Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 224 of 349
Found at i:73378277 original size:15 final size:15
Alignment explanation
Indices: 73378259--73378288 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
73378249 ATGGCCGTGT
73378259 GGGCAGGCTGTGTGG
1 GGGCAGGCTGTGTGG
73378274 GGGCAGGCTGTGTGG
1 GGGCAGGCTGTGTGG
73378289 TCACACACGC
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:0.07, C:0.13, G:0.60, T:0.20
Consensus pattern (15 bp):
GGGCAGGCTGTGTGG
Found at i:73378820 original size:15 final size:17
Alignment explanation
Indices: 73378802--73378833 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
73378792 TAGAATAATT
73378802 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
73378817 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
73378834 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:73380279 original size:53 final size:53
Alignment explanation
Indices: 73380199--73380303 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
73380189 TTCCTTTTTA
* * *
73380199 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
73380252 AACTCACCATTGTCATG-CTTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGTC-TTGACATGGTCTTACATGGGATCCTTGCCTTAT
73380304 CGTAGTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.02
53 44 0.98
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:73387532 original size:53 final size:55
Alignment explanation
Indices: 73387442--73387581 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 55
73387432 TTTTAAACAT
* *
73387442 ACCATTTCCATGTCTTGACATGTCTTACGTG-GTATCTTTGCCTTA-TG-AATTC
1 ACCATTGCCATGTCTTGACATGTCTTACATGAGTATCTTTGCCTTATTGTAATTC
* * * *
73387494 ACCATTGCCATGCCTTGGCATGCTCTTACATGAG-ATCTTTGCCTTATTGTAGTTT
1 ACCATTGCCATGTCTTGACATG-TCTTACATGAGTATCTTTGCCTTATTGTAATTC
* *
73387549 ATCAATGCCATGTCTTGACATGGTCTTACATGA
1 ACCATTGCCATGTCTTGACAT-GTCTTACATGA
73387582 TTTCCTTCCC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
52 19 0.26
53 20 0.27
54 3 0.04
55 30 0.41
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (55 bp):
ACCATTGCCATGTCTTGACATGTCTTACATGAGTATCTTTGCCTTATTGTAATTC
Found at i:73387577 original size:55 final size:54
Alignment explanation
Indices: 73387449--73387639 Score: 160
Period size: 55 Copynumber: 3.6 Consensus size: 54
73387439 CATACCATTT
* *
73387449 CCATGTCTTGACAT-GTCTTACGTG-GTATCTTTGCCTTATGAATTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGAGTATCTTTGCCTTATGAATTCACCAATG
* * * * * *
73387501 CCATGCCTTGGCATGCTCTTACATGAG-ATCTTTGCCTTATTGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGAGTATCTTTGCCTTA-TG-AATTCACCAATG
* * * * *
73387556 CCATGTCTTGACATGGTCTTACATGA-TTTCCTTCCCTTGTAAAACTT-ACCAATG
1 CCATGTCTTGACATGGTCTTACATGAGTATCTTTGCCTTAT-GAA-TTCACCAATG
* * *
73387610 CCATGTCTTGGCACGGTCTTACTTG-GTATC
1 CCATGTCTTGACATGGTCTTACATGAGTATC
73387640 CTTAAACCCT
Statistics
Matches: 109, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
52 12 0.11
53 20 0.18
54 36 0.33
55 41 0.38
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGAGTATCTTTGCCTTATGAATTCACCAATG
Found at i:73391207 original size:20 final size:20
Alignment explanation
Indices: 73391182--73391228 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
73391172 AAGACGTAAA
73391182 TTTTCATCAAAATTTATAAC
1 TTTTCATCAAAATTTATAAC
73391202 TTTTCATCAAAATTTATAAC
1 TTTTCATCAAAATTTATAAC
73391222 TTTTCAT
1 TTTTCAT
73391229 AAACGTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTCATCAAAATTTATAAC
Found at i:73392578 original size:42 final size:42
Alignment explanation
Indices: 73392531--73392642 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
73392521 TACCATACCA
* *
73392531 ATGCCATATCCCAAATATGGTCTTACATAGGAT-CTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACAT-GAATCCTCATATCG
* **
73392573 ATGCCAATAGCCCAGCTATGGTCTTACATGAATCCTCATATCG
1 ATGCC-ATATCCCAAATATGGTCTTACATGAATCCTCATATCG
*
73392616 ATGCCATATCCAAAATATGGTCTTACA
1 ATGCCATATCCCAAATATGGTCTTACA
73392643 CATAATCTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACATGAATCCTCATATCG
Found at i:73397945 original size:21 final size:22
Alignment explanation
Indices: 73397893--73397945 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
73397883 AAATAAAGTC
*
73397893 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
73397914 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
73397936 CATGTATCAT
1 CATGTATCAT
73397946 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:73406597 original size:22 final size:22
Alignment explanation
Indices: 73406572--73406662 Score: 94
Period size: 22 Copynumber: 4.1 Consensus size: 22
73406562 CTCCTTCGGA
73406572 CTGAAAAGTAAGCTCTATTGAG
1 CTGAAAAGTAAGCTCTATTGAG
**
73406594 CTGAATGGTAAGCTCTATTGAG
1 CTGAAAAGTAAGCTCTATTGAG
** * *
73406616 CTGAACGGTAAGCTCCAATGAG
1 CTGAAAAGTAAGCTCTATTGAG
*
73406638 TTGAAATAGTAAGCTCT-TATGAG
1 CTGAAA-AGTAAGCTCTAT-TGAG
73406661 CT
1 CT
73406663 ATGGTGAGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
22 43 0.77
23 13 0.23
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (22 bp):
CTGAAAAGTAAGCTCTATTGAG
Found at i:73406620 original size:44 final size:45
Alignment explanation
Indices: 73406572--73406662 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 45
73406562 CTCCTTCGGA
* * *
73406572 CTGAAAAGTAAGCTCTATTGAGCTG-AATGGTAAGCTC-TATTGAG
1 CTGAAAAGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTTA-TGAG
** *
73406616 CTGAACGGTAAGCTCCAATGAGTTGAAATAGTAAGCTCTTATGAG
1 CTGAAAAGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTTATGAG
73406661 CT
1 CT
73406663 ATGGTGAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 20 0.51
45 17 0.44
46 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (45 bp):
CTGAAAAGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTTATGAG
Found at i:73415835 original size:40 final size:40
Alignment explanation
Indices: 73415776--73416043 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
73415766 GAGCATTGGA
*
73415776 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
73415816 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
73415856 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
73415896 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
73415936 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
73415976 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
73416016 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
73416044 ATGTGTTTGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:73424417 original size:40 final size:40
Alignment explanation
Indices: 73424358--73424624 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
73424348 GAGCATTGGA
* *
73424358 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
73424398 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
73424438 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
73424478 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
73424518 ATATATCCGGGCTAA-ACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
73424557 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
73424597 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
73424625 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
39 39 0.18
40 179 0.82
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:73424659 original size:119 final size:119
Alignment explanation
Indices: 73424357--73424624 Score: 419
Period size: 119 Copynumber: 2.2 Consensus size: 119
73424347 TGAGCATTGG
* * * *
73424357 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGACATATCCGGGCTAA-AACCGAAG
* *
73424422 GCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
65 GCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* * *
73424477 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAACCCGAAGG
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGACATATCCGGGCTAAAACCGAAGG
*
73424542 CAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
66 CAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
* *
73424596 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
73424625 ATGTGTTTGC
Statistics
Matches: 141, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
119 86 0.61
120 55 0.39
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (119 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGACATATCCGGGCTAAAACCGAAGG
CAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
Found at i:73430213 original size:16 final size:15
Alignment explanation
Indices: 73430189--73430218 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
73430179 AACTGTTTTA
73430189 TTACAAATTTCACTC
1 TTACAAATTTCACTC
73430204 TTACATAATTTCACT
1 TTACA-AATTTCACT
73430219 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:73430490 original size:49 final size:50
Alignment explanation
Indices: 73430430--73430756 Score: 196
Period size: 50 Copynumber: 6.5 Consensus size: 50
73430420 CTGGTATGCA
* * ** *
73430430 TAGTAGCCTGCACTTAGTACTACATATGCGACCT-ACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAATACACG
* *
73430479 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAATACACG
* * * * * * ** * * * *
73430529 TAATAACCTACACTTAGTACTACACACGTGATCGAA-GTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCT-A-ATACACG
* * * * **** *** * *
73430580 TAGTAGCCTACATTTAGTACTACACACGTGA-TTAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAATACACG
* * * *
73430629 TGGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATC-AGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTA-ATACACG
* * *
73430679 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAA-ACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACAATC-TAATACACG
* *
73430731 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
73430757 TGTGTTCTCA
Statistics
Matches: 220, Mismatches: 48, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
49 66 0.30
50 85 0.39
51 34 0.15
52 34 0.15
54 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAATACACG
Found at i:73430696 original size:50 final size:50
Alignment explanation
Indices: 73430430--73430714 Score: 270
Period size: 50 Copynumber: 5.7 Consensus size: 50
73430420 CTGGTATGCA
* * * * * *
73430430 TAGTAGCCTGCACTTAGTACTACATATGCGACCT-ACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCAGGTACACG
* *
73430479 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTA-ATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATC-AGGTACACG
* * * * * * * * *
73430529 TAATAACCTACACTTAGTACTACACACGTGATCGAAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCAGGTACACG
* * * ** * * * *
73430580 TAGTAGCCTACATTTAGTACTACACACGTGA-TTAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCAGGTACACG
* * *
73430629 TGGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCAGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCAGGTACACG
73430679 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
73430715 AACCATCTTA
Statistics
Matches: 191, Mismatches: 40, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
49 70 0.37
50 87 0.46
51 34 0.18
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCAGGTACACG
Found at i:73435936 original size:27 final size:26
Alignment explanation
Indices: 73435906--73435992 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 26
73435896 AATCAATCAA
*
73435906 TTTACCTTACAAGGGTATTACAGTCAT
1 TTTACCCTA-AAGGGTATTACAGTCAT
73435933 TTTACCCTAAAGGGGTATTACAGTCAT
1 TTTACCCTAAA-GGGTATTACAGTCAT
*
73435960 TTTACCCTATAGGGGTATTACAGTCAT
1 TTTACCCTA-AAGGGTATTACAGTCAT
73435987 TTTACC
1 TTTACC
73435993 TTATAGAGAT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 2 0.04
27 53 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (26 bp):
TTTACCCTAAAGGGTATTACAGTCAT
Found at i:73435997 original size:27 final size:27
Alignment explanation
Indices: 73435918--73436174 Score: 266
Period size: 27 Copynumber: 9.5 Consensus size: 27
73435908 TACCTTACAA
* * *
73435918 GGGTATTACAGTCATTTTACCCTAAAG
1 GGGTATTTCGGTCATTTTACCCTATAG
* *
73435945 GGGTATTACAGTCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
* * *
73435972 GGGTATTACAGTCATTTTACCTTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
* * * * *
73435999 AGATATTTTGGTTATTTTACCTTA-AGG
1 GGGTATTTCGGTCATTTTACCCTATA-G
* *
73436026 GGGTATTTTGGTCATTTTACCCTGT-G
1 GGGTATTTCGGTCATTTTACCCTATAG
* * * *
73436052 AGGGTATTTTGGTCGTTTTTCCCTATCG
1 -GGGTATTTCGGTCATTTTACCCTATAG
73436080 GGGTATTTCGGTCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
* * *
73436107 GGATATTTCGGTCATTTTACTCTATGG
1 GGGTATTTCGGTCATTTTACCCTATAG
**
73436134 GGGTATTTCAATCATTTTACCCTATAG
1 GGGTATTTCGGTCATTTTACCCTATAG
73436161 GGGTATTTCGGTCA
1 GGGTATTTCGGTCA
73436175 CCATTTCGGC
Statistics
Matches: 196, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 193 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATAG
Found at i:73442807 original size:6 final size:6
Alignment explanation
Indices: 73442789--73442849 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
73442779 AAGTCTTTAG
* * *
73442789 AATAAA CAT-AA AATAAA AATAAA AATAAA AATAAGG CA-AAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAA-A AATAAA AATAAA
73442836 AGATAAAA AATAAA
1 A-AT-AAA AATAAA
73442850 TGGACTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.11
6 30 0.68
7 5 0.11
8 4 0.09
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:73445378 original size:47 final size:47
Alignment explanation
Indices: 73445319--73445743 Score: 692
Period size: 47 Copynumber: 9.1 Consensus size: 47
73445309 GAAATGATAG
*
73445319 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
73445366 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
73445413 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
73445460 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
73445507 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
73445554 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
73445600 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
73445647 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
73445693 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
73445740 TAAG
1 TAAG
73445744 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 85 0.24
47 275 0.76
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:73447798 original size:43 final size:43
Alignment explanation
Indices: 73447750--73447852 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
73447740 TTGGTTTTCA
73447750 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
73447793 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
73447836 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
73447853 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:73447869 original size:29 final size:29
Alignment explanation
Indices: 73447834--73447907 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
73447824 GTTGTGAGAT
* *
73447834 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
73447863 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
73447892 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
73447908 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:73448339 original size:40 final size:40
Alignment explanation
Indices: 73448216--73448372 Score: 140
Period size: 40 Copynumber: 3.9 Consensus size: 40
73448206 TCGAATGATG
* *
73448216 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
* * * * *
73448256 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
*
73448296 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* * * * *
73448336 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
73448373 GTGTATTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 74 0.78
41 20 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:73451753 original size:47 final size:47
Alignment explanation
Indices: 73451694--73452118 Score: 649
Period size: 47 Copynumber: 9.1 Consensus size: 47
73451684 GAAATGATAG
* *
73451694 TAAGGCCTAATGGTCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
73451741 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
73451788 TAAGGCC-AATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
73451834 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
73451881 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
73451928 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAG-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-GTGTGA
*
73451975 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
73452022 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * * * **
73452068 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
73452115 TAAG
1 TAAG
73452119 TCCCGAAGGG
Statistics
Matches: 353, Mismatches: 21, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
46 85 0.24
47 268 0.76
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:73452049 original size:187 final size:187
Alignment explanation
Indices: 73451694--73452118 Score: 665
Period size: 187 Copynumber: 2.3 Consensus size: 187
73451684 GAAATGATAG
* * *
73451694 TAAGGCCTAATGGTCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
73451759 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCAATGGTCGATGTGATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCAATGGCCGATGTGATGAATGTGAAAGTGT
* *
73451824 ATATGTGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
131 ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
73451881 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
73451946 GTGATGAATGTGAAAGTGTATATAG-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGTATAT-GTGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGT
*
73452010 GTATATATGTGATAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
129 GTATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
73452068 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAG
73452119 TCCCGAAGGG
Statistics
Matches: 217, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
187 159 0.73
188 58 0.27
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (187 bp):
TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:73452103 original size:234 final size:234
Alignment explanation
Indices: 73451694--73452118 Score: 674
Period size: 234 Copynumber: 1.8 Consensus size: 234
73451684 GAAATGATAG
* *
73451694 TAAGGCCTAATGGTCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
* *
73451759 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCAATGGTCGATGTGATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * **
73451824 ATATGTGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCT
131 ATATATGTGACAAGGCCAAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGATAAGGCCT
73451889 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
73451928 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAG-GTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATAT-GTGTGATAAGGCCTAATGGCCGA
73451992 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGT
65 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGT
* * * *
73452056 GTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
129 GTATATATGTGACAAGGCCAAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGATAAG
73452119 TCCCGAAGGG
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
234 160 0.92
235 13 0.08
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (234 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGACAAGGCCAAATGGCCAACGTGATGAATGTGAAAGTGCATAAATGTGATAAGGCCT
AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:73453895 original size:23 final size:24
Alignment explanation
Indices: 73453860--73453905 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
73453850 AAATAACTAT
*
73453860 AAATAAAGAGAA-TATAGAAAATA
1 AAATAAAGAGAATTAAAGAAAATA
73453883 AAATAAATG-GAATTAAAGAAAAT
1 AAATAAA-GAGAATTAAAGAAAAT
73453906 GGGGGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (24 bp):
AAATAAAGAGAATTAAAGAAAATA
Found at i:73467455 original size:40 final size:40
Alignment explanation
Indices: 73467217--73467441 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
73467207 TTGAATGATG
* * * *
73467217 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
73467257 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
73467297 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
73467336 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
73467376 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
73467417 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73467442 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:73467463 original size:119 final size:119
Alignment explanation
Indices: 73467217--73467474 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
73467207 TTGAATGATG
* *
73467217 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
73467282 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
73467336 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
73467399 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
73467456 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
73467475 TATGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:73473169 original size:126 final size:126
Alignment explanation
Indices: 73472934--73473211 Score: 425
Period size: 126 Copynumber: 2.2 Consensus size: 126
73472924 AAGTTGTCAC
* * * * *
73472934 ACGGGTAGACACACAGACGTGTGTCTAGGCCGTGTGTGACACATGGTTTACCCCATGGGCGTGTG
1 ACGGGCAGACACACGGACGTGTGTCTAGGCCATGTGTGACACACGGTCTACCCCATGGGCGTGTG
* * * *
73472999 GTCCGGTCGTGTGTCCCCTGCACCCTAATTAATGCAAAATAGAATGCCCAGTAGTAAACACT
66 GTCCAGCCATGTGTCCCCTGCACCCTAATTAATGCAAAACAGAATGCCCAGTAGTAAACA-T
73473061 -CGGGCAGACACACGGACGTGTGTCTAGGCCATGTGTGACACACGGTCTACCCCATGGGCGTGTG
1 ACGGGCAGACACACGGACGTGTGTCTAGGCCATGTGTGACACACGGTCTACCCCATGGGCGTGTG
*
73473125 GTCTAGCCATGTGTCCCCTGCACCCTAATTAATGCAAAACAGAATGCCCAGTAGTAAACAT
66 GTCCAGCCATGTGTCCCCTGCACCCTAATTAATGCAAAACAGAATGCCCAGTAGTAAACAT
*
73473186 ACGGGCAGAGACACGG-CTGTGTGTCT
1 ACGGGCAGACACACGGAC-GTGTGTCT
73473212 TAGCCGTGTG
Statistics
Matches: 138, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
125 2 0.01
126 136 0.99
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.22
Consensus pattern (126 bp):
ACGGGCAGACACACGGACGTGTGTCTAGGCCATGTGTGACACACGGTCTACCCCATGGGCGTGTG
GTCCAGCCATGTGTCCCCTGCACCCTAATTAATGCAAAACAGAATGCCCAGTAGTAAACAT
Found at i:73474622 original size:6 final size:6
Alignment explanation
Indices: 73474607--73474645 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
73474597 CTTCATCTCA
*
73474607 TTTA-T TTTATT TTTATC TTTATT TTTATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
73474646 ACTTTCTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:73474629 original size:12 final size:11
Alignment explanation
Indices: 73474607--73474666 Score: 66
Period size: 12 Copynumber: 5.2 Consensus size: 11
73474597 CTTCATCTCA
73474607 TTTATTTTATT
1 TTTATTTTATT
73474618 TTTATCTTTATT
1 TTTAT-TTTATT
73474630 TTTATTTTTATT
1 TTTA-TTTTATT
* * *
73474642 TTTAACTTTCTG
1 TTT-ATTTTATT
73474654 TTTATTTTATT
1 TTTATTTTATT
73474665 TT
1 TT
73474667 ATTAAACTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
11 12 0.30
12 26 0.65
13 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:73474634 original size:18 final size:17
Alignment explanation
Indices: 73474607--73474669 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
73474597 CTTCATCTCA
73474607 TTTATTTTATTTTTATC
1 TTTATTTTATTTTTATC
*
73474624 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATC
* * *
73474642 TTTAACTTTCTGTTTAT-
1 TTT-ATTTTATTTTTATC
73474659 TTTATTTTATT
1 TTTATTTTATT
73474670 AAACTTCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 5 0.14
17 7 0.19
18 24 0.65
19 1 0.03
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTTTATC
Found at i:73474642 original size:24 final size:23
Alignment explanation
Indices: 73474607--73474666 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 23
73474597 CTTCATCTCA
* *
73474607 TTTATTTTATTTTTATCTTTATT
1 TTTATTTTATTTTTAACTTTATG
*
73474630 TTTATTTTTATTTTTAACTTTCTG
1 TTTA-TTTTATTTTTAACTTTATG
73474654 TTTATTTTATTTT
1 TTTATTTTATTTT
73474667 ATTAAACTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 13 0.39
24 20 0.61
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTATTTTATTTTTAACTTTATG
Found at i:73479835 original size:93 final size:93
Alignment explanation
Indices: 73479676--73479846 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
73479666 GGATGGTTGA
*
73479676 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
73479741 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
73479769 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCAGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGAG
*
73479833 TTGAGTTCGAGTTC
65 TTGAGTCCGAGTTC
73479847 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73479849 original size:46 final size:45
Alignment explanation
Indices: 73479680--73479851 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 45
73479670 GGTTGAGCAT
* *
73479680 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
73479725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
73479770 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
73479818 CCAGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
73479852 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 57 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:73481593 original size:104 final size:104
Alignment explanation
Indices: 73481413--73481616 Score: 354
Period size: 104 Copynumber: 2.0 Consensus size: 104
73481403 AGATGGCCGA
*
73481413 ACCACAAGCCCATGGGGCAGGCCGTGTGCCACACACGACCTAGACACACGCTCGTGTGACTACCC
1 ACCACAAGCCCATGGGGCAGGCCGTGTGCCACACACGACCTAGACACACGCTCATGTGACTACCC
73481478 GTGTAGACAATATAAGGCTATTTGCCAAGCGTCATTGTC
66 GTGTAGACAATATAAGGCTATTTGCCAAGCGTCATTGTC
* * *
73481517 ACCACAAGCCCATGGGGCAGGCCGTGTGTCACACACGGCCTAGACACATGCTCATGTGACTACCC
1 ACCACAAGCCCATGGGGCAGGCCGTGTGCCACACACGACCTAGACACACGCTCATGTGACTACCC
* *
73481582 GTGTGGACAATATAAGGCTATTTGCCAAGCTTCAT
66 GTGTAGACAATATAAGGCTATTTGCCAAGCGTCAT
73481617 CTTACATACC
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 94 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (104 bp):
ACCACAAGCCCATGGGGCAGGCCGTGTGCCACACACGACCTAGACACACGCTCATGTGACTACCC
GTGTAGACAATATAAGGCTATTTGCCAAGCGTCATTGTC
Found at i:73482401 original size:46 final size:47
Alignment explanation
Indices: 73482271--73482527 Score: 210
Period size: 46 Copynumber: 5.5 Consensus size: 47
73482261 GTGCCGACAC
* * * * *
73482271 CATGTCCCCGACATGGTCTTACACTGGCTCATATCTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTATGTCTCGTAGCCGATG
* * *
73482317 CCATGTCTCAGACATGGTCTTACACT-GCCTATCATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTAT-GTCTCGTAGCCGATG
73482365 CATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTATGTCTCGTA-GCCGATG
* * * * * *
73482411 CATCTCCCAGACAT-GTCTTACACTAG-TCT-CGTCTCATTGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TATGTCTCGTAGCCGATG
* * * * *
73482456 TCATGTTCTAGACATCGTCTTACACTGGCTCTCATG-AT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-T-ATGTCTCGTAGCCGATG
73482504 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
73482528 AGCCTACAAA
Statistics
Matches: 173, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 13 0.08
46 72 0.42
47 69 0.40
48 17 0.10
49 1 0.01
50 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTATGTCTCGTAGCCGATG
Found at i:73482476 original size:93 final size:92
Alignment explanation
Indices: 73482271--73482530 Score: 269
Period size: 93 Copynumber: 2.8 Consensus size: 92
73482261 GTGCCGACAC
* * * * * *
73482271 CATGTCCCCGACATGGTCTTACACTGGCTCATATCTC-AAGTCGATGCCATGTCTCAGACATGGT
1 CATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAGGCCGATG-CATGTCCCAGACAT-GT
*
73482335 CTTACACT-GCCTATCATCTCGTAGCCGATG
63 CTTACACTAG-CTATCATCTCATAGCCGATG
*
73482365 CATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCCGATGCATCTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCCGATGCATGTCCCAGACATGTCTT
* * * *
73482430 ACACTAG-TCTCGTCTCATTGCTGATG
66 ACACTAGCTATCATCTCATAGCCGATG
* * * *
73482456 TCATGTTCTAGACATCGTCTTACACTGGCTCTCATG-AT-GTGGCCGATGCATGTCCCAGACATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATGTCTCGAGGCCGATGCATGTCCCAGACATG
73482519 TCTTACACTAGC
62 TCTTACACTAGC
73482531 CTACAAACAA
Statistics
Matches: 142, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
91 14 0.10
92 22 0.15
93 81 0.57
94 22 0.15
95 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.30
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAGGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCTATCATCTCATAGCCGATG
Found at i:73490506 original size:49 final size:49
Alignment explanation
Indices: 73490434--73490599 Score: 300
Period size: 49 Copynumber: 3.4 Consensus size: 49
73490424 TATGAAATGA
73490434 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
*
73490483 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
73490530 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
*
73490579 TGATAGGGCCTAATGGCCGAT
1 TGATAAGGCCTAATGGCCGAT
73490600 ATATGTGATA
Statistics
Matches: 112, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
47 46 0.41
49 66 0.59
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (49 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
Found at i:73490604 original size:26 final size:26
Alignment explanation
Indices: 73490572--73490625 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
73490562 GAAAGTGTAT
73490572 ATATATGTGATAGGGCCTAATGGCCG
1 ATATATGTGATAGGGCCTAATGGCCG
73490598 ATATATGTGATAGGGCCTAATGGCCG
1 ATATATGTGATAGGGCCTAATGGCCG
73490624 AT
1 AT
73490626 GTGATGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (26 bp):
ATATATGTGATAGGGCCTAATGGCCG
Found at i:73490609 original size:75 final size:75
Alignment explanation
Indices: 73490523--73490674 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 75
73490513 GTGAAAGTGT
73490523 ATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 ATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
73490588 CTAATGGCCG
66 CTAATGGCCG
* *
73490598 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 ATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
73490663 CTAATGGCCG
66 CTAATGGCCG
73490673 AT
1 AT
73490675 GTGATGAATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (75 bp):
ATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
CTAATGGCCG
Found at i:73490653 original size:49 final size:49
Alignment explanation
Indices: 73490598--73490948 Score: 584
Period size: 49 Copynumber: 7.2 Consensus size: 49
73490588 CTAATGGCCG
73490598 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
73490647 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
73490696 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
73490745 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
73490794 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
73490841 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTAT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * *
73490890 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
73490939 A-A-ATGTGATA
1 ATATATGTGATA
73490949 AGTCCCGAAG
Statistics
Matches: 287, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 53 0.18
48 1 0.00
49 233 0.81
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:73490748 original size:171 final size:170
Alignment explanation
Indices: 73490434--73490772 Score: 615
Period size: 171 Copynumber: 2.0 Consensus size: 170
73490424 TATGAAATGA
73490434 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
73490499 CCGATGTGATGAATGTGAAAGTGTATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
66 CCGATGTGATGAATGTGAAAGTGTATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
73490564 AAGTGTATATATATGTGATAGGGCCTAATGGCCGATATATG
131 AAGTG-ATATATATGTGATAGGGCCTAATGGCCGATATATG
* *
73490605 TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
*
73490670 CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
66 CCGATGTGATGAATGTGAAAGTG--TATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGT
73490735 GAAAGTGTATATATATGTGATAGGGCCTAATGGCCGAT
129 GAAAGTG-ATATATATGTGATAGGGCCTAATGGCCGAT
73490773 GTGATGAATG
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
171 86 0.53
173 77 0.47
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (170 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGATATATATGTGATAGGGCCTAATGGCCGATATATG
Found at i:73491125 original size:37 final size:37
Alignment explanation
Indices: 73491069--73491147 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
73491059 CCGAGCTCTA
* *
73491069 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
73491106 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
73491143 AAGAC
1 AAGAC
73491148 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:73494028 original size:86 final size:86
Alignment explanation
Indices: 73493883--73494040 Score: 264
Period size: 86 Copynumber: 1.8 Consensus size: 86
73493873 ATTTTGAACT
* *
73493883 TGAGCTAAATCTCATAGGGCCAAGATTACAAGATAAACCTTTATTTCCTTGGTTGAAGCATATAT
1 TGAGCTAAATCTCATAGGCCCAAGATTACAAGATAAACCTTTATTTCATTGGTTGAAGCATATAT
73493948 TCGATTTTAATTGCCAACCCA
66 TCGATTTTAATTGCCAACCCA
* *
73493969 TGAGCTAAATCTCATAGGCCCAAGATTAC-AGCATGAACGTTTATTTCATTGGTTGAAGCATATA
1 TGAGCTAAATCTCATAGGCCCAAGATTACAAG-ATAAACCTTTATTTCATTGGTTGAAGCATATA
73494033 TTCGATTT
65 TTCGATTT
73494041 AATCTATTGT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
85 2 0.03
86 65 0.97
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (86 bp):
TGAGCTAAATCTCATAGGCCCAAGATTACAAGATAAACCTTTATTTCATTGGTTGAAGCATATAT
TCGATTTTAATTGCCAACCCA
Found at i:73506306 original size:15 final size:15
Alignment explanation
Indices: 73506286--73506315 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73506276 CAACACTTGT
73506286 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
73506301 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
73506316 ATACATTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:73514440 original size:12 final size:12
Alignment explanation
Indices: 73514423--73514475 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
73514413 CTCAAACTTT
73514423 TTTTTCATTCTC
1 TTTTTCATTCTC
73514435 TTTTTCAATT-TC
1 TTTTTC-ATTCTC
* *
73514447 TTTCTCAATCTC
1 TTTTTCATTCTC
* *
73514459 ATTTTCACTCTC
1 TTTTTCATTCTC
73514471 TTTTT
1 TTTTT
73514476 GTTCTCCTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 2 0.06
12 28 0.85
13 3 0.09
ACGTcount: A:0.13, C:0.25, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTCATTCTC
Found at i:73517982 original size:17 final size:16
Alignment explanation
Indices: 73517948--73518012 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 16
73517938 AAAATAAAAT
* *
73517948 AATAAAATTGAAATGAA
1 AATAAAAAT-AAAAGAA
73517965 AATAAAAATCAAAAGAAA
1 AATAAAAAT-AAAAG-AA
73517983 AATAAAAATAAAAGAA
1 AATAAAAATAAAAGAA
*
73517999 AAGAATAAATAAAA
1 AATAA-AAATAAAA
73518013 AAAGGAGGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.14
17 25 0.60
18 11 0.26
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (16 bp):
AATAAAAATAAAAGAA
Found at i:73517984 original size:18 final size:17
Alignment explanation
Indices: 73517963--73518000 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
73517953 AATTGAAATG
73517963 AAAATAAAAATCAAAAGA
1 AAAATAAAAAT-AAAAGA
73517981 AAAATAAAAATAAAAGA
1 AAAATAAAAATAAAAGA
73517998 AAA
1 AAA
73518001 GAATAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAATAAAAATAAAAGA
Found at i:73525812 original size:13 final size:13
Alignment explanation
Indices: 73525794--73525820 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73525784 GATTTCACCT
73525794 ATTTATAGTGCTA
1 ATTTATAGTGCTA
73525807 ATTTATAGTGCTA
1 ATTTATAGTGCTA
73525820 A
1 A
73525821 AATAGGCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (13 bp):
ATTTATAGTGCTA
Found at i:73527917 original size:21 final size:21
Alignment explanation
Indices: 73527891--73527932 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
73527881 ACATTAAAAT
73527891 GAGCTTGTTAAACACATGTAA
1 GAGCTTGTTAAACACATGTAA
73527912 GAGCTTGTTAAACACATGTAA
1 GAGCTTGTTAAACACATGTAA
73527933 ACACTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
GAGCTTGTTAAACACATGTAA
Found at i:73527943 original size:21 final size:21
Alignment explanation
Indices: 73527898--73527946 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
73527888 AATGAGCTTG
* *
73527898 TTAAACACATGTAAGAGCTTG
1 TTAAACACATGTAAGAACTTA
73527919 TTAAACACATGTAA-ACACTTA
1 TTAAACACATGTAAGA-ACTTA
73527940 TTAAACA
1 TTAAACA
73527947 TAACACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (21 bp):
TTAAACACATGTAAGAACTTA
Found at i:73533787 original size:51 final size:51
Alignment explanation
Indices: 73533652--73533834 Score: 172
Period size: 51 Copynumber: 3.6 Consensus size: 51
73533642 TGGTTTTAGG
* * * * * * * *
73533652 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CC-AAATAGTTAGG
1 TCACGTGTGTAGTACTAACTGCAGGCTACTATGCGTACCCGACA-ACTTCGA
* * * * * * *
73533702 TCACATGCGTAGTACTAAGTGCAGGCCACCATGCGTACCTGACAACTTTGA
1 TCACGTGTGTAGTACTAACTGCAGGCTACTATGCGTACCCGACAACTTCGA
* *
73533753 TCACGTGTGTGGTATTAACTGCAGGCTACTATGCGTACCCGACAACTTCGA
1 TCACGTGTGTAGTACTAACTGCAGGCTACTATGCGTACCCGACAACTTCGA
* *
73533804 TCATGTGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAACTGCAGGCTACTA
73533835 CGTGTATCAG
Statistics
Matches: 106, Mismatches: 25, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 30 0.28
51 74 0.70
52 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAACTGCAGGCTACTATGCGTACCCGACAACTTCGA
Found at i:73534165 original size:16 final size:15
Alignment explanation
Indices: 73534144--73534173 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
73534134 GAATGGAATA
73534144 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
73534160 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
73534174 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:73538897 original size:50 final size:50
Alignment explanation
Indices: 73538822--73539105 Score: 255
Period size: 50 Copynumber: 5.7 Consensus size: 50
73538812 CTGGTACGCA
* *
73538822 TAGTAGCCTGCACTTAGTACTACACACGTGGCTTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
* * * * * * * * **
73538872 TAGTAGCCTGCGCTTAGTACTACACATGCGACCTATCAATCTGGTACATA
1 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
73538922 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
** * ** *** * * *
73538972 TAGTATTCTACACTTAGTACTACACACGTGA-TCGAAGTTAAAGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGTGACT-TAA-CCATCTGATACACG
* * * * * * *
73539023 TAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATCTGGTACATG
1 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
* *
73539073 TAGTAGCTTGCACTTAGTACTACACACGTGACT
1 TAGTAGCCTACACTTAGTACTACACACGTGACT
73539106 CACAACGGAT
Statistics
Matches: 182, Mismatches: 49, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
49 1 0.01
50 147 0.81
51 33 0.18
52 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACG
Found at i:73538950 original size:100 final size:102
Alignment explanation
Indices: 73538811--73539100 Score: 361
Period size: 100 Copynumber: 2.9 Consensus size: 102
73538801 ACCAAAGCTC
*
73538811 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGGCTTAACCATCTGATACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
* * *
73538876 AGCCTGCGCTTAGTACTACACATGCGA-CCTA-TCAA
66 AGCCTGCACTTAGTACTACACACGCGATCCAAGTCAA
** *
73538911 TCTGGTACATATAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
** * * * *
73538976 ATTCTACACTTAGTACTACACACGTGATCGAAGTTAA
66 AGCCTGCACTTAGTACTACACACGCGATCCAAGTCAA
** * * * * * *
73539013 -AGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTATCAATCTGGTACATGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
*
73539077 AGCTTGCACTTAGTACTACACACG
66 AGCCTGCACTTAGTACTACACACG
73539101 TGACTCACAA
Statistics
Matches: 160, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
100 82 0.51
101 75 0.47
102 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (102 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
AGCCTGCACTTAGTACTACACACGCGATCCAAGTCAA
Found at i:73539937 original size:38 final size:38
Alignment explanation
Indices: 73539894--73539969 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
73539884 TTCATCTTTT
*
73539894 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAAGAAGGAGGAA
73539932 TTCATTTCTTTTGGCCGAAAATTCTAAAGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAAGAAGGAGGAA
73539970 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAAGAAGGAGGAA
Found at i:73541249 original size:40 final size:40
Alignment explanation
Indices: 73541155--73541299 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
73541145 TACTCGAATG
*
73541155 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
73541196 ACATCCGGACTAAGAT-CTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
73541236 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
73541276 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
73541300 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:73542742 original size:19 final size:20
Alignment explanation
Indices: 73542714--73542760 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
73542704 AAGAACATGT
73542714 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
73542735 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
73542754 TATATAT
1 TATATAT
73542761 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:73546447 original size:42 final size:42
Alignment explanation
Indices: 73546382--73546498 Score: 153
Period size: 42 Copynumber: 2.8 Consensus size: 42
73546372 CATTAAGATG
* * * * ** *
73546382 TCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACA
1 TCAATGCCATATCCCAGATATGGTCTTACACGAAATATCACA
*
73546424 TCGATGCCATATCCCAGATATGGTCTTACACGAAATATCACA
1 TCAATGCCATATCCCAGATATGGTCTTACACGAAATATCACA
*
73546466 TCAATGCCATATCCCAGATATGGTCTTATACGA
1 TCAATGCCATATCCCAGATATGGTCTTACACGA
73546499 GATCTCATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
TCAATGCCATATCCCAGATATGGTCTTACACGAAATATCACA
Found at i:73551981 original size:21 final size:21
Alignment explanation
Indices: 73551957--73551998 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
73551947 GAAAAGTTAG
73551957 TAAATTAAAATAAAAACAAAA
1 TAAATTAAAATAAAAACAAAA
* *
73551978 TAAATTACAATAAAAATAAAA
1 TAAATTAAAATAAAAACAAAA
73551999 ATGGCTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAATTAAAATAAAAACAAAA
Found at i:73558751 original size:22 final size:22
Alignment explanation
Indices: 73558709--73558751 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
73558699 AAATTGGATT
* *
73558709 TAAAAGAAATAAATAATATATA
1 TAAAAGAAATAAAAAAAATATA
73558731 TAAAA-AAATTAAAAAAAATAT
1 TAAAAGAAA-TAAAAAAAATAT
73558752 GAACATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAAAGAAATAAAAAAAATATA
Found at i:73559851 original size:23 final size:23
Alignment explanation
Indices: 73559820--73560413 Score: 421
Period size: 23 Copynumber: 26.0 Consensus size: 23
73559810 AAATAAGTAC
*
73559820 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
73559843 TTAAGCACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
73559866 TTAAACACTTCAA-TTGACAGCAT
1 TTAAACACTTCAATTTG-CAGCAT
* *
73559889 TCAAACACTTCAATTTCCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
73559913 TT-AACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
73559935 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * *
73559957 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
* *
73559980 CTAAACACTTCAATTTGCAG-TT
1 TTAAACACTTCAATTTGCAGCAT
*
73560002 CTTAAACACTTCAATTTGCAACAT
1 -TTAAACACTTCAATTTGCAGCAT
* * *
73560026 TTAAGCACTTCAATTTACACCAT
1 TTAAACACTTCAATTTGCAGCAT
*
73560049 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
73560072 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
* *
73560095 TCAAACACTTCAATTTGTAGCAGT
1 TTAAACACTTCAATTTGCAGCA-T
*
73560119 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
*
73560141 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
73560165 TT-AACACCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCAT
* * *
73560187 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AT
* * * * *
73560209 TAAAACA-TCTCAATGTCCAGTAA
1 TTAAACACT-TCAATTTGCAGCAT
* * * *
73560232 CTAAACACTTCAATCTGCAGTAC
1 TTAAACACTTCAATTTGCAGCAT
*
73560255 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCAT
* *
73560278 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAT
73560301 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCA-T
* ** *
73560325 TT-AATA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAT
* *
73560347 TTATACAAC-TCAA-TTACAGCGA-
1 TTAAAC-ACTTCAATTTGCAGC-AT
* * *
73560369 TAAAACA-TCTCAATTTCCAGCAA
1 TTAAACACT-TCAATTTGCAGCAT
*
73560392 CTAAACACTTCAATTTGCAGCA
1 TTAAACACTTCAATTTGCAGCA
73560414 CAGCAGCCAT
Statistics
Matches: 453, Mismatches: 87, Indels: 62
0.75 0.14 0.10
Matches are distributed among these distances:
21 1 0.00
22 59 0.13
23 377 0.83
24 16 0.04
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAT
Found at i:73560265 original size:252 final size:253
Alignment explanation
Indices: 73559820--73560328 Score: 867
Period size: 252 Copynumber: 2.0 Consensus size: 253
73559810 AAATAAGTAC
* * * *
73559820 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGTACTTAAACACTTCAATTGACA
1 TTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTAAACACTTCAATTGACA
*
73559885 GCATTCAAACACTTCAATTTCCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAATT
66 GCATTAAAACACTTCAATTTCCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAATT
* *
73559950 ACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTTCTTAAACACTTCA
131 ACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATCTGCAGTACTTAAACACTTCA
73560015 ATTTGCAACATTTAAGCACTTCAATTTACACCATTTAAACACTTCAATTTACAGCA-T
196 ATTTGCAACATTTAAGCACTTCAATTTACACCATTTAAACACTTCAATTTACAGCACT
* * * * *
73560072 TTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGTAGCAGTTTAACACTTCAATTTACA
1 TTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTAAACACTTCAATTGACA
*
73560137 GCATTAAAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAATT
66 GCATTAAAACACTTCAATTTCCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAATT
*
73560202 ACAGCGATAAAACATCTCAATGTCCAGTAACTAAACACTTCAATCTGCAGTACTTAAACACTTCA
131 ACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATCTGCAGTACTTAAACACTTCA
* *
73560267 ATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACT
196 ATTTGCAACATTTAAGCACTTCAATTTACACCATTTAAACACTTCAATTTACAGCACT
73560325 TTAA
1 TTAA
73560329 TATCTCAATT
Statistics
Matches: 240, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
252 235 0.98
253 5 0.02
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (253 bp):
TTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTAAACACTTCAATTGACA
GCATTAAAACACTTCAATTTCCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAATT
ACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATCTGCAGTACTTAAACACTTCA
ATTTGCAACATTTAAGCACTTCAATTTACACCATTTAAACACTTCAATTTACAGCACT
Found at i:73560270 original size:160 final size:160
Alignment explanation
Indices: 73559982--73560413 Score: 552
Period size: 160 Copynumber: 2.7 Consensus size: 160
73559972 TCCAGCAACT
** * * **
73559982 AAACACTTCAATTTGCAGTTCTTAAACACTTCAATTTGCAACATTTA-AGC-ACTTCAATTTACA
1 AAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATA-CAAC-TCAA-TTACA
* * * * ** *
73560045 -CCATTTAAACA-CTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAA
63 GCGA-TAAAACATC-TCAATGTCCAGCAACTAAACACTTCAATTTGCAGCATTCAAACACTTCAA
* *
73560108 TTTGTAGCAGTTTAA-CACTTCAATTTACAGCATTA
126 TTTGCAACA-TTTAAGCACTTCAATTTACAGCATTA
*
73560143 AAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACACCTCAATTACAGCG
1 AAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACAACTCAATTACAGCG
* * *
73560208 ATAAAACATCTCAATGTCCAGTAACTAAACACTTCAATCTGCAGTACTT-AAACACTTCAATTTG
66 ATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCA-TTCAAACACTTCAATTTG
*
73560272 CAACATTTAAGCACTTCAATTTACAGCATTT
130 CAACATTTAAGCACTTCAATTTACAGCATTA
* *
73560303 AAACACTTCAATTTGCAGCACTTTAATATCTCAATTAACAACATTTATACAACTCAATTACAGCG
1 AAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACAACTCAATTACAGCG
*
73560368 ATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGCA
66 ATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCA
73560414 CAGCAGCCAT
Statistics
Matches: 238, Mismatches: 27, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
159 5 0.02
160 180 0.76
161 51 0.21
162 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (160 bp):
AAACACTTCAATTTGCAGCACTTTAACACCTCAATTAACAACATTTATACAACTCAATTACAGCG
ATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGC
AACATTTAAGCACTTCAATTTACAGCATTA
Found at i:73563900 original size:8 final size:8
Alignment explanation
Indices: 73563889--73563916 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
73563879 AATTTTTGAG
73563889 TTTTTAAT
1 TTTTTAAT
73563897 TTTTTAAT
1 TTTTTAAT
73563905 TTTTTAAT
1 TTTTTAAT
73563913 TTTT
1 TTTT
73563917 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTAAT
Found at i:73563900 original size:16 final size:16
Alignment explanation
Indices: 73563876--73563916 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
73563866 ATATTAAATA
* *
73563876 TTAAATTTTTGAGTTT
1 TTAATTTTTTAAGTTT
*
73563892 TTAATTTTTTAATTTT
1 TTAATTTTTTAAGTTT
73563908 TTAATTTTT
1 TTAATTTTT
73563917 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (16 bp):
TTAATTTTTTAAGTTT
Found at i:73564907 original size:7 final size:7
Alignment explanation
Indices: 73564840--73564906 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
73564830 TGGCCATTAG
73564840 ACCTTAA
1 ACCTTAA
*
73564847 ACCATAAA
1 ACC-TTAA
*
73564855 ACCCTAA
1 ACCTTAA
* *
73564862 ACCATAG
1 ACCTTAA
73564869 ACCTTAA
1 ACCTTAA
73564876 ACCTTAA
1 ACCTTAA
73564883 ACCTTAA
1 ACCTTAA
**
73564890 ATATTAA
1 ACCTTAA
*
73564897 ACCCTAA
1 ACCTTAA
73564904 ACC
1 ACC
73564907 CAAAAATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCTTAA
Found at i:73565911 original size:37 final size:37
Alignment explanation
Indices: 73565852--73565960 Score: 175
Period size: 37 Copynumber: 2.9 Consensus size: 37
73565842 AGCTCAGATG
*
73565852 AAATCTCCACACG-AAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAA-TCATCGGGTCTTACCCGGACA
73565889 AAATCTCCACACGTAATCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAATCATCGGGTCTTACCCGGACA
* *
73565926 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAATCATCGGGTCTTACCCGGA
73565961 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 66 0.97
38 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAATCATCGGGTCTTACCCGGACA
Found at i:73566233 original size:50 final size:50
Alignment explanation
Indices: 73566110--73566404 Score: 456
Period size: 50 Copynumber: 5.9 Consensus size: 50
73566100 CATCGCCTAC
* *
73566110 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
73566158 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
73566208 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATAT
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
*
73566256 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
*
73566308 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
73566358 ATATTTCGCATTAGCCATTCGGCTTTACCACTTATACATATCTCATA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
73566405 CATACTTTTC
Statistics
Matches: 233, Mismatches: 6, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
48 88 0.38
49 2 0.01
50 95 0.41
52 48 0.21
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:73566260 original size:98 final size:98
Alignment explanation
Indices: 73566110--73566404 Score: 475
Period size: 98 Copynumber: 3.0 Consensus size: 98
73566100 CATCGCCTAC
* * * *
73566110 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCGCATTAGCCA
73566175 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
73566208 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATATATATTTCGCATTAGCC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATATATTTCGCATTAGCC
73566272 ATTCGGCTTTACCACATATACATATCTCATATATAT
65 ATTCGGCTTTACCACATATACATATCTC--ATATAT
*
73566308 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATTTCGCATTAGC
*
73566373 CATTCGGCTTTACCACTTATACATATCTCATA
64 CATTCGGCTTTACCACATATACATATCTCATA
73566405 CATACTTTTC
Statistics
Matches: 183, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
97 1 0.01
98 85 0.46
100 49 0.27
101 1 0.01
102 47 0.26
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.37
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCGCATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:73569899 original size:40 final size:40
Alignment explanation
Indices: 73569855--73570214 Score: 540
Period size: 40 Copynumber: 9.0 Consensus size: 40
73569845 GAATACACAT
* * *
73569855 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
73569895 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
73569935 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
73569975 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
73570015 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
73570055 CACCAACACAAATGCTCTTCAGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
73570095 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
73570135 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
73570175 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
73570215 TATAACTCTC
Statistics
Matches: 284, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 284 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:73569976 original size:80 final size:80
Alignment explanation
Indices: 73569851--73570214 Score: 665
Period size: 80 Copynumber: 4.5 Consensus size: 80
73569841 GCCCGAATAC
* * * *
73569851 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
73569916 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
73569931 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
73569996 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
* *
73570011 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAACACAAATGCTCTTCA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
73570076 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
*
73570091 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
73570156 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
73570171 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
73570215 TATAACTCTC
Statistics
Matches: 275, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 275 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
GGACTTAGCCCGGAT
Found at i:73571532 original size:37 final size:37
Alignment explanation
Indices: 73571473--73571581 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
73571463 AGCTCAGATG
* *
73571473 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
73571510 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
73571547 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
73571582 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:73571783 original size:48 final size:48
Alignment explanation
Indices: 73571731--73572166 Score: 520
Period size: 50 Copynumber: 9.1 Consensus size: 48
73571721 CATCGCCTAC
* *
73571731 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
*
73571779 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATAT
* *
73571829 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATAT
73571877 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATAT
* *
73571929 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
* * * * * * *
73571977 ATATAT-A-TTTCG-CA--C--ATATA-CATATCT-CATA--T-ATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
*
73572013 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATAT
*
73572063 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
* *
73572111 ATATATATCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATAT-T-TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
73572161 ATATTT
1 ATATTT
73572167 TTCAGCAATA
Statistics
Matches: 339, Mismatches: 25, Indels: 48
0.82 0.06 0.12
Matches are distributed among these distances:
36 9 0.03
37 1 0.00
38 3 0.01
39 6 0.02
40 5 0.01
41 4 0.01
43 4 0.01
44 5 0.01
45 6 0.02
46 2 0.01
47 2 0.01
48 106 0.31
49 4 0.01
50 137 0.40
52 45 0.13
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
Found at i:73571854 original size:50 final size:50
Alignment explanation
Indices: 73571731--73571982 Score: 379
Period size: 48 Copynumber: 5.1 Consensus size: 50
73571721 CATCGCCTAC
* *
73571731 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
73571779 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
73571829 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
73571877 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
* *
73571929 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
73571979 ATAT
1 ATAT
73571983 ATTTCGCACA
Statistics
Matches: 188, Mismatches: 8, Indels: 14
0.90 0.04 0.07
Matches are distributed among these distances:
48 88 0.47
49 2 0.01
50 53 0.28
52 45 0.24
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:73571984 original size:15 final size:15
Alignment explanation
Indices: 73571960--73572016 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
73571950 GCTTTACCAC
73571960 ATATACATATCTCAT
1 ATATACATATCTCAT
* * *
73571975 ATATATATATTTCGCAC
1 ATATACATA--TCTCAT
73571992 ATATACATATCTCAT
1 ATATACATATCTCAT
*
73572007 ATATATATAT
1 ATATACATAT
73572017 TTCGCATTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 21 0.64
17 12 0.36
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATACATATCTCAT
Found at i:73571993 original size:32 final size:32
Alignment explanation
Indices: 73571957--73572022 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
73571947 TCAGCTTTAC
73571957 CACATATACATATCTCATATATATATATTTCG
1 CACATATACATATCTCATATATATATATTTCG
73571989 CACATATACATATCTCATATATATATATTTCG
1 CACATATACATATCTCATATATATATATTTCG
73572021 CA
1 CA
73572023 TTAGCCATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (32 bp):
CACATATACATATCTCATATATATATATTTCG
Found at i:73571995 original size:17 final size:17
Alignment explanation
Indices: 73571975--73572022 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
73571965 CATATCTCAT
73571975 ATATATATATTTCGCAC
1 ATATATATATTTCGCAC
* * *
73571992 ATATACATA--TCTCAT
1 ATATATATATTTCGCAC
73572007 ATATATATATTTCGCA
1 ATATATATATTTCGCA
73572023 TTAGCCATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 12 0.50
17 12 0.50
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (17 bp):
ATATATATATTTCGCAC
Found at i:73572002 original size:84 final size:84
Alignment explanation
Indices: 73571905--73572066 Score: 297
Period size: 84 Copynumber: 1.9 Consensus size: 84
73571895 TCGGCTTTAC
73571905 CACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATATACATAT
1 CACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATATACATAT
73571970 CTCATATATATATATTTCG
66 CTCATATATATATATTTCG
* * *
73571989 CACATATACATATCTCATATATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATAT
1 CACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATATACATAT
73572054 CTCATATATATAT
66 CTCATATATATAT
73572067 TTCGCATTAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.39
Consensus pattern (84 bp):
CACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCACATATACATAT
CTCATATATATATATTTCG
Found at i:73572039 original size:184 final size:181
Alignment explanation
Indices: 73571807--73572164 Score: 576
Period size: 184 Copynumber: 2.0 Consensus size: 181
73571797 TCGGCTTTAC
*
73571807 CACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCT
1 CACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCT
73571872 C-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTC
66 CAATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATA--TC
*
73571936 ACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCG
129 ACATTAACCATTCAGCTTTACCACATATACATATCTCATACATATATATTTCG
*
73571989 CACATATACATATCTCATATATATATATTTCGCATT-AGCCATTCGGCTTTACCACATATACATA
1 CACATATACATATCTC--ATATATATATTTCACATTGA-CCATTCGGCTTTACCACATATACATA
* *
73572053 TCTCATATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATA
63 TCTCA-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATA
* * *
73572118 TCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
127 TCACATTAACCATTCAGCTTTACCACATATACATATCTCATACATAT
73572165 TTTTCAGCAA
Statistics
Matches: 163, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
182 16 0.10
183 1 0.01
184 89 0.55
186 57 0.35
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (181 bp):
CACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTACCACATATACATATCT
CAATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATCAC
ATTAACCATTCAGCTTTACCACATATACATATCTCATACATATATATTTCG
Found at i:73574695 original size:41 final size:41
Alignment explanation
Indices: 73574586--73574784 Score: 220
Period size: 41 Copynumber: 4.9 Consensus size: 41
73574576 ATTGTATAAC
* *
73574586 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCT-GG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
* * *
73574626 TTTTGGCGGCGTTTTACTGAAAGAGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
* *
73574667 TTTTAGCGACGTTTGACCGAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
** * * ** * *
73574708 TTTTAGTAGCGTTTTACCAAAAGTGTAGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
* * * *
73574749 TTTTAGCGGCATTTTATCGAAAGCGCAGCTATTGCT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCT
73574785 TTTAGCGGCG
Statistics
Matches: 130, Mismatches: 28, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
40 35 0.27
41 95 0.73
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
Found at i:73574788 original size:35 final size:35
Alignment explanation
Indices: 73574749--73574821 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
73574739 ATTCTCTGGT
*
73574749 TTTTAGCGGCATTTTATCG-AAAGCGCAGCTATTGC
1 TTTTAGCGGCATTTT-TCGTAAAACGCAGCTATTGC
* * *
73574784 TTTTAGCGGCGTTTTTGGTAAAACGCTGCTATTGC
1 TTTTAGCGGCATTTTTCGTAAAACGCAGCTATTGC
73574819 TTT
1 TTT
73574822 GTGTTTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (35 bp):
TTTTAGCGGCATTTTTCGTAAAACGCAGCTATTGC
Found at i:73580705 original size:21 final size:21
Alignment explanation
Indices: 73580681--73580723 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
73580671 TTCAATCTTG
*
73580681 TCAAGCTTTTGGATTTGTTCT
1 TCAAGCTTTTGGATTTCTTCT
* *
73580702 TCAATCTTTTTGATTTCTTCT
1 TCAAGCTTTTGGATTTCTTCT
73580723 T
1 T
73580724 GTGATGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.58
Consensus pattern (21 bp):
TCAAGCTTTTGGATTTCTTCT
Found at i:73582177 original size:48 final size:48
Alignment explanation
Indices: 73582106--73582283 Score: 248
Period size: 48 Copynumber: 3.7 Consensus size: 48
73582096 ATGTCATTAA
* * *
73582106 GAGCTTCATTAATTTGGCTTCAGGCCATGAAATTAGTACTTCGGGTGT
1 GAGCTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGT
* *
73582154 GAGCTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTTGGATGT
1 GAGCTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGT
** * * *
73582202 GAGCTTCATTGATTTGGCTTTGGGCCATGATATTGGCACTTCAGGTGC
1 GAGCTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGT
* *
73582250 GAGTTTCATTGATTTGGCTTCGGGCCATGATATT
1 GAGCTTCATTGATTTGGCTTCAGGCCATGATATT
73582284 GGTATCTAGG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (48 bp):
GAGCTTCATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGT
Found at i:73594876 original size:40 final size:39
Alignment explanation
Indices: 73594822--73594939 Score: 182
Period size: 40 Copynumber: 2.9 Consensus size: 39
73594812 CGGATGTAAC
* *
73594822 AACCAGCACAAATGCCTTCGGAACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGG-ACTTAACCCGGTTATAAT
73594862 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTC-GGACTTAACCCGGTTATAAT
*
73594902 AACCCGCACGAATGCCTTCAGGACTTAACCCAGTTATA
1 AACCCGCACGAATGCCTTC-GGACTTAACCCGGTTATA
73594940 TTTTTTTTCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 71 0.97
41 2 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (39 bp):
AACCCGCACGAATGCCTTCGGACTTAACCCGGTTATAAT
Found at i:73609048 original size:51 final size:51
Alignment explanation
Indices: 73608982--73609227 Score: 292
Period size: 51 Copynumber: 4.9 Consensus size: 51
73608972 CACTTGTAGC
* * *
73608982 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACT-TGA
1 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACTGCGA
73609032 TCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA-TGCGA
1 -CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACTGCGA
* * * * *
73609083 CCAA-TTATCTA-GTACACGTAGTAGCCTACACTTAGTACTACACAC-GTGA
1 CGAAGTTATC-AGGTACGCATAGTAGCCTGCACTTAGTACTACACACTGCGA
73609132 TCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA-TGCGA
1 -CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACTGCGA
* * * *
73609183 CCAA-TTATCTA-GTACACGTAGTAGCCTACACTTAGTACTACACAC
1 CGAAGTTATC-AGGTACGCATAGTAGCCTGCACTTAGTACTACACAC
73609228 GTGACCTCAC
Statistics
Matches: 169, Mismatches: 17, Indels: 19
0.82 0.08 0.09
Matches are distributed among these distances:
49 73 0.43
50 13 0.08
51 83 0.49
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACTGCGA
Found at i:73609161 original size:100 final size:100
Alignment explanation
Indices: 73609001--73609231 Score: 444
Period size: 100 Copynumber: 2.3 Consensus size: 100
73608991 CTGGTACGCA
* *
73609001 TAGTAGCCTGCACTTAGTACTACACACTTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
73609066 TAGTACTACACATGCGACCAATTATCTAGTACACG
66 TAGTACTACACATGCGACCAATTATCTAGTACACG
73609101 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
73609166 TAGTACTACACATGCGACCAATTATCTAGTACACG
66 TAGTACTACACATGCGACCAATTATCTAGTACACG
73609201 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTAGCCTACACTTAGTACTACACACGTGA
73609232 CCTCACAATA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 129 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
TAGTACTACACATGCGACCAATTATCTAGTACACG
Found at i:73609914 original size:30 final size:30
Alignment explanation
Indices: 73609880--73609939 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
73609870 CTTTAATACG
73609880 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
73609910 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
73609940 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:73612011 original size:15 final size:15
Alignment explanation
Indices: 73611982--73612020 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
73611972 AACAGAGAAG
73611982 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
73611998 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
73612013 CCATGATA
1 CCAAGATA
73612021 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:73612431 original size:51 final size:51
Alignment explanation
Indices: 73612355--73612456 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
73612345 GATCAGGGAA
73612355 CATTTCCTTATTTCGAACATTATTCCTTTAACTATTTCTACCATCCCAAAT
1 CATTTCCTTATTTCGAACATTATTCCTTTAACTATTTCTACCATCCCAAAT
73612406 CATTTCCTTATTTCGAACATTATTCCTTTAACTATTTCTACCATCCCAAAT
1 CATTTCCTTATTTCGAACATTATTCCTTTAACTATTTCTACCATCCCAAAT
73612457 TCCATAATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.43
Consensus pattern (51 bp):
CATTTCCTTATTTCGAACATTATTCCTTTAACTATTTCTACCATCCCAAAT
Found at i:73612443 original size:24 final size:24
Alignment explanation
Indices: 73612363--73612443 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
73612353 AACATTTCCT
73612363 TATTTCGAACATTATTCCTTTAAC
1 TATTTCGAACATTATTCCTTTAAC
* * * * * *
73612387 TATTTCTACCATCCCAAATCATTT-CC
1 TATTTCGAACAT---TATTCCTTTAAC
73612413 TTATTTCGAACATTATTCCTTTAAC
1 -TATTTCGAACATTATTCCTTTAAC
73612438 TATTTC
1 TATTTC
73612444 TACCATCCCA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 22 0.55
25 1 0.03
26 1 0.03
27 16 0.40
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.46
Consensus pattern (24 bp):
TATTTCGAACATTATTCCTTTAAC
Found at i:73613738 original size:24 final size:25
Alignment explanation
Indices: 73613710--73613760 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
73613700 ATAAGTTAGA
73613710 ATCATTAGCTCACTAAAGAC-ATAT
1 ATCATTAGCTCACTAAAGACAATAT
73613734 ATCATTAGCTCACTAAAGACAATAT
1 ATCATTAGCTCACTAAAGACAATAT
73613759 AT
1 AT
73613761 TTGGCCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (25 bp):
ATCATTAGCTCACTAAAGACAATAT
Found at i:73614872 original size:51 final size:50
Alignment explanation
Indices: 73614806--73615056 Score: 310
Period size: 51 Copynumber: 5.0 Consensus size: 50
73614796 CACTTGTAGC
* * *
73614806 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGAAGTTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* *
73614856 TCGAAGTTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -CGAAGTTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * *
73614907 CCAA-TTACCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGAAGTTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * *
73614956 TCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -CGAAGTTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * * * *
73615007 CCAA-TTATCTA-GTACACGTAGTAACCTACACTTTGTACTACACACGTGA
1 CGAAGTTATC-AGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
73615056 C
1 C
73615057 CTCACAATAG
Statistics
Matches: 173, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 78 0.45
50 10 0.06
51 85 0.49
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
CGAAGTTATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
Found at i:73614990 original size:100 final size:100
Alignment explanation
Indices: 73614817--73615055 Score: 397
Period size: 100 Copynumber: 2.4 Consensus size: 100
73614807 GAAGCTATCT
*
73614817 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACACATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACACATAGTAG
73614882 CCTGCACTTAGTACTACACATGCGACCAATTACCC
66 CCTGCACTTAGTACTACACATGCGACCAATTACCC
*
73614917 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACACATAGTAG
* *
73614982 CCTGCACTTAGTACTACACATGCGACCAATTATCT
66 CCTGCACTTAGTACTACACATGCGACCAATTACCC
* * * * *
73615017 AGTACACGTAGTAACCTACACTTTGTACTACACACGTGA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
73615056 CCTCACAATA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 130 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACACATAGTAG
CCTGCACTTAGTACTACACATGCGACCAATTACCC
Found at i:73616697 original size:16 final size:16
Alignment explanation
Indices: 73616678--73616708 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73616668 CTTCTTCACT
73616678 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
73616694 TACTTACTTACTTAA
1 TACTCACTTACTTAA
73616709 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:73616714 original size:20 final size:20
Alignment explanation
Indices: 73616675--73616714 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
73616665 AAACTTCTTC
* *
73616675 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
73616695 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
73616715 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:73617124 original size:55 final size:54
Alignment explanation
Indices: 73616900--73617153 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
73616890 ACATGGGTAC
* * * *
73616900 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAA
* * *
73616949 CTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAA
* * * ** *
73617003 -TCACCAA-TGCCATGCCTTGGCATGTTCTTAC-TGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCC-T-TAGAAA
* *
73617056 CTT-CTCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTAC-CAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAA
*
73617109 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTT
73617154 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
49 39 0.23
51 2 0.01
52 11 0.07
53 34 0.20
54 39 0.23
55 40 0.24
56 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAA
Found at i:73618674 original size:30 final size:30
Alignment explanation
Indices: 73618640--73618703 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 30
73618630 CTTTAAGAGA
73618640 TTAAAAATCACTC-CTCTTAAGTTTTTAAAT
1 TTAAAAATCACTCACTCTTAAGTTTTT-AAT
73618670 TTAAAAATCACTCACTCTTAAGTTTTTAAT
1 TTAAAAATCACTCACTCTTAAGTTTTTAAT
73618700 TTAA
1 TTAA
73618704 GATTTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 20 0.61
31 13 0.39
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.44
Consensus pattern (30 bp):
TTAAAAATCACTCACTCTTAAGTTTTTAAT
Found at i:73619822 original size:20 final size:20
Alignment explanation
Indices: 73619797--73619842 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
73619787 GTGAGTTACT
*
73619797 CTTTTAGATTTAGTTTTAGA
1 CTTTTACATTTAGTTTTAGA
*
73619817 CTTTTACTTTTAGTTTTAGA
1 CTTTTACATTTAGTTTTAGA
*
73619837 TTTTTA
1 CTTTTA
73619843 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (20 bp):
CTTTTACATTTAGTTTTAGA
Found at i:73619847 original size:20 final size:20
Alignment explanation
Indices: 73619805--73619848 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
73619795 CTCTTTTAGA
73619805 TTTAGTTTTAGACTTTTACT
1 TTTAGTTTTAGACTTTTACT
* *
73619825 TTTAGTTTTAGATTTTTATT
1 TTTAGTTTTAGACTTTTACT
73619845 TTTA
1 TTTA
73619849 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTAGTTTTAGACTTTTACT
Found at i:73623222 original size:15 final size:15
Alignment explanation
Indices: 73623202--73623232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
73623192 AAATATGAAA
73623202 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
73623217 GATATGTTTTGTATT
1 GATATGTTTTGGATT
73623232 G
1 G
73623233 GAATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:73627203 original size:39 final size:40
Alignment explanation
Indices: 73627143--73627242 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
73627133 ACCCAAGTAT
* * * *
73627143 CTTCGGGAT-TTAGCCTGATATAGCCACTCGCA-CAAGGC
1 CTTCGGGATCTTAGCCGGATATAGCCACTAGCATAAAAGC
*
73627181 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGATCTTAG-CCGGATATAGCCACTAGCATAAAAGC
73627221 CTTCGGGA-CTTAGCCCGGATAT
1 CTTCGGGATCTTAG-CCGGATAT
73627243 CATTCGAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
37 4 0.08
38 8 0.15
39 16 0.31
40 21 0.40
41 3 0.06
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGATCTTAGCCGGATATAGCCACTAGCATAAAAGC
Found at i:73635413 original size:39 final size:40
Alignment explanation
Indices: 73635353--73635452 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
73635343 ACCCAAGTAT
* * * *
73635353 CTTCGGGAT-TTAGCCAGATATAGCCACTCGCA-CAAGGC
1 CTTCGGGATCTTAGCCGGATATAGCCACTAGCATAAAAGC
*
73635391 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGATCTTAG-CCGGATATAGCCACTAGCATAAAAGC
73635431 CTTCGGGA-CTTAGCCCGGATAT
1 CTTCGGGATCTTAG-CCGGATAT
73635453 CATTCGAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
37 4 0.08
38 8 0.15
39 16 0.31
40 21 0.40
41 3 0.06
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGATCTTAGCCGGATATAGCCACTAGCATAAAAGC
Found at i:73653325 original size:52 final size:52
Alignment explanation
Indices: 73653255--73653363 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
73653245 GTTGAAGAAT
73653255 TTTATGAGTATATATATATCATGACCAAATGTGTATATGCTTGGGAATTAAG
1 TTTATGAGTATATATATATCATGACCAAATGTGTATATGCTTGGGAATTAAG
* **
73653307 TTTATGAGTATTTATATATCATGACTGAATGTGTATATGCTTGGGAATTAAG
1 TTTATGAGTATATATATATCATGACCAAATGTGTATATGCTTGGGAATTAAG
73653359 TTTAT
1 TTTAT
73653364 AATTCGATTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (52 bp):
TTTATGAGTATATATATATCATGACCAAATGTGTATATGCTTGGGAATTAAG
Found at i:73653466 original size:43 final size:42
Alignment explanation
Indices: 73653418--73653635 Score: 152
Period size: 45 Copynumber: 5.0 Consensus size: 42
73653408 CCGTAGGATT
* *
73653418 TCGATATGTGCTTTCGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTG-TTTCATGTAAGACCACGTCTGGGACGTTGGCA
* *
73653461 TCGATATATGTGTTTTCTTGTAAGACCACGTCTGGGACATTGGCA
1 TCG--ATATGTG-TTTCATGTAAGACCACGTCTGGGACGTTGGCA
* * * ** * * *
73653506 TTGATATATGTGGTTACGTGTAAGACCATTTCTGGGACATCGGTA
1 TCG--ATATGT-GTTTCATGTAAGACCACGTCTGGGACGTTGGCA
* * * **
73653551 TTG-TATTTGATTCATGTAAGACCTTGTCTGGGACAG-TGGCA
1 TCGATATGTGTTTCATGTAAGACCACGTCTGGGAC-GTTGGCA
* ** *
73653592 TCGATATGAGATAGCATGTAAGACCACGTCTGAGACGTTGGCA
1 TCGATATGTG-TTTCATGTAAGACCACGTCTGGGACGTTGGCA
73653635 T
1 T
73653636 TGTTTGATAT
Statistics
Matches: 139, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
41 26 0.19
42 9 0.06
43 28 0.20
45 75 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TCGATATGTGTTTCATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:73653483 original size:45 final size:45
Alignment explanation
Indices: 73653421--73653545 Score: 169
Period size: 45 Copynumber: 2.8 Consensus size: 45
73653411 TAGGATTTCG
*
73653421 ATATGTGCTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGAT
1 ATATGTGCTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* * * *
73653466 ATATGTGTTTTCTTGTAAGACCACGTCTGGGACATTGGCATTGAT
1 ATATGTGCTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
* * **
73653511 ATATGTGGTTACGTGTAAGACCATTTCTGGGACAT
1 ATATGTGCTTTCGTGTAAGACCACATCTGGGACAT
73653546 CGGTATTGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (45 bp):
ATATGTGCTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAT
Found at i:73655614 original size:43 final size:42
Alignment explanation
Indices: 73655566--73655713 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 42
73655556 CAATGGCGAC
*
73655566 GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAATTCAG-ATCGATGCCTAT
* * * **
73655609 GTCCCAAACAGGGTCTTATATG-AAAACAGATACGATG-CTGAT
1 GTCCCAGACATGGTCTTACATGTAATTCAGAT-CGATGCCT-AT
* * * * *
73655651 -TTCCAGACATGGTCTTACACGTAAATTTCAAATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACATGT-AA-TTCAGATCGATGCCTAT
*
73655694 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
73655714 CGATATCTCA
Statistics
Matches: 80, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
41 20 0.25
42 11 0.14
43 26 0.32
44 23 0.29
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGTAATTCAGATCGATGCCTAT
Found at i:73662837 original size:43 final size:42
Alignment explanation
Indices: 73662789--73662936 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 42
73662779 CAATGGCGAC
*
73662789 GTCCCAGACATGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAATTCAG-ATCGATGCCTAT
* * * **
73662832 GTCCCAAACAGGGTCTTATATG-AAAACAGATACGATG-CTGAT
1 GTCCCAGACATGGTCTTACATGTAATTCAGAT-CGATGCCT-AT
** * * *
73662874 GT-CCAGACATGGTCTTACACATAAATTTCAAATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACATGT-AA-TTCAGATCGATGCCTAT
*
73662917 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
73662937 CGATATCTCA
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
41 18 0.22
42 13 0.16
43 28 0.35
44 22 0.27
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGTAATTCAGATCGATGCCTAT
Found at i:73680509 original size:33 final size:33
Alignment explanation
Indices: 73680472--73680538 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
73680462 AAGAATAAGT
*
73680472 ATCCTTTGCCATGGATTGATGACTTGTTCAATC
1 ATCCTTTGCCATGGATTGACGACTTGTTCAATC
73680505 ATCCTTTGCCATGGATTGACGACTTGTTCAATC
1 ATCCTTTGCCATGGATTGACGACTTGTTCAATC
73680538 A
1 A
73680539 GTTGAAAGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (33 bp):
ATCCTTTGCCATGGATTGACGACTTGTTCAATC
Found at i:73685416 original size:29 final size:28
Alignment explanation
Indices: 73685370--73685470 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 28
73685360 CATGAAATTG
73685370 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGC-GGTTCAAATTGTATA
**
73685399 GCACTAAGTGTGCAGGTTCATGTTGTATA
1 GCACTAAGTGTGC-GGTTCAAATTGTATA
* *
73685428 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCG-GTTCAAATTGTATA
*
73685456 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
73685471 ACTTACTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
27 1 0.02
28 20 0.31
29 43 0.67
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGGTTCAAATTGTATA
Found at i:73693439 original size:28 final size:27
Alignment explanation
Indices: 73693385--73693484 Score: 137
Period size: 28 Copynumber: 3.6 Consensus size: 27
73693375 TCATGAATTG
73693385 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGC-GGTTC-AATTGTATA
73693414 GCACTAAGTGTGCGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGTTCAA-TTGTATA
* *
73693442 GCACTAAGTGTGCGAGTTCGATTATATA
1 GCACTAAGTGTGCG-GTTCAATTGTATA
*
73693470 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
73693485 ACTTACTATA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.05
28 45 0.68
29 18 0.27
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGGTTCAATTGTATA
Found at i:73697469 original size:16 final size:17
Alignment explanation
Indices: 73697444--73697481 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
73697434 ATATGTTCTG
*
73697444 TATATGATATGATTTAA
1 TATATGATATGATATAA
*
73697461 TATAT-ATATGCTATAA
1 TATATGATATGATATAA
73697477 TATAT
1 TATAT
73697482 TTTAATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (17 bp):
TATATGATATGATATAA
Found at i:73708633 original size:41 final size:40
Alignment explanation
Indices: 73708498--73708632 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
73708488 ACTATGTCTG
** * * *
73708498 GCACTTAGTGTGCGTTTTGAGATAGCTTTGTCTATATAAA
1 GCACTTAGTGTGCGGATTGAGATAGCTTTGGCTATATGAT
* * *
73708538 ACACTTATTGTGC-GATTCG-GAGTAGCTTCGGCTATATG-T
1 GCACTTAGTGTGCGGATT-GAGA-TAGCTTTGGCTATATGAT
*
73708577 GGCACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATGTGAT
1 -GCACTTAGTGTGCG-GATTGAGATAGCTTTGGCTATATGAT
73708619 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
73708633 ACATTATAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
39 4 0.05
40 36 0.47
41 29 0.38
42 7 0.09
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (40 bp):
GCACTTAGTGTGCGGATTGAGATAGCTTTGGCTATATGAT
Found at i:73710712 original size:15 final size:17
Alignment explanation
Indices: 73710682--73710713 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
73710672 TTGATACTTG
73710682 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
73710699 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
73710714 AATTATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:73713667 original size:79 final size:81
Alignment explanation
Indices: 73713531--73713713 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
73713521 TCGAATGATG
* *
73713531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
73713595 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
73713610 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
73713672 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
73713690 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
73713714 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:73713729 original size:40 final size:40
Alignment explanation
Indices: 73713532--73713715 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
73713522 CGAATGATGT
* * * *
73713532 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
73713572 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
73713612 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73713650 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73713691 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
73713716 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:73713737 original size:79 final size:79
Alignment explanation
Indices: 73713584--73713748 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
73713574 GGACTAAGAT
* **
73713584 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
73713649 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
73713663 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
73713726 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
73713742 CCGAAGG
1 CCGAAGG
73713749 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:73730123 original size:20 final size:20
Alignment explanation
Indices: 73730100--73730141 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
73730090 TTTTAGAAAA
73730100 TTTGACACTTT-TTTTGTATT
1 TTTG-CACTTTATTTTGTATT
**
73730120 TTTGGTCTTTATTTTGTATT
1 TTTGCACTTTATTTTGTATT
73730140 TT
1 TT
73730142 AGAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.69
Consensus pattern (20 bp):
TTTGCACTTTATTTTGTATT
Done.