Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 209 of 344
Found at i:69219062 original size:15 final size:15
Alignment explanation
Indices: 69219037--69219094 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
69219027 TCATATATAT
69219037 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
69219053 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
69219068 AATAATTTCAATCAA
1 TATAAATTCAATCAA
*
69219083 TATAAAATCAAT
1 TATAAATTCAAT
69219095 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:69220288 original size:22 final size:22
Alignment explanation
Indices: 69220263--69220309 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
69220253 AAGCTTCAAA
69220263 CCTTCAATT-TTTCCTTTTCTCC
1 CCTTC-ATTCTTTCCTTTTCTCC
* *
69220285 CCTTCTTTCTTTCTTTTTCTCC
1 CCTTCATTCTTTCCTTTTCTCC
69220307 CCT
1 CCT
69220310 GCTCTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.57
Consensus pattern (22 bp):
CCTTCATTCTTTCCTTTTCTCC
Found at i:69220377 original size:5 final size:5
Alignment explanation
Indices: 69220364--69220415 Score: 95
Period size: 5 Copynumber: 10.2 Consensus size: 5
69220354 TTCTTTAGTT
69220364 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
69220415 T
1 T
69220416 TAAAACATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 42 0.91
6 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:69220682 original size:13 final size:13
Alignment explanation
Indices: 69220664--69220698 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
69220654 TTTTATTTCG
69220664 TAAATATTTTTAA
1 TAAATATTTTTAA
69220677 TAAATATTTTTAA
1 TAAATATTTTTAA
69220690 TAAATATTT
1 TAAATATTT
69220699 ACGAATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATATTTTTAA
Found at i:69222841 original size:6 final size:6
Alignment explanation
Indices: 69222830--69222854 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69222820 TTTATCAAAT
69222830 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
69222855 ATTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:69232209 original size:23 final size:23
Alignment explanation
Indices: 69232143--69232210 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
69232133 AATATTTATA
* *
69232143 TATTTGTAATAATTTAT-TATAGT
1 TATTTATAAT-ATTTATAAATAGT
*
69232166 TATTTATAATATATATAAAATAGT
1 TATTTATAATATTTAT-AAATAGT
69232190 TATTT-TAATATTTTATAAATA
1 TATTTATAATA-TTTATAAATA
69232211 TTAAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 5 0.13
23 19 0.50
24 14 0.37
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTATAATATTTATAAATAGT
Found at i:69234484 original size:21 final size:22
Alignment explanation
Indices: 69234447--69234497 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
69234437 TGTATATACG
* *
69234447 TATATTTTATGTATATTATGTA
1 TATATTTTATATATATTATGCA
*
69234469 TATATTTTA-ATATATTATGCG
1 TATATTTTATATATATTATGCA
69234490 TATATTTT
1 TATATTTT
69234498 GTTTTGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (22 bp):
TATATTTTATATATATTATGCA
Found at i:69234487 original size:30 final size:30
Alignment explanation
Indices: 69234447--69234524 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 30
69234437 TGTATATACG
* *
69234447 TATATTTTATGTATATTATG-TATATATTT
1 TATATATTATGTATATTATGTTATATATAT
* * *
69234476 TAATATATTATGCGTATATTTTGTTTTGTATAT
1 T-ATATATTAT--GTATATTATGTTATATATAT
69234509 TATATATTATGTATAT
1 TATATATTATGTATAT
69234525 GCTTTTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
29 1 0.03
30 14 0.35
32 18 0.45
33 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.59
Consensus pattern (30 bp):
TATATATTATGTATATTATGTTATATATAT
Found at i:69255389 original size:83 final size:83
Alignment explanation
Indices: 69255250--69255416 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 83
69255240 ACCGAGAAGC
* *
69255250 AATTTGAAGTATCAAGGTGAATTAATTTTCAGCCTAAGACGGTCCAAAATTATGTGTATTAATTC
1 AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGAAGGTCCAAAATTATGTGTATTAATTC
69255315 ATAATATAATTAGTTTTA
66 ATAATATAATTAGTTTTA
*
69255333 AATTTGAACTATCAAGTTGAATTAATTTTCAGCCTAAGAAGGTCCAAAATTATGTGTATTAATTC
1 AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGAAGGTCCAAAATTATGTGTATTAATTC
69255398 ATAATATAATTAGTTTTA
66 ATAATATAATTAGTTTTA
69255416 A
1 A
69255417 TTTATATCCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (83 bp):
AATTTGAACTATCAAGGTGAATTAATTTTCAGCCTAAGAAGGTCCAAAATTATGTGTATTAATTC
ATAATATAATTAGTTTTA
Found at i:69262935 original size:17 final size:17
Alignment explanation
Indices: 69262894--69262937 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
69262884 TATATGTACT
69262894 TATTATATAAGGAAATAA
1 TATTATAT-AGGAAATAA
* * *
69262912 TAATATATAGTAAATTA
1 TATTATATAGGAAATAA
69262929 TATTATATA
1 TATTATATA
69262938 ATTAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (17 bp):
TATTATATAGGAAATAA
Found at i:69263431 original size:6 final size:6
Alignment explanation
Indices: 69263420--69263451 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
69263410 CACCATAAGG
69263420 GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
69263452 CAGGTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:69263940 original size:17 final size:18
Alignment explanation
Indices: 69263917--69263961 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
69263907 AATATATTAA
69263917 TTATATAATATAATTTAC
1 TTATATAATATAATTTAC
* *
69263935 -TATATATTATTATTTAC
1 TTATATAATATAATTTAC
69263952 TTATATAATA
1 TTATATAATA
69263962 AGTAAGTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATATAATATAATTTAC
Found at i:69270965 original size:42 final size:44
Alignment explanation
Indices: 69270892--69270993 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 44
69270882 AAGTTATTAA
* * * * *
69270892 GATTCCGTATAAGACTA-GATCCGGGATATGGCCTCGGTATG-T
1 GATTTCGTATAAGACCATGATCAGGGACATGGCCTCGATATGAT
*
69270934 GATTTCGTATAAGACCATG-TCAGGGACATGGCGTCGATATGAT
1 GATTTCGTATAAGACCATGATCAGGGACATGGCCTCGATATGAT
* *
69270977 -ATTTCATGTAAGACCAT
1 GATTTCGTATAAGACCAT
69270994 ATTGGAGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
GATTTCGTATAAGACCATGATCAGGGACATGGCCTCGATATGAT
Found at i:69273517 original size:94 final size:95
Alignment explanation
Indices: 69273383--69273557 Score: 271
Period size: 94 Copynumber: 1.9 Consensus size: 95
69273373 CTATCGGTGT
* * * *
69273383 CGATGGCATGTCCCAGATAGGTCTTACAGTAGCTTGTATATCTCGAGGTCGATGCATGTCCCTGA
1 CGATGGCATGTCCCAGACAGGTCTTACACTAGCTGGTATATCTCGAGGTCGATGCATGTCCCAGA
69273448 CATGTCTTACACTAGCTCTTGTCTCAATGC
66 CATGTCTTACACTAGCTCTTGTCTCAATGC
* * * *
69273478 CGAT-GCATGTCCCAGACATGTCTTGCACTGGCTGGTATATCTTGAGGTCGATGCATGTCCCAGA
1 CGATGGCATGTCCCAGACAGGTCTTACACTAGCTGGTATATCTCGAGGTCGATGCATGTCCCAGA
69273542 CATGTCTTACACTAGC
66 CATGTCTTACACTAGC
69273558 ACATATATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 68 0.94
95 4 0.06
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (95 bp):
CGATGGCATGTCCCAGACAGGTCTTACACTAGCTGGTATATCTCGAGGTCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTTGTCTCAATGC
Found at i:69273565 original size:48 final size:48
Alignment explanation
Indices: 69273381--69273566 Score: 214
Period size: 48 Copynumber: 3.9 Consensus size: 48
69273371 ATCTATCGGT
* * * *
69273381 GTCGATGGCATGTCCCAGATAGGTCTTACAGTAGCTTGTATATCTCGAG
1 GTCGAT-GCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCGAG
* * * *
69273430 GTCGATGCATGTCCCTGACATGTCTTACACTAGCTC-T-TGTCTCAAT
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCGAG
* * * * *
69273476 GCCGATGCATGTCCCAGACATGTCTTGCACTGGCTGGTATATCTTGAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCGAG
* *
69273524 GTCGATGCATGTCCCAGACATGTCTTACACTAGCACATATATC
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATC
69273567 ACCCAATGTC
Statistics
Matches: 112, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
46 37 0.33
47 2 0.02
48 67 0.60
49 6 0.05
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (48 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCGAG
Found at i:69281682 original size:30 final size:29
Alignment explanation
Indices: 69281635--69281895 Score: 127
Period size: 30 Copynumber: 8.8 Consensus size: 29
69281625 GATGTTTGAT
* *
69281635 ACCATTCCTTTCCATAATTCGATAGTCGA
1 ACCATCCCTTTTCATAATTCGATAGTCGA
* * * *
69281664 AGCTATCCTTTTTCATAATTTGATGGTC-A
1 A-CCATCCCTTTTCATAATTCGATAGTCGA
** *
69281693 TCACCATCCCTTTTCATTGTT-GATGGTC-A
1 --ACCATCCCTTTTCATAATTCGATAGTCGA
* * *
69281722 TCACCATCCCTTTTCATAATTTGATAGCCAA
1 --ACCATCCCTTTTCATAATTCGATAGTCGA
* * *
69281753 ATCTATCCCTTTTCATGATTCGATAGCCGA
1 A-CCATCCCTTTTCATAATTCGATAGTCGA
* * *
69281783 AGCCATCCCTTTTCATAGTTCGATGGTCGTC
1 A-CCATCCCTTTTCATAATTCGATAGTCG-A
* * ** *
69281814 ACCATTCCTTTTCGTTGTTGCTGATCGTC--
1 ACCATCCCTTTTCATAATT-C-GATAGTCGA
* *
69281843 ACCATCCCTTTTCATAATTTGATAGCTGGA
1 ACCATCCCTTTTCATAATTCGATAG-TCGA
* * * *
69281873 GCTATCCATTTTCATAGTTCGAT
1 ACCATCCCTTTTCATAATTCGAT
69281896 GATTGTCGAG
Statistics
Matches: 179, Mismatches: 41, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
27 4 0.02
28 1 0.01
29 45 0.25
30 119 0.66
31 4 0.02
32 6 0.03
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATTCGATAGTCGA
Found at i:69281852 original size:119 final size:119
Alignment explanation
Indices: 69281641--69281868 Score: 339
Period size: 119 Copynumber: 1.9 Consensus size: 119
69281631 TGATACCATT
* * * *
69281641 CCTTTCCATAATTCGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTT
1 CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
*
69281706 TCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
66 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
* * * * *
69281760 CCTTTTCATGATTCGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATTCCTTT
1 CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* * *
69281825 TCGTTGTTGCTGATCGTCACCATCCCTTTTCATAATTTGATAGC
66 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGC
69281869 TGGAGCTATC
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (119 bp):
CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
Found at i:69281878 original size:119 final size:118
Alignment explanation
Indices: 69281641--69281895 Score: 330
Period size: 119 Copynumber: 2.1 Consensus size: 118
69281631 TGATACCATT
* * * * *
69281641 CCTTTCCATAATTCGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTT
1 CCTTTTCAT-ATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* *
69281706 TCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
65 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
* * *
69281760 CCTTTTCATGATTCGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATTCCTTT
1 CCTTTTCAT-ATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* * * ***
69281825 TCGTTGTTGCTGATCGTCACCATCCCTTTTCATAATTTGATAGCTGGAGCTATC
65 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
*
69281879 CATTTTCATAGTTCGAT
1 CCTTTTCATA-TTCGAT
69281896 GATTGTCGAG
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
118 1 0.01
119 116 0.99
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (118 bp):
CCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTT
CATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
Found at i:69284728 original size:27 final size:26
Alignment explanation
Indices: 69284669--69284773 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
69284659 CCATGTTTAG
* * *
69284669 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-GTAAAATTACTGA
*
69284696 AATACCATTAGTTTGTAAAAATACTGA
1 AATACC-TTAGTTTGTAAAATTACTGA
* *
69284723 AATACCCTCGATTTGTAAAATTACTGA
1 AATACCTTAG-TTTGTAAAATTACTGA
* *
69284750 AATACCTTCGACTTGTAAAATTAC
1 AATACCTTAG-TTTGTAAAATTAC
69284774 CAAAGTACCC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.03
27 58 0.87
28 7 0.10
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (26 bp):
AATACCTTAGTTTGTAAAATTACTGA
Found at i:69284782 original size:27 final size:27
Alignment explanation
Indices: 69284708--69284773 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
69284698 TACCATTAGT
* *
69284708 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGAC
*
69284735 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
69284762 TTGTAAAATTAC
1 TTGTAAAATTAC
69284774 CAAAGTACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:69284783 original size:54 final size:54
Alignment explanation
Indices: 69284684--69284790 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
69284674 TTTAGTTTAC
* * *
69284684 TAAAATTACCGAAATACCATTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCATTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
69284738 TAAAATTACTGAAATACC-TTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCATTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
69284791 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCATTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:69284798 original size:27 final size:27
Alignment explanation
Indices: 69284768--69284828 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
69284758 CGACTTGTAA
*
69284768 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCAATTTACAG
**** *
69284795 AATTACCGTTTTACCCCCAATTTACAT
1 AATTACCAAAGTACCCCCAATTTACAG
69284822 AATTACC
1 AATTACC
69284829 GTTTTACCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCAATTTACAG
Found at i:69284990 original size:27 final size:27
Alignment explanation
Indices: 69284779--69284989 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
69284769 ATTACCAAAG
*
69284779 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
69284806 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
69284833 TACCCAT-GATTTACTTAATTATCGTTT
1 TACCC-TCGATTTACAGAATTACCGTTT
* *
69284860 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
69284887 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
69284914 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
69284941 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
69284968 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
69284990 TAAAATACCC
Statistics
Matches: 162, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 161 0.99
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:69284998 original size:27 final size:27
Alignment explanation
Indices: 69284860--69285191 Score: 104
Period size: 27 Copynumber: 12.2 Consensus size: 27
69284850 ATTATCGTTT
* *****
69284860 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ***
69284887 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
69284914 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
69284941 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
69284968 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* **
69284995 TACCCT-TAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* ** *
69285022 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* *** **
69285049 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
69285076 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
69285103 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
69285130 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
69285159 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
69285186 TACCCT
1 TACCCT
69285192 TAGTTTGTAG
Statistics
Matches: 257, Mismatches: 33, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
26 4 0.02
27 226 0.88
28 8 0.03
29 19 0.07
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:69284999 original size:81 final size:81
Alignment explanation
Indices: 69284725--69285000 Score: 216
Period size: 81 Copynumber: 3.4 Consensus size: 81
69284715 AATACTGAAA
** ** * * * * *** *
69284725 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
69284790 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * * **** * *
69284806 TACCCCCAATTTACATAATTACCGTTTTACCCAT-GATTTACT-TAATTA-TCGTTTTACCCTCG
1 TACCCTCGATTTACAAAATTACCAAAATACCC-TCGATTTA-TAAAATTACT-ATTTTACCCTCG
* *
69284868 ACTTACAAAATTACCGTTT
63 ATTTACAGAATTACCGTTT
* * *** * *
69284887 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
*
69284952 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
*
69284968 TACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACCAAAATACCCT
69285001 TAGTTTGTAA
Statistics
Matches: 151, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
80 2 0.01
81 146 0.97
82 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:69285015 original size:54 final size:54
Alignment explanation
Indices: 69284766--69285001 Score: 177
Period size: 54 Copynumber: 4.4 Consensus size: 54
69284756 TTCGACTTGT
* * ** * * *
69284766 AAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCCCCAATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
* ***** * ** *
69284820 ATAATTACCGTTTTACCCATGATTTACTTAATTA-TCGTTTTACCCTCGACTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACT-GTTTTACCCTCGATTTAC
***** * * ** *
69284874 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
* ***
69284928 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
69284982 AAAATTACTAAAATACCCTT
1 AAAATTACTAAAATACCCTT
69285002 AGTTTGTAAA
Statistics
Matches: 145, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
54 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
Found at i:69285130 original size:54 final size:53
Alignment explanation
Indices: 69284941--69285217 Score: 150
Period size: 54 Copynumber: 5.1 Consensus size: 53
69284931 ATTACTATTT
* * *** * ** *
69284941 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCCTGATTTACA-AATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
* * *
69284995 TACCCTTAGTTTGTA-AAATTATCA-AAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCCT-GATT-TACAAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAA
* ** *
69285049 TA-CCCTTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCCTGA-TTT-ACAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
* * * *
69285103 TACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCCTGATTTACAAA-TTACAGAAATACCC-TCAATTTGT-AAAATTACCA-AAA
** * * * * * *
69285159 TACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAA
1 TACCCCTGATTTAC-AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
*
69285213 CACCC
1 TACCC
69285218 TTGTAGGATG
Statistics
Matches: 171, Mismatches: 36, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
52 1 0.01
53 10 0.06
54 96 0.56
55 25 0.15
56 36 0.21
57 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (53 bp):
TACCCCTGATTTACAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:69285207 original size:27 final size:27
Alignment explanation
Indices: 69284982--69285219 Score: 189
Period size: 27 Copynumber: 8.7 Consensus size: 27
69284972 CTCGATTTAC
69284982 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
*
69285009 AAAATTA-TCAAAATACCCCTAGTTTGT
1 AAAATTACT-AAAATACCCTTAGTTTGT
*
69285036 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* ** * *
69285063 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * *
69285090 AAAATTACCAAAATACCCCT-GATT-T
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
69285115 ACAAAGTTAC-AGAAATACCCTTGACTTTCT
1 A-AAA-TTACTA-AAATACCCTT-AGTTTGT
* * **
69285145 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTAGTTTGT
*
69285173 AAAATTACTGAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * * *
69285200 AGATTTACCAAAACACCCTT
1 AAAATTACTAAAATACCCTT
69285220 GTAGGATGAA
Statistics
Matches: 169, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 135 0.80
28 4 0.02
29 16 0.09
30 4 0.02
31 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAGTTTGT
Found at i:69285315 original size:27 final size:27
Alignment explanation
Indices: 69285238--69285315 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
69285228 AAATGACTAA
* * *
69285238 AATACCCCTAT-TAGGTAAAAAGATCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
69285265 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
69285292 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
69285316 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:69286507 original size:25 final size:25
Alignment explanation
Indices: 69286475--69286522 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
69286465 TTATAATATG
* *
69286475 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
69286500 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
69286523 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:69286573 original size:9 final size:9
Alignment explanation
Indices: 69286561--69286617 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
69286551 TTTGATAAAC
69286561 ATGATATGT
1 ATGATATGT
*
69286570 ATGATATGCAC
1 ATGATATG--T
*
69286581 ATGACATGT
1 ATGATATGT
*
69286590 ATGATATGCAC
1 ATGATATG--T
69286601 ATGATATGT
1 ATGATATGT
69286610 ATGATATG
1 ATGATATG
69286618 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:69286584 original size:20 final size:20
Alignment explanation
Indices: 69286559--69286629 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
69286549 ATTTTGATAA
69286559 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69286579 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
69286599 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
69286619 ACATGAGATGT
1 ACATGATATGT
69286630 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:69286606 original size:11 final size:11
Alignment explanation
Indices: 69286570--69286624 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
69286560 CATGATATGT
69286570 ATGATATGCAC
1 ATGATATGCAC
* *
69286581 ATGACATG--T
1 ATGATATGCAC
69286590 ATGATATGCAC
1 ATGATATGCAC
*
69286601 ATGATATG--T
1 ATGATATGCAC
69286610 ATGATATGCAC
1 ATGATATGCAC
69286621 ATGA
1 ATGA
69286625 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:69286704 original size:25 final size:25
Alignment explanation
Indices: 69286676--69286770 Score: 165
Period size: 25 Copynumber: 3.8 Consensus size: 25
69286666 AGGAAGTGCA
69286676 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
69286701 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
69286726 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
69286750 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
69286771 CTAAAAGAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 21 0.31
25 47 0.69
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:69286782 original size:25 final size:24
Alignment explanation
Indices: 69286675--69286796 Score: 158
Period size: 25 Copynumber: 5.0 Consensus size: 24
69286665 GAGGAAGTGC
69286675 AAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
69286699 ATAAAGGGCTTATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
*
69286724 ATAAAGGGCTTATGCCCCAGTTATA
1 A-AAAGGGCTTATGCCCCAGTTATG
*
69286749 AAAAGGGCTTTTGCCCCAGTTACT-
1 AAAAGGGCTTATGCCCCAGTTA-TG
*
69286773 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
69286797 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
24 31 0.34
25 59 0.66
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATG
Found at i:69286793 original size:49 final size:49
Alignment explanation
Indices: 69286676--69286797 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
69286666 AGGAAGTGCA
* *
69286676 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTAGGCCCCAGTTAT-AAAAAGGGCTTATGCCCCAGTTATGAT
* *
69286726 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACT-A-
1 AAAGGGCTTAGGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-TGAT
69286774 AAAGAGGC-TAGGCCTCCAGTTATA
1 AAAG-GGCTTAGGCC-CCAGTTATA
69286798 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
48 9 0.14
49 34 0.52
50 23 0.35
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (49 bp):
AAAGGGCTTAGGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTATGAT
Found at i:69287025 original size:31 final size:31
Alignment explanation
Indices: 69286990--69287053 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
69286980 CATTTACAGT
*
69286990 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
69287021 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
69287052 AA
1 AA
69287054 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:69294352 original size:23 final size:25
Alignment explanation
Indices: 69294301--69294356 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
69294291 ACACTATTAT
69294301 GCATGTCTGACTATTCTAGTATATA
1 GCATGTCTGACTATTCTAGTATATA
*
69294326 -CATGTCTG-TTA-TCT-GTATATAA
1 GCATGTCTGACTATTCTAGTATAT-A
69294348 GCATG-CTGA
1 GCATGTCTGA
69294357 GCATGTCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
21 6 0.22
22 7 0.26
23 6 0.22
24 8 0.30
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (25 bp):
GCATGTCTGACTATTCTAGTATATA
Found at i:69300088 original size:21 final size:20
Alignment explanation
Indices: 69300050--69300089 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
69300040 CTCTTGAAAC
*
69300050 AGGGCACACGTCCGTGTGGA
1 AGGGCACACGCCCGTGTGGA
*
69300070 AGGGCAACACGCCCTTGTGG
1 AGGGC-ACACGCCCGTGTGG
69300090 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:69301346 original size:49 final size:49
Alignment explanation
Indices: 69301273--69301395 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
69301263 TGCCAACGCA
* *
69301273 ATGTCCCAGACATGGTCTTACACTGGCTTTCATATAG-CGAG-G-CTGATGCC
1 ATGTCCCAGACA-GGTCTTACACTGGCTCTCATAT-GTCG-GTGTC-AATGCC
* *
69301323 ATGTCCCGGACAGGTCTTACACTGGCTCTCATCTGTCGGTGTCAATGCC
1 ATGTCCCAGACAGGTCTTACACTGGCTCTCATATGTCGGTGTCAATGCC
69301372 ATGTCCCAGACAGGTCTTACACTG
1 ATGTCCCAGACAGGTCTTACACTG
69301396 ACACACAACA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
48 2 0.03
49 51 0.78
50 12 0.18
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTGGCTCTCATATGTCGGTGTCAATGCC
Found at i:69301433 original size:44 final size:44
Alignment explanation
Indices: 69301370--69301482 Score: 172
Period size: 44 Copynumber: 2.6 Consensus size: 44
69301360 GGTGTCAATG
* *
69301370 CCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACA
1 CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
* * *
69301414 CCATGTCCCAGACAGGTCTTAGAATGAAACACAACAAGCTAACG
1 CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
*
69301458 CCATGTCCCAGACAAGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
69301483 AGCTTGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.18
Consensus pattern (44 bp):
CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
Found at i:69306038 original size:13 final size:14
Alignment explanation
Indices: 69306012--69306044 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
69306002 GAGCTCGCAT
69306012 AAAACATATCTTTA
1 AAAACATATCTTTA
69306026 AAAACATAT-TTTA
1 AAAACATATCTTTA
69306039 AAAACA
1 AAAACA
69306045 GAGTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAACATATCTTTA
Found at i:69309581 original size:80 final size:80
Alignment explanation
Indices: 69309448--69309601 Score: 281
Period size: 80 Copynumber: 1.9 Consensus size: 80
69309438 TAATGTGTAA
*
69309448 TGTTACAGCTCCAAACTCTTCTATTGGAAACTTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
1 TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
69309513 ATAGAACATCAACTT
66 ATAGAACATCAACTT
* *
69309528 TGTTACAGGTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTTTTGTTCCACTTTATGTTCGA
1 TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
69309593 ATAGAACAT
66 ATAGAACAT
69309602 TAAATTTGGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (80 bp):
TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGGCTACTCTTGTTCCACTTTATGTTCGA
ATAGAACATCAACTT
Found at i:69312858 original size:28 final size:29
Alignment explanation
Indices: 69312824--69312886 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
69312814 GATGTTTAAG
69312824 TACTTAAATCATAGTTGAATGGTAAG-TT
1 TACTTAAATCATAGTTGAATGGTAAGTTT
**
69312852 TACTTAAATTGTAGTTGAATGGTAAGTTT
1 TACTTAAATCATAGTTGAATGGTAAGTTT
69312881 TACTTA
1 TACTTA
69312887 TTAAGCATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (29 bp):
TACTTAAATCATAGTTGAATGGTAAGTTT
Found at i:69325028 original size:19 final size:19
Alignment explanation
Indices: 69325006--69325047 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
69324996 TTTATTACTA
* * *
69325006 TATATATTTTTTAAAATTT
1 TATATATTCTTCAAAATAT
69325025 TATATATTCTTCAAAATAT
1 TATATATTCTTCAAAATAT
69325044 TATA
1 TATA
69325048 GACATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATATTCTTCAAAATAT
Found at i:69328238 original size:25 final size:26
Alignment explanation
Indices: 69328188--69328252 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
69328178 ATATTAATAA
*
69328188 AAATATAAATAAAGCAAAATAAAAATG
1 AAATAGAAATAAAG-AAAATAAAAATG
* * *
69328215 CAATAGAAATAAAG-AAATAGAAATT
1 AAATAGAAATAAAGAAAATAAAAATG
*
69328240 AAATAGGAATAAA
1 AAATAGAAATAAA
69328253 CCAATAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 20 0.62
27 12 0.38
ACGTcount: A:0.68, C:0.03, G:0.11, T:0.18
Consensus pattern (26 bp):
AAATAGAAATAAAGAAAATAAAAATG
Found at i:69328258 original size:25 final size:24
Alignment explanation
Indices: 69328188--69328262 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
69328178 ATATTAATAA
* *
69328188 AAATATAAATAAAGCAAAATAAAAATG
1 AAATAGAAATAAA-C-AAAT-AAAATT
* *
69328215 CAATAGAAATAAAGAAATAGAAATT
1 AAATAGAAATAAACAAATA-AAATT
* *
69328240 AAATAGGAATAAACCAATAAAAT
1 AAATAGAAATAAACAAATAAAAT
69328263 GTAATCTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 5 0.13
25 23 0.59
27 11 0.28
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (24 bp):
AAATAGAAATAAACAAATAAAATT
Found at i:69329562 original size:13 final size:13
Alignment explanation
Indices: 69329542--69329577 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
69329532 ACTACGTTAG
69329542 TAAAAAAATATATT
1 TAAAAAAA-ATATT
*
69329556 TAAAAAAAATCTT
1 TAAAAAAAATATT
69329569 TAAAAAAAA
1 TAAAAAAAA
69329578 AATTCTAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAAAAATATT
Found at i:69330181 original size:10 final size:10
Alignment explanation
Indices: 69330130--69330187 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
69330120 TTTTTAGTAG
69330130 TTTTATATA-
1 TTTTATATAT
69330139 -TTTATAT-T
1 TTTTATATAT
* *
69330147 TATTATAAAT
1 TTTTATATAT
*
69330157 TTTAAT-TAT
1 TTTTATATAT
69330166 TTTTATATAT
1 TTTTATATAT
*
69330176 TTTTATAAAT
1 TTTTATATAT
69330186 TT
1 TT
69330188 AATAAATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
8 7 0.18
9 12 0.32
10 19 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATATAT
Found at i:69334047 original size:25 final size:26
Alignment explanation
Indices: 69334019--69334068 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
69334009 AAAACCATAA
69334019 CCATTTCTAAT-TTTTTTTCATTTCT
1 CCATTTCTAATATTTTTTTCATTTCT
*
69334044 CCATTTCTATTCATTTTTTTCATTT
1 CCATTTCTAAT-ATTTTTTTCATTT
69334069 TGATCCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
27 12 0.55
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (26 bp):
CCATTTCTAATATTTTTTTCATTTCT
Found at i:69341129 original size:40 final size:40
Alignment explanation
Indices: 69341031--69341257 Score: 393
Period size: 40 Copynumber: 5.7 Consensus size: 40
69341021 GCAAACACAT
* *
69341031 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
69341071 TTG-CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
69341110 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
69341150 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
69341190 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
69341230 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
69341258 TCCAATGCTC
Statistics
Matches: 177, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 37 0.21
40 140 0.79
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:69349664 original size:40 final size:40
Alignment explanation
Indices: 69349616--69349843 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
69349606 GCAAACACAT
* * *
69349616 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
69349656 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
69349696 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
69349736 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
69349776 TTGCCTTCGGTTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
69349816 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
69349844 TCCAATGCTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:69350686 original size:20 final size:21
Alignment explanation
Indices: 69350648--69350687 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
69350638 AAATTTTATC
*
69350648 TTATAATCATTTTTGTAAAAT
1 TTATAATCATTTTTCTAAAAT
*
69350669 TTATAATGA-TTTTCTAAAA
1 TTATAATCATTTTTCTAAAA
69350688 ACAGAACAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATAATCATTTTTCTAAAAT
Found at i:69369786 original size:40 final size:41
Alignment explanation
Indices: 69369731--69369922 Score: 248
Period size: 40 Copynumber: 4.8 Consensus size: 41
69369721 ATTTGAATGA
* *
69369731 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* *
69369771 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* *
69369811 GATCCGGGCTAAGACCCGAAGGAATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
69369852 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
69369892 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
69369923 TGTGGTAATA
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
40 133 0.96
41 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (41 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
Found at i:69378841 original size:21 final size:21
Alignment explanation
Indices: 69378817--69378862 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
69378807 AAATGAAAGG
69378817 TTGTTGATAGATAAACAACTT
1 TTGTTGATAGATAAACAACTT
*
69378838 TTGTTGATAGGTAAACAACTT
1 TTGTTGATAGATAAACAACTT
69378859 TTGT
1 TTGT
69378863 AAAGTGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGTTGATAGATAAACAACTT
Found at i:69379134 original size:20 final size:20
Alignment explanation
Indices: 69379089--69379126 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
69379079 TCCTAGGGTG
*
69379089 TGAACTGGATTAAATTGAGT
1 TGAAATGGATTAAATTGAGT
69379109 TGAAATGGATTAAATTGA
1 TGAAATGGATTAAATTGA
69379127 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (20 bp):
TGAAATGGATTAAATTGAGT
Found at i:69379646 original size:25 final size:24
Alignment explanation
Indices: 69379610--69379661 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
69379600 CACAAACGCA
*
69379610 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTAATAT-G
* *
69379635 GCTCTTTTTGAGCTTCCTAATATG
1 GCTCTTTATGAGCGTCCTAATATG
69379659 GCT
1 GCT
69379662 AACTTGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTAATATG
Found at i:69382400 original size:30 final size:29
Alignment explanation
Indices: 69382366--69382422 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
69382356 GATGAAAAAT
*
69382366 TAAATACTGAATTTTTAGTATAGAAATTTA
1 TAAATACTGAATTTATAGTATA-AAATTTA
* *
69382396 TAAATATTGAATTTATATTATAAAATT
1 TAAATACTGAATTTATAGTATAAAATT
69382423 GTTTGGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (29 bp):
TAAATACTGAATTTATAGTATAAAATTTA
Found at i:69389439 original size:47 final size:45
Alignment explanation
Indices: 69389327--69389453 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 45
69389317 GGTTATGTGT
69389327 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGA
* * *
69389373 GAGCCATTGTAAGACCATGTCTGGGACATGGCAT-TG-ACATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT-ATGA
*
69389418 CGAGTACTAGTGTAAGACATGTCTGGGATATGCATC
1 -GAG--CTAGTGTAAGACATGTCTGGGACATGCATC
69389454 AGCCTTGGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
45 7 0.10
46 20 0.29
47 28 0.41
48 13 0.19
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGA
Found at i:69389583 original size:50 final size:49
Alignment explanation
Indices: 69389527--69389639 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
69389517 GTCTGAAACT
* * * * * *
69389527 ATGTCTGGGACATGGCATCGGCATGGTTATG-TGAGAGCTATTGTAAGACC
1 ATGTCTGGGACATGGCATCAGCATCG--AAGATGACAGCCAGTGTAAGACC
* *
69389577 ATGTCTGGTACATGGCATCAGCCTCGAAGATGACAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCAGCATCGAAGATGACAGCCAGTGTAAGACC
69389626 ATGTCTGGGACATG
1 ATGTCTGGGACATG
69389640 AATCGACACT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
48 2 0.04
49 29 0.55
50 22 0.42
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
ATGTCTGGGACATGGCATCAGCATCGAAGATGACAGCCAGTGTAAGACC
Found at i:69403677 original size:17 final size:17
Alignment explanation
Indices: 69403655--69403689 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
69403645 GCCAGGGAAG
69403655 ATAAGACATATTACATT
1 ATAAGACATATTACATT
69403672 ATAAGACATATTACATT
1 ATAAGACATATTACATT
69403689 A
1 A
69403690 CCATCTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAGACATATTACATT
Found at i:69408723 original size:21 final size:21
Alignment explanation
Indices: 69408697--69408790 Score: 116
Period size: 21 Copynumber: 4.4 Consensus size: 21
69408687 CTTGATCAGT
** * *
69408697 ATACGACACATAAAGTGTCTG
1 ATACGACACACGAGGTGCCTG
*
69408718 ATACGACACACGAGGTGCTTG
1 ATACGACACACGAGGTGCCTG
69408739 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
69408760 ATATGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
69408781 AAATACGACA
1 --ATACGACA
69408791 GATAAAGTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 56 0.89
23 7 0.11
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:69408744 original size:42 final size:43
Alignment explanation
Indices: 69408697--69408805 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 43
69408687 CTTGATCAGT
*
69408697 ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCTTG-
1 ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTGA
** * * *
69408739 ATACGACACACGAGGTGCCTGATATGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTG-A
*
69408783 ATACGACAGATAAAGTGTCTGAT
1 ATACGACACATAAAGTGTCTGAT
69408806 CAGTAAAGCC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (43 bp):
ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTGA
Found at i:69409200 original size:15 final size:15
Alignment explanation
Indices: 69409175--69409232 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
69409165 TCATATATAT
69409175 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
69409191 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
69409206 AATAATTTCAATCAA
1 TATAAATTCAATCAA
69409221 TATAAATTCAAT
1 TATAAATTCAAT
69409233 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:69410516 original size:5 final size:5
Alignment explanation
Indices: 69410503--69410544 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
69410493 TTCTTTAGTT
69410503 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
69410545 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:69412284 original size:31 final size:31
Alignment explanation
Indices: 69412217--69412284 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
69412207 TTTTAACGGC
*
69412217 AGTGACTAGTTTAATCAATTATCTTAATAAG
1 AGTGATTAGTTTAATCAATTATCTTAATAAG
*
69412248 AGTGATTAGTTTAATCAATTATCTTAATTAG
1 AGTGATTAGTTTAATCAATTATCTTAATAAG
69412279 AGTGAT
1 AGTGAT
69412285 CAAATTGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (31 bp):
AGTGATTAGTTTAATCAATTATCTTAATAAG
Found at i:69417746 original size:11 final size:11
Alignment explanation
Indices: 69417730--69417760 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69417720 TAGAATATAC
69417730 CCCATACCTTG
1 CCCATACCTTG
*
69417741 CCCATACCTTT
1 CCCATACCTTG
69417752 CCCATACCT
1 CCCATACCT
69417761 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:69418333 original size:18 final size:18
Alignment explanation
Indices: 69418306--69418398 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
69418296 TACGACCGTT
69418306 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
69418324 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
69418342 TACAGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
69418360 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
69418378 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
69418396 TAC
1 TAC
69418399 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:69422463 original size:11 final size:11
Alignment explanation
Indices: 69422447--69422477 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
69422437 TAGAATATAC
69422447 CCCATACCTTG
1 CCCATACCTTG
*
69422458 CCCATACCTTT
1 CCCATACCTTG
69422469 CCCATACCT
1 CCCATACCT
69422478 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:69426270 original size:23 final size:24
Alignment explanation
Indices: 69426239--69426294 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
69426229 ATATTATTTT
*
69426239 TATTTTTTTAAATATTT-AT-ATTA
1 TATTATTTT-AATATTTAATAATTA
69426262 TATTATTTTAATATTTAATAATTA
1 TATTATTTTAATATTTAATAATTA
69426286 TATATATTT
1 TAT-TATTT
69426295 AAAGTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 7 0.24
23 10 0.34
24 7 0.24
25 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATTTTAATATTTAATAATTA
Found at i:69427285 original size:22 final size:19
Alignment explanation
Indices: 69427241--69427286 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
69427231 TTTGCTTTGG
*
69427241 TTGTTATTTTTTGTTAAAT
1 TTGTTATTTTTTGTTAAAA
69427260 TTGTTATTTTTTTGTTATAGAA
1 TTGTTA-TTTTTTGTTA-A-AA
69427282 TTGTT
1 TTGTT
69427287 TAAGTGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 10 0.43
21 1 0.04
22 6 0.26
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (19 bp):
TTGTTATTTTTTGTTAAAA
Found at i:69436072 original size:21 final size:21
Alignment explanation
Indices: 69436048--69436119 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
69436038 TGATCTGTAC
69436048 TCATTGAATTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
* **
69436069 TCA-TGATATTTGTGACATCTGAAC
1 TCATTGA-A-TTGTG--GTCTGAGT
*
69436093 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
69436114 TC-TTGA
1 TCATTGA
69436120 TGTATGTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
20 7 0.18
21 11 0.28
22 5 0.13
23 5 0.13
24 8 0.21
25 3 0.08
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (21 bp):
TCATTGAATTGTGGTCTGAGT
Found at i:69436097 original size:45 final size:45
Alignment explanation
Indices: 69436040--69436130 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
69436030 AATTATTGTG
* *
69436040 ATCTGTACTCATTGAATTGTGGTCTGAGTTCATGATATTTGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
* * *
69436085 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCTTGATGTATGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
69436130 A
1 A
69436131 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (45 bp):
ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:69439133 original size:29 final size:29
Alignment explanation
Indices: 69439091--69439148 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
69439081 AGATGTCTGT
69439091 GTGTGACAGTTACAGTTGAAATGAATATG
1 GTGTGACAGTTACAGTTGAAATGAATATG
69439120 GTGTGACAGTTACAGTTGAAATGAATATG
1 GTGTGACAGTTACAGTTGAAATGAATATG
69439149 ATGATCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (29 bp):
GTGTGACAGTTACAGTTGAAATGAATATG
Found at i:69442116 original size:16 final size:16
Alignment explanation
Indices: 69442095--69442143 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
69442085 TTAAACTTTA
*
69442095 TATTTTATGAATTATT
1 TATTTTATGATTTATT
*
69442111 TATTTTTAT-TTTTATT
1 TA-TTTTATGATTTATT
69442127 TATTTTATGATTTATT
1 TATTTTATGATTTATT
69442143 T
1 T
69442144 CAAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.21
16 16 0.57
17 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTTATGATTTATT
Found at i:69443294 original size:25 final size:23
Alignment explanation
Indices: 69443265--69443310 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
69443255 AATAAAAAAC
*
69443265 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
69443290 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
69443311 TTAAAACAAA
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:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:69443318 original size:12 final size:12
Alignment explanation
Indices: 69443300--69443339 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
69443290 TTTAAAACAT
*
69443300 AAAAACAAATAT
1 AAAAACAAATAA
* *
69443312 TAAAACAAAAAA
1 AAAAACAAATAA
69443324 AAAAACAAATAA
1 AAAAACAAATAA
69443336 AAAA
1 AAAA
69443340 TAAGATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAACAAATAA
Found at i:69443571 original size:17 final size:18
Alignment explanation
Indices: 69443528--69443573 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
69443518 CTAAAGTTAC
*
69443528 TTAAAATTAAAAATAAAT
1 TTAATATTAAAAATAAAT
* *
69443546 TT-TTTTTAAAAAT-AAT
1 TTAATATTAAAAATAAAT
69443562 TTAATATTAAAA
1 TTAATATTAAAA
69443574 TCGGGCCGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATATTAAAAATAAAT
Found at i:69446613 original size:21 final size:21
Alignment explanation
Indices: 69446589--69446658 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
69446579 TGATCTGAAC
69446589 TCATTGAGTTGTGGTTTGAGT
1 TCATTGAGTTGTGGTTTGAGT
* * **
69446610 TCA-TGATATTTGTGACATTTGAAC
1 TCATTG--AGTTGTG--GTTTGAGT
*
69446634 TCATTGAGTTGTGGTATGAGT
1 TCATTGAGTTGTGGTTTGAGT
69446655 TCAT
1 TCAT
69446659 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 2 0.06
21 11 0.31
22 6 0.17
23 6 0.17
24 8 0.23
25 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.44
Consensus pattern (21 bp):
TCATTGAGTTGTGGTTTGAGT
Found at i:69446638 original size:45 final size:45
Alignment explanation
Indices: 69446584--69446671 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
69446574 TATTGTGATC
* *
69446584 TGAACTCATTGAGTTGTGGTTTGAGTTCATGATATTTGTGACATT
1 TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACATT
*
69446629 TGAACTCATTGAGTTGTGGTATGAGTTCATGATGTATGTGACA
1 TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACA
69446672 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (45 bp):
TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACATT
Found at i:69459326 original size:28 final size:29
Alignment explanation
Indices: 69459271--69459326 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
69459261 TACAGGGGTT
*
69459271 TTCACACGGCCAAGCACATGTCTATGTCC
1 TTCACACGGCCAAGCACACGTCTATGTCC
* *
69459300 TTCACACGGCCTA-CACACGTCTTTGTC
1 TTCACACGGCCAAGCACACGTCTATGTC
69459327 ATCGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.21, C:0.36, G:0.16, T:0.27
Consensus pattern (29 bp):
TTCACACGGCCAAGCACACGTCTATGTCC
Found at i:69469113 original size:43 final size:43
Alignment explanation
Indices: 69469057--69469228 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 43
69469047 AGCTCGTACA
* * * *
69469057 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
69469100 ATGTCACTGTCCCAGACATGGTCTTACACAAAATGAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
69469142 ATGCCAATATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCC
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* ** *
69469186 ATGCCAATGTCCTAGATGTGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
69469229 GAATCCTATG
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 29 0.28
43 45 0.44
44 29 0.28
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:69477563 original size:68 final size:67
Alignment explanation
Indices: 69477491--69477676 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
69477481 CATCATGTGT
* * *
69477491 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
69477553 ATGTAG
62 ATGTAG
** * * *
69477559 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
69477624 AG
66 AG
* * *
69477626 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
69477677 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:69477596 original size:64 final size:64
Alignment explanation
Indices: 69477515--69477698 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
69477505 AGACATTATG
* *
69477515 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
69477579 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
69477644 AA
63 AA
* * * *
69477646 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
69477699 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69481800 original size:10 final size:10
Alignment explanation
Indices: 69481785--69481823 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
69481775 TGTTTTTGTA
69481785 CATGATATGC
1 CATGATATGC
69481795 CATGATATGC
1 CATGATATGC
69481805 ACATGATATGC
1 -CATGATATGC
69481816 CATGATAT
1 CATGATAT
69481824 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:69481809 original size:21 final size:21
Alignment explanation
Indices: 69481784--69481823 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
69481774 CTGTTTTTGT
69481784 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
69481805 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
69481824 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:69481904 original size:25 final size:25
Alignment explanation
Indices: 69481870--69481939 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
69481860 AAGAAGTGCT
* *
69481870 AAAAGGGCTTTGCCTTAGTTTACCG
1 AAAAGGGCTTTGCCATAGTTTACCA
* *
69481895 AAAAGGGCTTTGCCACAGTTTATCA
1 AAAAGGGCTTTGCCATAGTTTACCA
*
69481920 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCATAGTT
69481940 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTGCCATAGTTTACCA
Found at i:69481952 original size:24 final size:25
Alignment explanation
Indices: 69481869--69481952 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
69481859 GAAGAAGTGC
* *
69481869 TAAAAGGGCTTTGCC-TTAGTTTACC
1 TAAAAGGGCTTTGCCACTAGTTTA-T
*
69481894 GAAAAGGGCTTTGCCAC-AGTTTAT
1 TAAAAGGGCTTTGCCACTAGTTTAT
*
69481918 CAAAAAGGGCTTTGCC-CTAG-TTAT
1 -TAAAAGGGCTTTGCCACTAGTTTAT
69481942 TAAAAGAGGCT
1 TAAAAG-GGCT
69481953 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.10
24 9 0.18
25 36 0.72
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (25 bp):
TAAAAGGGCTTTGCCACTAGTTTAT
Found at i:69490931 original size:42 final size:42
Alignment explanation
Indices: 69490831--69490976 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 42
69490821 AGCTCGTACA
* * *
69490831 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GCTTTTACATGAAATCAAATA-CG
69490874 ATGCC-ACTGTCCCAGACAGGCTTTTACATGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACAGGCTTTTACATGAAATCAAATACG
* **
69490916 ATGCCAATGTCCCAGACATGGTCTTACACAT-AAATTTCAAAT-CG
1 ATGCCAACGTCCCAGACA-GG-CTTTTACATGAAA--TCAAATACG
*
69490960 ATGCCAACGCCCCAGAC
1 ATGCCAACGTCCCAGAC
69490977 GTGGTCTTAC
Statistics
Matches: 88, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
42 19 0.22
43 38 0.43
44 25 0.28
45 6 0.07
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGCTTTTACATGAAATCAAATACG
Found at i:69507973 original size:40 final size:40
Alignment explanation
Indices: 69507790--69507959 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
69507780 TCCTCGTTCA
* * * * *
69507790 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA-T
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
69507829 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
69507869 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
69507909 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
69507949 AAGGCCTTCGG
1 AATGCCTTCGG
69507960 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:69511819 original size:13 final size:13
Alignment explanation
Indices: 69511811--69511867 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
69511801 AAAAATGGTA
69511811 ATATGAAATGGAT
1 ATATGAAATGGAT
**
69511824 ATATGAAATGTTT
1 ATATGAAATGGAT
**
69511837 ATATGGAAATAAAT
1 ATAT-GAAATGGAT
* *
69511851 GTATGAAATGGTT
1 ATATGAAATGGAT
69511864 ATAT
1 ATAT
69511868 ACCACCTCCG
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (13 bp):
ATATGAAATGGAT
Found at i:69511932 original size:30 final size:30
Alignment explanation
Indices: 69511896--69511959 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
69511886 AATGTTCAGA
69511896 GTAGAAATAATGTACAAAATATATTAAAAG
1 GTAGAAATAATGTACAAAATATATTAAAAG
** *
69511926 GTAGAAATCCTGTACAAAATATGTTAAAAG
1 GTAGAAATAATGTACAAAATATATTAAAAG
69511956 GTAG
1 GTAG
69511960 TATTCGCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (30 bp):
GTAGAAATAATGTACAAAATATATTAAAAG
Found at i:69519153 original size:21 final size:21
Alignment explanation
Indices: 69519128--69519178 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
69519118 GATCTTTCCT
69519128 ATTTCACTTGGTTTTTAAAAA
1 ATTTCACTTGGTTTTTAAAAA
69519149 ATTTCACTTGGTTTTTAAAAA
1 ATTTCACTTGGTTTTTAAAAA
69519170 ATTTCACTT
1 ATTTCACTT
69519179 TTATGTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (21 bp):
ATTTCACTTGGTTTTTAAAAA
Found at i:69524765 original size:47 final size:46
Alignment explanation
Indices: 69524656--69524775 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
69524646 TTACTGTGAG
* *
69524656 CTAGTGTAAGACATGTCTGGGACAT-GTATCAGCCACATTACGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGGCATCAG-CACATTACGAGAA
* *
69524702 CCAGTGTAAGACCATGTCTGGGACATGGCATC-G-GCATTGAGACGAGAA
1 CTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCACATT---ACGAGAA
69524750 CTAGTGTAAGACATGTCTGGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
69524776 CATGTTGATG
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
45 4 0.06
46 10 0.16
47 30 0.47
48 20 0.31
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGGCATCAGCACATTACGAGAA
Found at i:69529546 original size:27 final size:26
Alignment explanation
Indices: 69529505--69529555 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
69529495 AAACAACAAA
*
69529505 TGTGGCAAAGTCACCAGTATCAGTAAT
1 TGTGGCAAAGCCACCAGTA-CAGTAAT
*
69529532 TGTGGCATAGCCACCAGTACAGTA
1 TGTGGCAAAGCCACCAGTACAGTA
69529556 CTTCCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
TGTGGCAAAGCCACCAGTACAGTAAT
Found at i:69534429 original size:28 final size:27
Alignment explanation
Indices: 69534337--69534440 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
69534327 AGGAAGCGTC
* *
69534337 CTGGTGGCTATGCTACAATTAT-TG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
69534363 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
69534390 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
** *
69534418 CTGGTGATTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
69534441 ATTTTGGCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.03
26 17 0.25
27 33 0.49
28 16 0.24
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:69544073 original size:22 final size:22
Alignment explanation
Indices: 69544045--69544121 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
69544035 GTGTTGAAGA
69544045 CACACGGGCGTGTCCCTGTGTC
1 CACACGGGCGTGTCCCTGTGTC
* *
69544067 CACACGGGCATGCCCCTGTGTC
1 CACACGGGCGTGTCCCTGTGTC
69544089 CACACGGGCGTGTCCCTGTGTC
1 CACACGGGCGTGTCCCTGTGTC
*
69544111 CACATGGGCGT
1 CACACGGGCGT
69544122 ATGGCTTCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.12, C:0.36, G:0.31, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTCCCTGTGTC
Found at i:69547382 original size:46 final size:46
Alignment explanation
Indices: 69547332--69547451 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 46
69547322 AGCATCTGAG
*
69547332 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAA
* * * *
69547378 CTCGTTGAGTTGAGTCCTAGTTCATTTATGGATGCGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAA
69547424 CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
69547452 GGGGCGGGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAA
Found at i:69560252 original size:22 final size:23
Alignment explanation
Indices: 69560227--69560278 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
69560217 AGAATTGAGT
69560227 TAGCACACCCTATAATGGTTT-C
1 TAGCACACCCTATAATGGTTTCC
* *
69560249 TAGCACACCTTGTAATGGTTTCC
1 TAGCACACCCTATAATGGTTTCC
69560272 T-GCACAC
1 TAGCACAC
69560279 TCACAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (23 bp):
TAGCACACCCTATAATGGTTTCC
Found at i:69564078 original size:27 final size:26
Alignment explanation
Indices: 69564020--69564128 Score: 146
Period size: 27 Copynumber: 4.1 Consensus size: 26
69564010 CATGGTTGCT
* *
69564020 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
69564046 AGAACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATAAT-GTGGCAGAGCCACC
*
69564073 AAAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* *
69564100 AGATCAGATAATTGTGGCATAGCCACC
1 AGAACAGATAA-TGTGGCAGAGCCACC
69564127 AG
1 AG
69564129 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 13 0.18
27 59 0.80
28 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:69565543 original size:24 final size:23
Alignment explanation
Indices: 69565510--69565615 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 23
69565500 GCCGACCAAC
69565510 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
*
69565535 TCTTCTCCTTTATTAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
69565559 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
69565583 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
69565607 TCTTCTCCT
1 TCTTCTCCT
69565616 GACAGCCTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 3 0.04
24 64 0.85
25 8 0.11
ACGTcount: A:0.19, C:0.37, G:0.06, T:0.39
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:69571907 original size:26 final size:26
Alignment explanation
Indices: 69571877--69571987 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 26
69571867 AGCATGGCTG
* *
69571877 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
69571903 CCAGAACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
* * *
69571930 CCAGGACAAATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
69571957 CCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
69571984 CCAG
1 CCAG
69571988 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
26 15 0.21
27 54 0.76
28 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:69573391 original size:12 final size:12
Alignment explanation
Indices: 69573374--69573468 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
69573364 ACCAACTCTT
*
69573374 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
69573386 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
69573398 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
69573410 GCTCCTAAATCC
1 GCTCCTTAATCA
*
69573422 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
69573434 GCTCCTAAATCC
1 GCTCCTTAATCA
*
69573446 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
69573458 GCTCCTAAATC
1 GCTCCTTAATC
69573469 TTCTCCTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.11
12 45 0.79
13 6 0.11
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:69573403 original size:24 final size:23
Alignment explanation
Indices: 69573370--69573475 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 23
69573360 GCCGACCAAC
69573370 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
69573395 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
69573419 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
69573443 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
69573467 TCTTCTCCT
1 TCTTCTCCT
69573476 GACAGCCTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
23 3 0.04
24 66 0.86
25 8 0.10
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:69586316 original size:20 final size:21
Alignment explanation
Indices: 69586277--69586316 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
69586267 AAGGGCTATT
*
69586277 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
69586298 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
69586317 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:69599921 original size:41 final size:41
Alignment explanation
Indices: 69599876--69599954 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
69599866 TTTACAAATT
*
69599876 TTTCTGTCATCCACAAGTTCAAACAGTAAATTTACTTAATG
1 TTTCTGTCATCCACAAGTTCAAACAGAAAATTTACTTAATG
*
69599917 TTTCTGTCATCCACAATTTCAAACAGAAAATTTACTTA
1 TTTCTGTCATCCACAAGTTCAAACAGAAAATTTACTTA
69599955 CTTGAGCCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (41 bp):
TTTCTGTCATCCACAAGTTCAAACAGAAAATTTACTTAATG
Found at i:69600184 original size:42 final size:42
Alignment explanation
Indices: 69600138--69600240 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
69600128 GTCTTATACA
69600138 AAATCACATATCGATGCCGCATCCCAGACACGGACTTACACG
1 AAATCACATATCGATGCCGCATCCCAGACACGGACTTACACG
* * ** * * *
69600180 AAATCTA-ATATCGAAGACATATCCCAGAGATGGTCTTACACG
1 AAATC-ACATATCGATGCCGCATCCCAGACACGGACTTACACG
* *
69600222 TAATCTCATATCGATGCCG
1 AAATCACATATCGATGCCG
69600241 ATGTCATATC
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
AAATCACATATCGATGCCGCATCCCAGACACGGACTTACACG
Found at i:69600251 original size:48 final size:46
Alignment explanation
Indices: 69600197--69600292 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 46
69600187 ATATCGAAGA
*
69600197 CATATCCCAGAGATGGTCTTACACGTA-ATCTCATATCGATGCCGATGT
1 CATATCCCAAAGATGGTCTTACA--TAGATCTCATATCGATGCC-ATGT
*
69600245 CATATCCCAAATATGGTCTTACATAGGATCTCATATCGATGCCATGT
1 CATATCCCAAAGATGGTCTTACATA-GATCTCATATCGATGCCATGT
69600292 C
1 C
69600293 CTAGACATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
46 2 0.05
47 5 0.11
48 37 0.84
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (46 bp):
CATATCCCAAAGATGGTCTTACATAGATCTCATATCGATGCCATGT
Found at i:69600361 original size:37 final size:37
Alignment explanation
Indices: 69600319--69600421 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
69600309 ACGTATCACA
* **
69600319 ATGCCATAGCCCTGCTATGGTCTTACA-TGTCATCATG
1 ATGCCATAGCCCAGCTATGGTCTTACACACT-ATCATG
*
69600356 ATGCCATAGCCCAGCTATGGTCTTACACACTATTATG
1 ATGCCATAGCCCAGCTATGGTCTTACACACTATCATG
69600393 ATGCCATAGCCCAGCTATGGTCTTACACA
1 ATGCCATAGCCCAGCTATGGTCTTACACA
69600422 TACCACATGT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
37 60 0.98
38 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACACTATCATG
Found at i:69609881 original size:16 final size:16
Alignment explanation
Indices: 69609860--69609900 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
69609850 GGTTGGGGTG
*
69609860 AATGGAATAGGGCA-GT
1 AATGGAATAGAG-ATGT
69609876 AATGGAATAGAGATGT
1 AATGGAATAGAGATGT
69609892 AATGGAATA
1 AATGGAATA
69609901 TGTGACATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.22
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Found at i:69611769 original size:29 final size:29
Alignment explanation
Indices: 69611734--69611797 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
69611724 ATTCGAGAGG
* ** *
69611734 ATTTGGTGATCTTATTGCATTTATTCGTT
1 ATTTGGTAATCTTATCACATTTATTAGTT
* *
69611763 ATTTGGTAATTTTGTCACATTTATTAGTT
1 ATTTGGTAATCTTATCACATTTATTAGTT
69611792 ATTTGG
1 ATTTGG
69611798 CAGATTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.08, G:0.17, T:0.55
Consensus pattern (29 bp):
ATTTGGTAATCTTATCACATTTATTAGTT
Found at i:69611815 original size:29 final size:28
Alignment explanation
Indices: 69611749--69611815 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 28
69611739 GTGATCTTAT
* * * *
69611749 TGCATTTATTCGTTATTTGGTAATTTTG
1 TGCAATTATTAGTTATTTGGCAATTTTC
69611777 T-CACATTTATTAGTTATTTGGCAGATTTTC
1 TGCA-A-TTATTAGTTATTTGGCA-ATTTTC
69611807 TGCAATTAT
1 TGCAATTAT
69611816 ATTCATTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 19 0.61
30 7 0.23
31 2 0.06
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.52
Consensus pattern (28 bp):
TGCAATTATTAGTTATTTGGCAATTTTC
Found at i:69612877 original size:12 final size:12
Alignment explanation
Indices: 69612862--69612919 Score: 62
Period size: 12 Copynumber: 4.6 Consensus size: 12
69612852 TAATATATAA
69612862 CTTAATAAAAAT
1 CTTAATAAAAAT
*
69612874 CTTAATAAAATT
1 CTTAATAAAAAT
69612886 CTTAATAAAATAT
1 CTTAATAAAA-AT
*
69612899 GAATTAATAAAAAT
1 --CTTAATAAAAAT
*
69612913 CATAATA
1 CTTAATA
69612920 TATAATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 26 0.68
13 1 0.03
14 2 0.05
15 9 0.24
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (12 bp):
CTTAATAAAAAT
Found at i:69612917 original size:24 final size:24
Alignment explanation
Indices: 69612890--69612936 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
69612880 AAAATTCTTA
69612890 ATAAAATATGAAT-TAATAAAAATC
1 ATAAAATAT-AATATAATAAAAATC
* *
69612914 ATAATATATAATATTATAAAAAT
1 ATAAAATATAATATAATAAAAAT
69612937 AATATATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
ATAAAATATAATATAATAAAAATC
Found at i:69617043 original size:13 final size:13
Alignment explanation
Indices: 69617012--69617051 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
69617002 CCGAATGTAA
69617012 TTTTTG-AGCACT
1 TTTTTGAAGCACT
* *
69617024 TTCTTGAAGCAGT
1 TTTTTGAAGCACT
69617037 TTTTTGAAGCACT
1 TTTTTGAAGCACT
69617050 TT
1 TT
69617052 CTCGGAGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (13 bp):
TTTTTGAAGCACT
Found at i:69629365 original size:46 final size:46
Alignment explanation
Indices: 69629312--69629402 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
69629302 AAAACAAGTT
69629312 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGTC
1 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGTC
69629358 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGT
1 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGT
69629403 ACCCTTAGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (46 bp):
TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGTC
Found at i:69630136 original size:29 final size:30
Alignment explanation
Indices: 69630103--69630160 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
69630093 CTTTTTTACT
*
69630103 TTTCCCTCAAAACTTTTACT-CCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
69630132 TTTCCCCCAAAACTTTTACTCCCTTCCCA
1 TTTCCCCCAAAACTTTTACTCCCTTCCCA
69630161 TCCCAACCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:69630417 original size:17 final size:17
Alignment explanation
Indices: 69630382--69630413 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
69630372 TTTTAATATT
69630382 TTCCCTCAAAACTTTTA
1 TTCCCTCAAAACTTTTA
69630399 TTCCC-CAAAACTTTT
1 TTCCCTCAAAACTTTT
69630414 TATTTTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (17 bp):
TTCCCTCAAAACTTTTA
Found at i:69630560 original size:17 final size:17
Alignment explanation
Indices: 69630540--69630586 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
69630530 CACATTTTAT
69630540 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
69630557 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
69630575 A-TATTTATATTA
1 ATTATTTATATTA
69630587 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:69632198 original size:17 final size:17
Alignment explanation
Indices: 69632160--69632199 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
69632150 ATTTTTATCA
69632160 TTTATCATTTATCGGGC
1 TTTATCATTTATCGGGC
* * *
69632177 ATTATCTTTTATCGGGT
1 TTTATCATTTATCGGGC
69632194 TTTATC
1 TTTATC
69632200 GGATATGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
TTTATCATTTATCGGGC
Done.