TA
1 TATTTTAATATTAATAGTA
*
1254466 TATTTTAATTTTAATAGTA
1 TATTTTAATATTAATAGTA
1254485 TATTT
1 TATTT
1254490 AATTTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 3 0.15
19 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTTTAATATTAATAGTA
Found at i:1255649 original size:21 final size:22
Alignment explanation
Indices: 1255623--1255665 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1255613 GTCTTGGTTT
1255623 GATTTTTTTTATCT-AAATATA
1 GATTTTTTTTATCTGAAATATA
*
1255644 GATTTTTTTTATTTGAAATATA
1 GATTTTTTTTATCTGAAATATA
1255666 TTAATAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (22 bp):
GATTTTTTTTATCTGAAATATA
Found at i:1260378 original size:58 final size:58
Alignment explanation
Indices: 1260279--1260390 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
1260269 CAATTTGTTC
* * *
1260279 AAGCCTTAATATAGGTACAACTGCCAAATTCAAATATTAACTTGGAAAAAAAAAAGTT
1 AAGCCCTAATATAGGTACAACTGCCAAATTCAAAGACTAACTTGGAAAAAAAAAAGTT
* * * * *
1260337 AAGCCCTAATATAGGTACAATTGTCAAGTTCAGAGACTAACTTGGACAAAAAAA
1 AAGCCCTAATATAGGTACAACTGCCAAATTCAAAGACTAACTTGGAAAAAAAAA
1260391 TTCAAACCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.24
Consensus pattern (58 bp):
AAGCCCTAATATAGGTACAACTGCCAAATTCAAAGACTAACTTGGAAAAAAAAAAGTT
Found at i:1268286 original size:35 final size:35
Alignment explanation
Indices: 1268246--1268408 Score: 177
Period size: 35 Copynumber: 4.5 Consensus size: 35
1268236 CATTGAAATG
** * *
1268246 CCATACCTACATTTTTCAACTCGGTATGGGA-AATG
1 CCATACCTACATTTCACAACTCAGTAT-GGATAATA
**
1268281 CCATACCTACATTTCTTAACTCAGTATGGATTTGATAATA
1 CCATACCTACATTTCACAACTCAGTAT-G----GATAATA
*
1268321 CCATACCTACATTTCACAGCTCAGTATGGATAAT-
1 CCATACCTACATTTCACAACTCAGTATGGATAATA
*
1268355 CCTATACCTACATTTCACAACTCAGTATGGATGATA
1 CC-ATACCTACATTTCACAACTCAGTATGGATAATA
1268391 CCATACCTACATTTCACA
1 CCATACCTACATTTCACA
1268409 CTTTGCTATG
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
34 2 0.02
35 78 0.70
36 2 0.02
39 3 0.03
40 27 0.24
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (35 bp):
CCATACCTACATTTCACAACTCAGTATGGATAATA
Found at i:1268348 original size:75 final size:73
Alignment explanation
Indices: 1268237--1268408 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
1268227 GGTTTTCCTC
* ** * **
1268237 ATTGAAATGCCATACCTACATTTTTCAACTCGGTATGGGA-AATGCC-ATACCTACATTTCTTAA
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAAT-CCTATACCTACATTTCACAA
1268300 CTCAGTATGG
64 CTCAGTATGG
*
1268310 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATCCTATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATCCTATACCTACATTTCACAA
1268375 CTCAGTATGG
64 CTCAGTATGG
1268385 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
1268409 CTTTGCTATG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 9 0.10
75 55 0.62
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATCCTATACCTACATTTCACAACT
CAGTATGG
Found at i:1272439 original size:5 final size:5
Alignment explanation
Indices: 1272429--1272460 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
1272419 ATGCGACAGC
1272429 ATTTT ATTTT ATTTT ATTTT ATTTT CATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT A
1272461 AGTTCGGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:1278131 original size:24 final size:24
Alignment explanation
Indices: 1278083--1278132 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1278073 TTTAAATTAA
* *
1278083 TAAAAATAAATTTATATTTTGATT
1 TAAAAATAAATTTAGATTTTAATT
1278107 TAAAAATAAAATTTAGA-TTTAATT
1 TAAAAAT-AAATTTAGATTTTAATT
1278131 TA
1 TA
1278133 TTAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TAAAAATAAATTTAGATTTTAATT
Found at i:1285060 original size:2 final size:2
Alignment explanation
Indices: 1285053--1285081 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1285043 CTAGCTTGTT
1285053 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1285082 TAGCTTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1286324 original size:12 final size:12
Alignment explanation
Indices: 1286307--1286340 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1286297 ACTACAGGTG
1286307 GATTGTCATGTA
1 GATTGTCATGTA
1286319 GATTGTCATGTA
1 GATTGTCATGTA
1286331 GATTGTCATG
1 GATTGTCATG
1286341 CTTAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (12 bp):
GATTGTCATGTA
Found at i:1287288 original size:20 final size:20
Alignment explanation
Indices: 1287261--1287313 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
1287251 TATAAAGTCA
1287261 TAAG-AAATTTATAAAAATG
1 TAAGAAAATTTATAAAAATG
**
1287280 TAAGAAAATTT-TAAATTTG
1 TAAGAAAATTTATAAAAATG
* *
1287299 TAAAAAAAATTATAA
1 TAAGAAAATTTATAA
1287314 GAATTATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TAAGAAAATTTATAAAAATG
Found at i:1287728 original size:10 final size:10
Alignment explanation
Indices: 1287715--1287770 Score: 71
Period size: 10 Copynumber: 5.8 Consensus size: 10
1287705 TTTTGATGCA
1287715 TTTTATAAAT
1 TTTTATAAAT
*
1287725 TTTTA-ATAT
1 TTTTATAAAT
*
1287734 TTTTATAAAA
1 TTTTATAAAT
*
1287744 TTTTA-CAAT
1 TTTTATAAAT
1287753 TTTTATAAAT
1 TTTTATAAAT
1287763 TTTTATAA
1 TTTTATAA
1287771 TTCTTAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 15 0.39
10 23 0.61
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:1287737 original size:19 final size:19
Alignment explanation
Indices: 1287715--1287802 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
1287705 TTTTGATGCA
1287715 TTTTATAAATTTTTA-ATAT
1 TTTTATAAATTTTTACA-AT
*
1287734 TTTTATAAAATTTTACAAT
1 TTTTATAAATTTTTACAAT
*
1287753 TTTTATAAATTTTTATAAT
1 TTTTATAAATTTTTACAAT
* *
1287772 TCTTA-ATATTTTT---AT
1 TTTTATAAATTTTTACAAT
*
1287787 TTTTATAATTTTTTAC
1 TTTTATAAATTTTTAC
1287803 CACATGTCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
15 6 0.11
16 6 0.11
18 7 0.12
19 37 0.65
20 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATAAATTTTTACAAT
Found at i:1287746 original size:29 final size:29
Alignment explanation
Indices: 1287714--1287786 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
1287704 TTTTTGATGC
1287714 ATTTTATAAA-TTTT-TAATATTTTTATAAA
1 ATTTTA-AAATTTTTATAA-ATTTTTATAAA
*
1287743 ATTTTACAATTTTTATAAATTTTTAT--A
1 ATTTTAAAATTTTTATAAATTTTTATAAA
*
1287770 ATTCTTAATATTTTTAT
1 ATT-TTAAAATTTTTAT
1287787 TTTTATAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 4 0.11
28 13 0.34
29 18 0.47
30 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTTTAAAATTTTTATAAATTTTTATAAA
Found at i:1287801 original size:10 final size:9
Alignment explanation
Indices: 1287715--1287799 Score: 63
Period size: 9 Copynumber: 9.4 Consensus size: 9
1287705 TTTTGATGCA
1287715 TTTTATAAAT
1 TTTTAT-AAT
1287725 TTTTA-ATAT
1 TTTTATA-AT
*
1287734 TTTTATAAAA
1 TTTTAT-AAT
*
1287744 TTTTACAAT
1 TTTTATAAT
1287753 TTTTATAAAT
1 TTTTAT-AAT
1287763 TTTTATAA-
1 TTTTATAAT
*
1287771 TTCT-TAAT
1 TTTTATAAT
1287779 ATTTT-T-AT
1 -TTTTATAAT
1287787 TTTTATAAT
1 TTTTATAAT
1287796 TTTT
1 TTTT
1287800 TACCACATGT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
7 7 0.11
8 7 0.11
9 26 0.43
10 20 0.33
11 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:1291035 original size:24 final size:24
Alignment explanation
Indices: 1291008--1291054 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
1290998 AACAAATAAA
1291008 AAAATACA-AAAAAAAATCAATGTG
1 AAAATA-AGAAAAAAAATCAATGTG
*
1291032 AAAATAAGGAAAAATAATCAATG
1 AAAATAA-GAAAAAAAATCAATG
1291055 AGTTGTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 6 0.30
25 13 0.65
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (24 bp):
AAAATAAGAAAAAAAATCAATGTG
Found at i:1296873 original size:26 final size:22
Alignment explanation
Indices: 1296843--1296897 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 22
1296833 ATTGTGTAAA
*
1296843 TTTTAAAGTTTATATGTTATTTGATT
1 TTTTAAA-TTT-TAT-TTACTT-ATT
1296869 TTTTAAATTTTATTTACTTATT
1 TTTTAAATTTTATTTACTTATT
1296891 TTTTAAA
1 TTTTAAA
1296898 AAAAAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.36
23 5 0.18
24 3 0.11
25 3 0.11
26 7 0.25
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTAAATTTTATTTACTTATT
Found at i:1302857 original size:18 final size:19
Alignment explanation
Indices: 1302827--1302867 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
1302817 TTTGATTTAA
*
1302827 AATTTTTATATTTTTAAAT
1 AATTTTTATATTTTAAAAT
1302846 AATTTTTA-ATTTTAAAAT
1 AATTTTTATATTTTAAAAT
1302864 AATT
1 AATT
1302868 AATTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTTATATTTTAAAAT
Found at i:1303651 original size:21 final size:21
Alignment explanation
Indices: 1303625--1303681 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
1303615 TTAATTTCTT
1303625 CATAAATTATATATTAT-TTTA
1 CATAAA-TATATATTATATTTA
* *
1303646 -ATTAAAAATAAATTATATTTA
1 CA-TAAATATATATTATATTTA
1303667 CATAAATATATATTA
1 CATAAATATATATTA
1303682 CAAATATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 9 0.31
21 19 0.66
22 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
CATAAATATATATTATATTTA
Found at i:1305463 original size:2 final size:2
Alignment explanation
Indices: 1305456--1305501 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1305446 GCTAAGATTC
*
1305456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1305498 AT AT
1 AT AT
1305502 TACTTCATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1307165 original size:14 final size:13
Alignment explanation
Indices: 1307141--1307174 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1307131 ACCGTTTTAC
1307141 TATTATGTTGTTAT
1 TATT-TGTTGTTAT
1307155 TAGTTTGTTGTTAT
1 TA-TTTGTTGTTAT
1307169 TATTTG
1 TATTTG
1307175 GATATTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 13 0.68
15 2 0.11
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (13 bp):
TATTTGTTGTTAT
Found at i:1307334 original size:18 final size:20
Alignment explanation
Indices: 1307313--1307353 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
1307303 GAAATATTTA
*
1307313 TTTTGATGT-TTTTA-GTAT
1 TTTTGATGTATTATATGTAT
1307331 TTTTGATGTATTATATGTAT
1 TTTTGATGTATTATATGTAT
1307351 TTT
1 TTT
1307354 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATGTAT
Found at i:1307571 original size:23 final size:24
Alignment explanation
Indices: 1307528--1307572 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
1307518 AACAATAATT
1307528 TTTTGATAATTATTTTCTTTTTTC
1 TTTTGATAATTATTTTCTTTTTTC
*
1307552 TTTTG-TAA-TATTTTATTTTTT
1 TTTTGATAATTATTTTCTTTTTT
1307573 GTCGTGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 3 0.15
24 5 0.25
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTGATAATTATTTTCTTTTTTC
Found at i:1324237 original size:46 final size:44
Alignment explanation
Indices: 1324185--1324270 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
1324175 AGAACAGAAA
*
1324185 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
1324231 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
1324271 TGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:1324284 original size:44 final size:45
Alignment explanation
Indices: 1324178--1324292 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
1324168 ACAGGACAGA
* * *
1324178 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
1324224 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* **
1324268 ACATGAATAATTCATGTAAGTCCAT
1 ACAGGAATAAGCCATGTAAGTCCAT
1324293 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:1328994 original size:18 final size:18
Alignment explanation
Indices: 1328963--1329043 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 18
1328953 ATGGTGGGAG
* *
1328963 TGACGAAGAAGATGACGA
1 TGACGAAGATGATGATGA
* *
1328981 TGACGATGATGATGATGG
1 TGACGAAGATGATGATGA
*
1328999 GGACGAAGATGATGATGA
1 TGACGAAGATGATGATGA
* * * *
1329017 CGACGATGATGGTGAGGA
1 TGACGAAGATGATGATGA
*
1329035 TGAAGAAGA
1 TGACGAAGA
1329044 GGAGGACGAA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.37, C:0.07, G:0.38, T:0.17
Consensus pattern (18 bp):
TGACGAAGATGATGATGA
Found at i:1328997 original size:15 final size:15
Alignment explanation
Indices: 1328973--1329037 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
1328963 TGACGAAGAA
*
1328973 GATGACGATGACGAT
1 GATGATGATGACGAT
*
1328988 GATGATGATGGGGACGAA
1 GATGATGAT---GACGAT
*
1329006 GATGATGATGACGAC
1 GATGATGATGACGAT
* *
1329021 GATGATGGTGAGGAT
1 GATGATGATGACGAT
1329036 GA
1 GA
1329038 AGAAGAGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 27 0.66
18 14 0.34
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (15 bp):
GATGATGATGACGAT
Found at i:1329054 original size:15 final size:15
Alignment explanation
Indices: 1329030--1329064 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1329020 CGATGATGGT
*
1329030 GAGGATGAAGAAGAG
1 GAGGACGAAGAAGAG
*
1329045 GAGGACGAAGAAGAT
1 GAGGACGAAGAAGAG
1329060 GAGGA
1 GAGGA
1329065 TGATGAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.46, T:0.06
Consensus pattern (15 bp):
GAGGACGAAGAAGAG
Found at i:1342141 original size:2 final size:2
Alignment explanation
Indices: 1342134--1342170 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1342124 GCTTGACATT
1342134 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1342171 CACCAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1351785 original size:12 final size:13
Alignment explanation
Indices: 1351753--1351786 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1351743 AATATCTCCG
1351753 TATTTAAAATAAA
1 TATTTAAAATAAA
*
1351766 TTTTTAAAAT-AA
1 TATTTAAAATAAA
1351778 TATTTAAAA
1 TATTTAAAA
1351787 ATATTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTTAAAATAAA
Found at i:1351802 original size:24 final size:25
Alignment explanation
Indices: 1351753--1351802 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
1351743 AATATCTCCG
*
1351753 TATTTAAAATAAATTTTTAAAATAA
1 TATTTAAAATAAATTTTCAAAATAA
* *
1351778 TATTTAAAA-ATATTTTCAAATTAA
1 TATTTAAAATAAATTTTCAAAATAA
1351802 T
1 T
1351803 GAATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTTAAAATAAATTTTCAAAATAA
Found at i:1352486 original size:46 final size:46
Alignment explanation
Indices: 1352426--1352645 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
1352416 TTTGACATGA
* * * * * *
1352426 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
1352472 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1352518 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1352564 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1352602 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1352646 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 34 0.22
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 108 0.70
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:1352609 original size:38 final size:38
Alignment explanation
Indices: 1352558--1352633 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
1352548 ACATTTCATA
1352558 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1352596 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1352634 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:1354798 original size:11 final size:11
Alignment explanation
Indices: 1354782--1354833 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
1354772 TATACTAAAT
1354782 AAATAATAATA
1 AAATAATAATA
*
1354793 AAATAAT-ATT
1 AAATAATAATA
* *
1354803 AAATATCTCATA
1 AAATA-ATAATA
*
1354815 AAATATTAATA
1 AAATAATAATA
1354826 AAATAATA
1 AAATAATA
1354834 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:1355339 original size:24 final size:23
Alignment explanation
Indices: 1355312--1355358 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1355302 TTTATATTTT
1355312 TATA-AAGTATGTAAAATAAAAA
1 TATATAAGTATGTAAAATAAAAA
* * *
1355334 TATATAATTATTTAAAATACAAA
1 TATATAAGTATGTAAAATAAAAA
1355357 TA
1 TA
1355359 ATTAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
TATATAAGTATGTAAAATAAAAA
Found at i:1360143 original size:9 final size:9
Alignment explanation
Indices: 1360129--1360158 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
1360119 TTTCGATGAG
1360129 AATTAAAAT
1 AATTAAAAT
1360138 AATTAAAAT
1 AATTAAAAT
1360147 AATTAAAAT
1 AATTAAAAT
1360156 AAT
1 AAT
1360159 ACATAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTAAAAT
Found at i:1360302 original size:23 final size:22
Alignment explanation
Indices: 1360276--1360318 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1360266 ATTTTGGTTA
1360276 TTAAATTATTTAAATTTTTTTAT
1 TTAAATTA-TTAAATTTTTTTAT
* *
1360299 TTAAGTTATTAGATTTTTTT
1 TTAAATTATTAAATTTTTTT
1360319 TTAATTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TTAAATTATTAAATTTTTTTAT
Found at i:1362439 original size:7 final size:7
Alignment explanation
Indices: 1362408--1362452 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
1362398 TATATAGCAT
1362408 TAAAATA
1 TAAAATA
* *
1362415 TAATATT
1 TAAAATA
1362422 TAAATAATA
1 T-AA-AATA
1362431 TAAAATA
1 TAAAATA
1362438 TAAAATA
1 TAAAATA
1362445 TAAAATA
1 TAAAATA
1362452 T
1 T
1362453 TTTATACTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 25 0.78
8 4 0.12
9 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
TAAAATA
Found at i:1366616 original size:22 final size:21
Alignment explanation
Indices: 1366567--1366617 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1366557 GTTGAAATTC
1366567 ATTTTAAATATATATCATTAT
1 ATTTTAAATATATATCATTAT
* **
1366588 ATGTTTAAATTTATAATTGTTAT
1 AT-TTTAAATATAT-ATCATTAT
1366611 ATTTTAA
1 ATTTTAA
1366618 TGATATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTTTAAATATATATCATTAT
Found at i:1366634 original size:31 final size:32
Alignment explanation
Indices: 1366599--1366675 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 32
1366589 TGTTTAAATT
*
1366599 TATAATTGT-TATATTTTAATGAT-A-TTTAAAA
1 TATAATT-TATATATTTAAAT-ATAATTTTAAAA
1366630 TATAATTTATATATTTAAATATAATTTTAAAA
1 TATAATTTATATATTTAAATATAATTTTAAAA
1366662 -ATAA-TTA-ATATTTA
1 TATAATTTATATATTTA
1366676 TATCCATCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 7 0.17
30 6 0.14
31 22 0.52
32 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TATAATTTATATATTTAAATATAATTTTAAAA
Found at i:1366658 original size:20 final size:20
Alignment explanation
Indices: 1366620--1366656 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
1366610 TATTTTAATG
1366620 ATATTTAAAATATAATTTAT
1 ATATTTAAAATATAATTTAT
1366640 ATATTT-AAATATAATTT
1 ATATTTAAAATATAATTT
1366657 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTAAAATATAATTTAT
Found at i:1381702 original size:61 final size:62
Alignment explanation
Indices: 1381620--1381750 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 62
1381610 ACATATTCTA
* * * *
1381620 TCAATTT-GATCCAAATATAAAAAAAT-CAACAAATTTAGCCCTTAATATTTACAGAATTTG
1 TCAATTTAGATCCAAATATAAAAAAATAAAAAAAAATTAGCCCTTAATATTTACAAAATTTG
* * * * * *
1381680 TCATTTTAGATCCAATTCTAAAAAAATAAAAAAAAATTGGCTCTTGATATTTACAAAATTTG
1 TCAATTTAGATCCAAATATAAAAAAATAAAAAAAAATTAGCCCTTAATATTTACAAAATTTG
1381742 TCAATTTAG
1 TCAATTTAG
1381751 TCTTTAACTC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 6 0.10
61 17 0.29
62 35 0.60
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (62 bp):
TCAATTTAGATCCAAATATAAAAAAATAAAAAAAAATTAGCCCTTAATATTTACAAAATTTG
Found at i:1384371 original size:17 final size:17
Alignment explanation
Indices: 1384324--1384376 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1384314 TATATACATA
1384324 TTAATAC-CCTTATTACT
1 TTAATACACCTT-TTACT
* ** *
1384341 TTAATAGATTTTTTATT
1 TTAATACACCTTTTACT
1384358 TTAATACACCTTTTACT
1 TTAATACACCTTTTACT
1384375 TT
1 TT
1384377 GTGATTTACC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.55
Consensus pattern (17 bp):
TTAATACACCTTTTACT
Found at i:1384667 original size:18 final size:17
Alignment explanation
Indices: 1384646--1384683 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
1384636 TTGTGTTATG
*
1384646 TATTTTTTTTGTATCATA
1 TATTTTTTAT-TATCATA
1384664 TA-TTTTTATTATCATA
1 TATTTTTTATTATCATA
1384680 TATT
1 TATT
1384684 CTGTTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 9 0.50
17 7 0.39
18 2 0.11
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (17 bp):
TATTTTTTATTATCATA
Found at i:1384956 original size:52 final size:53
Alignment explanation
Indices: 1384900--1385008 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 53
1384890 TATATTGTAG
**
1384900 CATATATGTTACCGTCGCATGGTATTCAT-CTGTTGATATGTTAATTATTATT
1 CATATATGTTACCGTCGCATGGTATTCATCCTGTTGATATGCCAATTATTATT
*
1384952 CATATATGTTACCGTCGCATGGTTTTCATCCTGTTGATATGCCAATTATTATT
1 CATATATGTTACCGTCGCATGGTATTCATCCTGTTGATATGCCAATTATTATT
1385005 CATA
1 CATA
1385009 CATGATTGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 28 0.53
53 25 0.47
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (53 bp):
CATATATGTTACCGTCGCATGGTATTCATCCTGTTGATATGCCAATTATTATT
Found at i:1389702 original size:6 final size:7
Alignment explanation
Indices: 1389685--1389710 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1389675 GTGAGATATT
1389685 AAAAAAG
1 AAAAAAG
1389692 AAAAAAG
1 AAAAAAG
1389699 AAAAAAG
1 AAAAAAG
1389706 AAAAA
1 AAAAA
1389711 TAGTGTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1396354 original size:15 final size:15
Alignment explanation
Indices: 1396334--1396363 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1396324 CCGTAAGTAA
1396334 CTTAGCCATTTCTAT
1 CTTAGCCATTTCTAT
1396349 CTTAGCCATTTCTAT
1 CTTAGCCATTTCTAT
1396364 TTTCCTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (15 bp):
CTTAGCCATTTCTAT
Found at i:1396957 original size:2 final size:2
Alignment explanation
Indices: 1396950--1396975 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1396940 AAAGGTAATC
1396950 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1396976 TCTACTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1400606 original size:26 final size:28
Alignment explanation
Indices: 1400577--1400628 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
1400567 CTTAAAAATG
1400577 TAAAATAAATAATT-A-AATATATGATT
1 TAAAATAAATAATTAATAATATATGATT
* *
1400603 TAAAATTAATTATTAATAATATATGA
1 TAAAATAAATAATTAATAATATATGA
1400629 AATGTATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 1 0.05
28 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (28 bp):
TAAAATAAATAATTAATAATATATGATT
Found at i:1401740 original size:14 final size:13
Alignment explanation
Indices: 1401715--1401739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1401705 ATTCAATGAG
1401715 AATTAAAAAAAAT
1 AATTAAAAAAAAT
1401728 AATTAAAAAAAA
1 AATTAAAAAAAA
1401740 AAAACAGGCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AATTAAAAAAAAT
Found at i:1408978 original size:29 final size:29
Alignment explanation
Indices: 1408946--1409022 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
1408936 GTTGTACTTT
1408946 TTTTGTATATTTAAAATTTAGTATT-TAT-A
1 TTTT-TATATTTAAAATTTAGT-TTCTATAA
* *
1408975 TTTTTATTTTTAAAAATTTAGTTTCTCTAA
1 TTTTTATATTT-AAAATTTAGTTTCTATAA
*
1409005 TTTTTAAATTTAAAATTT
1 TTTTTATATTTAAAATTT
1409023 CAGATTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 8 0.20
29 23 0.56
30 10 0.24
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTTTATATTTAAAATTTAGTTTCTATAA
Found at i:1409008 original size:30 final size:29
Alignment explanation
Indices: 1408954--1409019 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
1408944 TTTTTTGTAT
*
1408954 ATTT-AAAATTTAGTATTTATATTTTTAT
1 ATTTAAAAATTTAGTATTTATATTTTTAA
* *
1408982 TTTTAAAAATTTAGT-TTCTCTAATTTTTAA
1 ATTTAAAAATTTAGTATT-TAT-ATTTTTAA
1409012 ATTTAAAA
1 ATTTAAAA
1409020 TTTCAGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 5 0.16
29 12 0.39
30 14 0.45
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTAAAAATTTAGTATTTATATTTTTAA
Found at i:1409359 original size:2 final size:2
Alignment explanation
Indices: 1409352--1409391 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1409342 ACCTTCTTTT
1409352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1409392 CATTCAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.