Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 153 of 213
Found at i:45862492 original size:25 final size:25
Alignment explanation
Indices: 45862463--45862516 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
45862453 AGGCCTTTTG
*
45862463 CAATAGAACCATAAGGGGATACTTA
1 CAATAGAACCAGAAGGGGATACTTA
45862488 CAATAGAACCAGAAGGGGATACTTA
1 CAATAGAACCAGAAGGGGATACTTA
45862513 CAAT
1 CAAT
45862517 TACCGATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (25 bp):
CAATAGAACCAGAAGGGGATACTTA
Found at i:45865968 original size:20 final size:20
Alignment explanation
Indices: 45865905--45865969 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
45865895 CACATATATG
*
45865905 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGATA
** * * *
45865925 CCCCTGAATGCACATAC-ATG
1 CCCCTGTTTGTAC-TTCGATA
45865945 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
45865965 CCCCT
1 CCCCT
45865970 AAATGCACAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:45866129 original size:40 final size:40
Alignment explanation
Indices: 45865854--45866158 Score: 288
Period size: 40 Copynumber: 7.7 Consensus size: 40
45865844 TTGAATGAAC
* * * * * *
45865854 GCACATATGTGCCCCTATTTGAACATCGGTACACTTGAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* *
45865894 GCACATATATGCCCCTGTTTGTACTTCGGTACCCCTGAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
** *
45865934 GCACATACATGCCCCTGTTTGTACTTCGATACCCCTAAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* * *
45865974 GCACATATGTGCCCTTGTTTGTAATTCAGTACCCCTAAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* * * ** *
45866014 GTACATACGTACCCCTACTTGTACTTCGGTACCCCTGAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
*** * * * * *
45866054 GCACATGCATGCCCCTGGTTGTTCTTTGGTGCCCCTCAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* *** *
45866094 GCACATATGTGCGCCTGTTTGTACTTTTTTACCCCTAAAC
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* *
45866134 ACACATATGTG-CCCTGTTTATACTT
1 GCACATATGTGCCCCTGTTTGTACTT
45866159 TCGTATCCCA
Statistics
Matches: 217, Mismatches: 48, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
39 12 0.06
40 205 0.94
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (40 bp):
GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
Found at i:45869203 original size:15 final size:17
Alignment explanation
Indices: 45869175--45869207 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
45869165 TAGATCGTTC
45869175 TTTACATTATTTTTCTA
1 TTTACATTATTTTTCTA
45869192 TTTACA-TA-TTTTCTA
1 TTTACATTATTTTTCTA
45869207 T
1 T
45869208 GCAGGAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTACATTATTTTTCTA
Found at i:45870426 original size:95 final size:95
Alignment explanation
Indices: 45870263--45870434 Score: 265
Period size: 95 Copynumber: 1.8 Consensus size: 95
45870253 GCACCAAATC
* * * * * *
45870263 TTTTGCTTCAAAACTAGCATTTGTACCATATTTTCTCAAGGGTTGTCTTTTAATTACTGTTTTTG
1 TTTTGCTCCAAAACTAACATTAGTACCATATTTGCTCAAGGGTTATCTCTTAATTACTGTTTTTG
45870328 TTTGCTTTGCTTTGACTTAAAGTTGGGGAG
66 TTTGCTTTGCTTTGACTTAAAGTTGGGGAG
*
45870358 TTTTGCTCCAAAACTAACATTAGTACCGTATTTGCTCAA-GGTTCATCTCTTAATTACTGTTTTT
1 TTTTGCTCCAAAACTAACATTAGTACCATATTTGCTCAAGGGTT-ATCTCTTAATTACTGTTTTT
45870422 GTTTGCTTTGCTT
65 GTTTGCTTTGCTT
45870435 GAGGATAAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
94 4 0.06
95 65 0.94
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.47
Consensus pattern (95 bp):
TTTTGCTCCAAAACTAACATTAGTACCATATTTGCTCAAGGGTTATCTCTTAATTACTGTTTTTG
TTTGCTTTGCTTTGACTTAAAGTTGGGGAG
Found at i:45873727 original size:22 final size:23
Alignment explanation
Indices: 45873678--45873728 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
45873668 ATAAGTGCGA
* * *
45873678 CACTGATATGTAGCCGAGGCTAC
1 CACTGAAATCTAGCCGAAGCTAC
45873701 CACTGAAATCTAGCCGAAGC-AC
1 CACTGAAATCTAGCCGAAGCTAC
45873723 CACTGA
1 CACTGA
45873729 TCAATAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (23 bp):
CACTGAAATCTAGCCGAAGCTAC
Found at i:45882557 original size:8 final size:8
Alignment explanation
Indices: 45882544--45882572 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
45882534 ACCCGGGACT
45882544 CACTGTAA
1 CACTGTAA
45882552 CACTGTAA
1 CACTGTAA
45882560 CACTGTAA
1 CACTGTAA
45882568 CACTG
1 CACTG
45882573 ATCTCAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:45887172 original size:20 final size:20
Alignment explanation
Indices: 45887147--45887187 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
45887137 ATGCCTAGGT
*
45887147 CATGTG-AGGGTCAACACGCC
1 CATGTGCAGGGAC-ACACGCC
45887167 CATGTGCAGGGACACACGCC
1 CATGTGCAGGGACACACGCC
45887187 C
1 C
45887188 GTGCGGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.24, C:0.34, G:0.29, T:0.12
Consensus pattern (20 bp):
CATGTGCAGGGACACACGCC
Found at i:45892651 original size:165 final size:165
Alignment explanation
Indices: 45892376--45892690 Score: 497
Period size: 165 Copynumber: 1.9 Consensus size: 165
45892366 TGATCTCTTG
** * *
45892376 AAACTATCGGATATAGTTGGCATACCATAGGATTGTGACTCCTCACCCTTGTGTTTTGTGATTTG
1 AAACTATCGGATATAGTTGAAATACCATAGGATTATAACTCCTCACCCTTGTGTTTTGTGATTTG
* * * *
45892441 GGCATTCAGACCTCGTGATAGTTTGGAGAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGA
66 GACATTCAGACCCCGGGACAGTTTGGAGAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGA
*
45892506 TATGTTGGTGTGTTGTAGAGAGTTAGCTCTGTGCT
131 TATGTTGGTGTGTTGGAGAGAGTTAGCTCTGTGCT
* *
45892541 AAACTATTGGATATAGTTGAAAT-GCACTAGGATTATAACTCCTCACCCTTGTGTTTTGTGATTT
1 AAACTATCGGATATAGTTGAAATACCA-TAGGATTATAACTCCTCACCCTTGTGTTTTGTGATTT
* *
45892605 GGACATTCAGGCCCCGGGACAGTTTGGAGAGATAAAGGATTGTGAGCTAAGCTCCATTCACCAGG
65 GGACATTCAGACCCCGGGACAGTTTGGAGAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGG
45892670 ATATGTTGGTGTGTTGGAGAG
130 ATATGTTGGTGTGTTGGAGAG
45892691 TGTTGGCTAT
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
164 2 0.01
165 134 0.99
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (165 bp):
AAACTATCGGATATAGTTGAAATACCATAGGATTATAACTCCTCACCCTTGTGTTTTGTGATTTG
GACATTCAGACCCCGGGACAGTTTGGAGAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGA
TATGTTGGTGTGTTGGAGAGAGTTAGCTCTGTGCT
Found at i:45893422 original size:23 final size:22
Alignment explanation
Indices: 45893374--45893421 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
45893364 TTTTTAGTCA
*
45893374 TTTTAAAGGAAAGTTTAAATTT
1 TTTTAAAAGAAAGTTTAAATTT
**
45893396 TTTTAAAAGAAAGTTTTGATTT
1 TTTTAAAAGAAAGTTTAAATTT
45893418 TTTT
1 TTTT
45893422 TTCAACTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (22 bp):
TTTTAAAAGAAAGTTTAAATTT
Found at i:45896279 original size:22 final size:20
Alignment explanation
Indices: 45896250--45896289 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
45896240 ATGCTTTATG
45896250 ATTTAATTTCTCATTTTTTTC
1 ATTTAATTTCT-ATTTTTTTC
45896271 ATTTGAATTTCT-TTTTTTT
1 ATTT-AATTTCTATTTTTTT
45896290 TACTATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTAATTTCTATTTTTTTC
Found at i:45896290 original size:22 final size:21
Alignment explanation
Indices: 45896250--45896290 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45896240 ATGCTTTATG
45896250 ATTTAATTTCTCATTTTTTTC
1 ATTTAATTTCTCATTTTTTTC
*
45896271 ATTTGAATTTCT-TTTTTTTT
1 ATTT-AATTTCTCATTTTTTT
45896291 ACTATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTAATTTCTCATTTTTTTC
Found at i:45898558 original size:29 final size:30
Alignment explanation
Indices: 45898512--45898568 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
45898502 TTTATTCAGA
45898512 AACATTATTTTTAAAAAAAAT-AAAAGAAG
1 AACATTATTTTTAAAAAAAATCAAAAGAAG
* *
45898541 AACATT-TTTTTATGAAAAATTCAAAAGA
1 AACATTATTTTTA-AAAAAAATCAAAAGA
45898569 TTTTCTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 12 0.50
30 6 0.25
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (30 bp):
AACATTATTTTTAAAAAAAATCAAAAGAAG
Found at i:45909555 original size:42 final size:42
Alignment explanation
Indices: 45909496--45909840 Score: 341
Period size: 42 Copynumber: 8.2 Consensus size: 42
45909486 AAGGAAAGCA
* * * *
45909496 TTCATTGTATTTAGAGGCTCAGATGTGGACGTTCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * *
45909538 TTCATTGCGTTTGGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * *
45909580 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCAATTTACTA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * * *
45909622 TTCATTGCATTTAAAGACCCAGGTGTGGAGGTCGATTCACTC
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * * *
45909664 TTCATTACATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * *
45909706 TT-ATTACATTAAGAGGCCCAGGTGTGGAGGTTCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * * *
45909747 TTCATTTCATTTAGAGACCCAGGTGTGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
* * * ** * *
45909789 TTCATTGCATTTAAAGACCCAGATGTTAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
45909831 TTCATTGCAT
1 TTCATTGCAT
45909841 CGTATATGAA
Statistics
Matches: 260, Mismatches: 42, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
41 36 0.14
42 224 0.86
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGACGTCCATTCACTT
Found at i:45909643 original size:84 final size:84
Alignment explanation
Indices: 45909496--45909840 Score: 415
Period size: 84 Copynumber: 4.1 Consensus size: 84
45909486 AAGGAAAGCA
* * * * * * * ** *
45909496 TTCATTGTATTTAGAGGCTCAGATGTGGACGTTCATTCACTTTTCATTGCGTTTGGAGGCCCAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGACCCAGG
*
45909561 TGTGGAGGTCCATTTACTT
66 TGTGGAGGTCCATTCACTT
* *
45909580 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCAATTTACTATTCATTGCATTTAAAGACCCAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGACCCAGG
* *
45909645 TGTGGAGGTCGATTCACTC
66 TGTGGAGGTCCATTCACTT
* * * * *
45909664 TTCATTACATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTTTT-ATTACA-TTAAGAGGCCCAG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAA-AGACCCAG
*
45909727 GTGTGGAGGTTCATTCACTT
65 GTGTGGAGGTCCATTCACTT
* * * *
45909747 TTCATTTCATTTAGAGACCCAGGTGTGGAGGTCCGTTTACTTTTCATTGCATTTAAAGACCCAGA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGACCCAGG
** *
45909812 TGTTAAGGTCCATTTACTT
66 TGTGGAGGTCCATTCACTT
45909831 TTCATTGCAT
1 TTCATTGCAT
45909841 CGTATATGAA
Statistics
Matches: 220, Mismatches: 38, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
82 4 0.02
83 68 0.31
84 144 0.65
85 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (84 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAAAGACCCAGG
TGTGGAGGTCCATTCACTT
Found at i:45919021 original size:33 final size:33
Alignment explanation
Indices: 45918980--45919082 Score: 131
Period size: 33 Copynumber: 3.1 Consensus size: 33
45918970 GTTTTAGAGC
45918980 TTGCTGATTAAACCCTTGAGATTGGTTGGGTCT
1 TTGCTGATTAAACCCTTGAGATTGGTTGGGTCT
* * *
45919013 TTGTTGATTAAACCCTTGAG-GTGGTTTTAGAG-C-
1 TTGCTGATTAAACCCTTGAGATTGG--TT-GGGTCT
45919046 TTGCTGATTAAACCCTTGAGATTGGTTGGGTCT
1 TTGCTGATTAAACCCTTGAGATTGGTTGGGTCT
45919079 TTGC
1 TTGC
45919083 CAAGTCCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
31 2 0.03
32 6 0.10
33 42 0.72
34 6 0.10
35 2 0.03
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.40
Consensus pattern (33 bp):
TTGCTGATTAAACCCTTGAGATTGGTTGGGTCT
Found at i:45924682 original size:3 final size:3
Alignment explanation
Indices: 45924614--45924667 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
45924604 ATAAAGGAAT
** * * * *
45924614 ATA ATA ATA ATA ATA ATA ATA ACC ATT ATA ATA ACA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45924662 ATA ATA
1 ATA ATA
45924668 TCATGGTAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:45924933 original size:15 final size:15
Alignment explanation
Indices: 45924901--45924939 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
45924891 AGTAATACAT
45924901 AAATATAAATAGATAA
1 AAATA-AAATAGATAA
45924917 AAATAAAATA-ATAAA
1 AAATAAAATAGAT-AA
45924932 AAATAAAA
1 AAATAAAA
45924940 CAAATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAATAGATAA
Found at i:45926649 original size:39 final size:39
Alignment explanation
Indices: 45926595--45926673 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45926585 CTTCAAGGAG
*
45926595 ATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCA
1 ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
45926634 ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
1 ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
45926673 A
1 A
45926674 CCCCAGAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (39 bp):
ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
Found at i:45926831 original size:45 final size:49
Alignment explanation
Indices: 45926697--45926835 Score: 142
Period size: 45 Copynumber: 2.9 Consensus size: 49
45926687 GGACTTGTCG
* *
45926697 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTA
1 CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGT-ACTTATA
* * ** * * *
45926747 CTTTTAATTTGTTCCACTGCAACTTTAGAGAAATAAGATTT-T-C-TAT-
1 C-TTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGTACTTATA
*
45926793 CTTCAATCTACTCCACTACAACTTCAGAGAGATGAGATTTGTA
1 CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGTA
45926836 GCTTTAAACT
Statistics
Matches: 69, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
45 31 0.45
46 2 0.03
47 2 0.03
48 1 0.01
50 2 0.03
51 31 0.45
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (49 bp):
CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGTACTTATA
Found at i:45926861 original size:44 final size:42
Alignment explanation
Indices: 45926759--45926916 Score: 124
Period size: 41 Copynumber: 3.7 Consensus size: 42
45926749 TTTAATTTGT
* * * * *
45926759 TCCACTGCAACTTTAGAGAAATAAGATTTT-CTATCTTCAATCTAC
1 TCCACAGCAACTTCAGAGAGATAAGATTTTGC--T-TT-AAACTGC
*
45926804 TCCACTA-CAACTTCAGAGAGATGAGATTTGTAGCTTTAAACTGC
1 TCCAC-AGCAACTTCAGAGAGATAAGATTT-T-GCTTTAAACTGC
* * *
45926848 TCCACAGCAACTTCAGGGAGATAAG-GTTTGCTTTAATCTGC
1 TCCACAGCAACTTCAGAGAGATAAGATTTTGCTTTAAACTGC
* * *
45926889 TCCACTGCACCTTCAGAGAAATAAGATT
1 TCCACAGCAACTTCAGAGAGATAAGATT
45926917 CGCTATCTTC
Statistics
Matches: 92, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
41 32 0.35
42 2 0.02
43 3 0.03
44 26 0.28
45 26 0.28
46 2 0.02
48 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
TCCACAGCAACTTCAGAGAGATAAGATTTTGCTTTAAACTGC
Found at i:45926872 original size:89 final size:93
Alignment explanation
Indices: 45926697--45926916 Score: 222
Period size: 96 Copynumber: 2.4 Consensus size: 93
45926687 GGACTTGTCG
* ** *
45926697 CTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTACTTTTAATTTGTTCC
1 CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGTAA--TG-ACTTTTAAACTGCTCC
* *
45926762 ACTGCAACTTTAGAGAAATAAGATTTTCTAT
63 ACAGCAACTTCAGAGAAATAAGATTTTCTAT
*
45926793 CTTCAATCTACTCCACTACAACTTCAGAGAGATGAGATTTGT-A-G-C-TTTAAACTGCTCCACA
1 CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGTAATGACTTTTAAACTGCTCCACA
* * * *
45926854 GCAACTTCAGGGAGATAAGGTTTGC--T
66 GCAACTTCAGAGAAATAAGATTTTCTAT
* * * *
45926880 -TT-AATCTGCTCCACTGCACCTTCAGAGAAATAAGATT
1 CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATT
45926917 CGCTATCTTC
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
85 30 0.28
86 2 0.02
87 1 0.01
89 32 0.30
90 1 0.01
92 1 0.01
95 1 0.01
96 40 0.37
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (93 bp):
CTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTTGTAATGACTTTTAAACTGCTCCACA
GCAACTTCAGAGAAATAAGATTTTCTAT
Found at i:45929097 original size:47 final size:47
Alignment explanation
Indices: 45929031--45929456 Score: 656
Period size: 47 Copynumber: 9.1 Consensus size: 47
45929021 GAAATGATAG
45929031 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45929078 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45929125 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45929172 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45929219 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGCATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45929266 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45929313 TAAGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45929360 TAAGGCCTAATGGTCGATGTG-TGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
45929406 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45929453 TAAG
1 TAAG
45929457 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 37 0.11
47 312 0.89
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:45929631 original size:37 final size:37
Alignment explanation
Indices: 45929575--45929653 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
45929565 CCGAGCTCTA
* * *
45929575 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
45929612 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45929649 AAGAC
1 AAGAC
45929654 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45931555 original size:43 final size:43
Alignment explanation
Indices: 45931508--45931653 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
45931498 TTGGTTTTCA
45931508 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
45931551 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
45931594 GCACTAAGTGTGCGGGCAATAAGTGTTTACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
45931637 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGCGGGC
45931654 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:45931670 original size:29 final size:29
Alignment explanation
Indices: 45931635--45931708 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
45931625 GTTGTGAGAT
* * *
45931635 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
45931664 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
45931693 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
45931709 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:45935460 original size:47 final size:47
Alignment explanation
Indices: 45935393--45935959 Score: 920
Period size: 47 Copynumber: 12.1 Consensus size: 47
45935383 GAAATGATAG
*
45935393 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
45935440 TAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45935487 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45935534 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45935581 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45935628 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45935675 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45935722 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45935769 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45935816 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45935863 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
45935909 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45935956 TAAG
1 TAAG
45935960 TCCCGAAGGG
Statistics
Matches: 491, Mismatches: 28, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
46 40 0.08
47 451 0.92
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:45936134 original size:37 final size:37
Alignment explanation
Indices: 45936078--45936156 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
45936068 CCGAGCTCTA
* * *
45936078 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
45936115 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45936152 AAGAC
1 AAGAC
45936157 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45937591 original size:51 final size:51
Alignment explanation
Indices: 45937515--45937740 Score: 181
Period size: 51 Copynumber: 4.7 Consensus size: 51
45937505 ACAAATTTTC
* *
45937515 TCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * * * *
45937566 TCCACTACAACTTCAGGGAAATAAGA----T---TCGCATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * * * *
45937610 TCCATTGCAGCTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * * * *
45937661 TCCACTGTAATTTCAGGGAAATAAGA--T-T--CAC-TATCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * *
45937706 TCCCCTGCAACTTTAGGGAGATAAGATTTGTAACT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACT
45937741 TCAATCTGCT
Statistics
Matches: 130, Mismatches: 33, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
44 34 0.26
45 33 0.25
46 1 0.01
47 2 0.02
48 3 0.02
49 1 0.01
50 1 0.01
51 55 0.42
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
Found at i:45937650 original size:95 final size:96
Alignment explanation
Indices: 45937514--45937741 Score: 350
Period size: 95 Copynumber: 2.4 Consensus size: 96
45937504 TACAAATTTT
* * *
45937514 CTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACTACAACTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTT
*
45937579 CAGGGAAATAAGATTCGC-ATCTTCAATCTG
66 CAGGGAAATAAGATTCACTATCTTCAATCTG
* * ** *
45937609 CTCCATTGCAGCTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGTAATTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTT
45937674 CAGGGAAATAAGATTCACTATCTTCAATCTG
66 CAGGGAAATAAGATTCACTATCTTCAATCTG
* *
45937705 TTCCCCTGCAACTTTAGGGAGATAAGATTTGTAACTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTT
45937742 CAATCTGCTC
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 74 0.62
96 45 0.38
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (96 bp):
CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTT
CAGGGAAATAAGATTCACTATCTTCAATCTG
Found at i:45937778 original size:44 final size:44
Alignment explanation
Indices: 45937559--45937823 Score: 194
Period size: 44 Copynumber: 5.9 Consensus size: 44
45937549 TCGTAGCTTT
* * * * * * *
45937559 AATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCATCTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTC
* *
45937603 AATCTGCTCCATTGCAGCTTTAGGGAGATAAGATTTGTAACTTGTAGC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAAC-T-T--C
* * * ** *
45937651 TTTAATCTGTTCCACTGTAA-TTTCAGGGAAATAAGATTCACTATCTTC
1 ---AATCTGCTCCACTGCAACTTT-AGGGAGATAAGATT-TGTAACTTC
* *
45937699 AATCTGTTCCCCTGCAACTTTAGGGAGATAAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTC
* ** *
45937743 AATCTGCTCCACTG-AACCTTTAGTGAGATAAGATTTGTGGCTTT
1 AATCTGCTCCACTGCAA-CTTTAGGGAGATAAGATTTGTAACTTC
* * * *
45937787 AATCTACTCAAATACAACTTTAGGGAGATAAG-TTTGT
1 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT
45937824 GAGATAAGAT
Statistics
Matches: 175, Mismatches: 34, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
43 7 0.04
44 97 0.55
45 31 0.18
46 4 0.02
48 2 0.01
50 4 0.02
51 27 0.15
52 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTC
Found at i:45944698 original size:17 final size:17
Alignment explanation
Indices: 45944643--45944707 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 17
45944633 AAATATCAAA
45944643 AATAATAAAATAAATAAT
1 AATAATAAAATAAA-AAT
*
45944661 AAAATATAGAGAATAAAAAAT
1 AATA-ATA-A-AAT-AAAAAT
*
45944682 GATAATAAAATAAAAAT
1 AATAATAAAATAAAAAT
45944699 ATATAATAA
1 A-ATAATAA
45944708 CGATAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
17 6 0.16
18 13 0.34
19 4 0.11
20 4 0.11
21 8 0.21
22 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAATAAAATAAAAAT
Found at i:45944823 original size:15 final size:15
Alignment explanation
Indices: 45944791--45944829 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
45944781 AGTAATACAT
45944791 AAATATAAATAGATAA
1 AAATA-AAATAGATAA
45944807 AAATAAAATA-ATAA
1 AAATAAAATAGATAA
45944821 AAACTAAAA
1 AAA-TAAAA
45944830 CAAATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 10 0.45
16 5 0.23
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAATAGATAA
Found at i:45954386 original size:15 final size:16
Alignment explanation
Indices: 45954357--45954386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45954347 CAAACATGTT
45954357 TTAACACATTATCAAA
1 TTAACACATTATCAAA
45954373 TTAACACA-TATCAA
1 TTAACACATTATCAA
45954387 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:45966698 original size:17 final size:17
Alignment explanation
Indices: 45966673--45966707 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45966663 TCATTATGAA
*
45966673 TATTTAAAAGATTAAAT
1 TATTAAAAAGATTAAAT
*
45966690 TATTAAAAATATTAAAT
1 TATTAAAAAGATTAAAT
45966707 T
1 T
45966708 TCAATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TATTAAAAAGATTAAAT
Found at i:45970897 original size:5 final size:6
Alignment explanation
Indices: 45970887--45970911 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45970877 TATAAATGAA
45970887 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
45970912 AATTAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:45971175 original size:14 final size:14
Alignment explanation
Indices: 45971156--45971185 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45971146 ATTTTACGAA
45971156 ATAAAAATATTATT
1 ATAAAAATATTATT
*
45971170 ATAAAAATATTTTT
1 ATAAAAATATTATT
45971184 AT
1 AT
45971186 TTTCATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAAAAATATTATT
Found at i:45972611 original size:20 final size:20
Alignment explanation
Indices: 45972573--45972611 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45972563 TGAGCAATTT
*
45972573 AATTTTTTTACGTTCTTTTA
1 AATTTTTTTACGTTATTTTA
* *
45972593 AATTTTTTTTCTTTATTTT
1 AATTTTTTTACGTTATTTT
45972612 CCATTCTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (20 bp):
AATTTTTTTACGTTATTTTA
Found at i:45973494 original size:25 final size:25
Alignment explanation
Indices: 45973441--45973489 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
45973431 TAAAAAGTAT
45973441 TTTTATATTTTTATTAAATTATATA
1 TTTTATATTTTTATTAAATTATATA
*
45973466 TTTTA-ATTTTT-TTAAATTCTATA
1 TTTTATATTTTTATTAAATTATATA
45973489 T
1 T
45973490 CTTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 6 0.26
25 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTATATTTTTATTAAATTATATA
Found at i:45976077 original size:24 final size:24
Alignment explanation
Indices: 45976050--45976096 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
45976040 TCAAGCTGCC
45976050 ATGTAGGTTGTGGACGAAGCCACT
1 ATGTAGGTTGTGGACGAAGCCACT
*
45976074 ATGTAGGTTGTGGACGATGCCAC
1 ATGTAGGTTGTGGACGAAGCCAC
45976097 CAATTCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (24 bp):
ATGTAGGTTGTGGACGAAGCCACT
Found at i:45984538 original size:42 final size:40
Alignment explanation
Indices: 45984433--45984540 Score: 94
Period size: 42 Copynumber: 2.6 Consensus size: 40
45984423 CATGGTCGTG
*
45984433 TCACACGCCCGTGTGCCAGGCCGTGTAACATTCGAAATTAC
1 TCACACGCCCGTGTG-CAGGCCGTATAACATTCGAAATTAC
* * * *
45984474 TCCACACACCTGTGTGCTAGGCCTTATAAC-TCTC-AAATTTTCC
1 T-CACACGCCCGTGTGC-AGGCCGTATAACAT-TCGAAA--TTAC
45984517 TCACACGCCCGTGTGTCAGGCCGT
1 TCACACGCCCGTGTG-CAGGCCGT
45984541 GTGTTTGGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
41 6 0.11
42 42 0.79
43 5 0.09
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (40 bp):
TCACACGCCCGTGTGCAGGCCGTATAACATTCGAAATTAC
Found at i:45986817 original size:49 final size:49
Alignment explanation
Indices: 45986731--45986830 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
45986721 TCCTATAGAG
* * * *
45986731 AACATATGTAAAGCATTAAACACATTATATTCTTTCCAAAAAGAATTAT
1 AACAAATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAACAATTAT
* *
45986780 AACAAATGGAAAGTATTAAAAACGTTATATTCTTTCCAAAAACAATTAT
1 AACAAATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAACAATTAT
45986829 AA
1 AA
45986831 TTATCATGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (49 bp):
AACAAATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAACAATTAT
Found at i:45988997 original size:22 final size:20
Alignment explanation
Indices: 45988967--45989006 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
45988957 TGTACGAGGG
*
45988967 CGAGTTGCCCTATTGAGTGTAA
1 CGAGGTGCCCT-TT-AGTGTAA
45988989 CGAGGTGCCCTTTAGTGT
1 CGAGGTGCCCTTTAGTGT
45989007 GTTAACGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (20 bp):
CGAGGTGCCCTTTAGTGTAA
Found at i:45990305 original size:94 final size:94
Alignment explanation
Indices: 45990139--45990369 Score: 266
Period size: 94 Copynumber: 2.4 Consensus size: 94
45990129 AGAGTCAATG
* * * *
45990139 AGGACAATAAACATGGGGTTACATATTTGTAAAACCTTAGCTCGACTATGGCAACATATGGAGTC
1 AGGACATTAAACATGGGGTTAC--ATGTGTAAAACCTTAGCTCAACTATGGCAACATATAGAGTC
* * *
45990204 TTCCGGGATAGTAAACATGGGGTAGTCCACC
64 ATCCGGGATAGTAAACATAGGGAAGTCCACC
** * *
45990235 AGGACATTAAACATGGGGTTACATGTGTAAGCCCTTAGCTCAACTATGGCAACTTGTAGAGTCGA
1 AGGACATTAAACATGGGGTTACATGTGTAAAACCTTAGCTCAACTATGGCAACATATAGAGTC-A
* *
45990300 T-CGGGATAGTAAACATATGGAAGTTCACC
65 TCCGGGATAGTAAACATAGGGAAGTCCACC
* * * * *
45990329 AAGACATTAAATATGAGGTTACATGTGTAATACCATAGCTC
1 AGGACATTAAACATGGGGTTACATGTGTAAAACCTTAGCTC
45990370 GGCTATGGAA
Statistics
Matches: 115, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
94 93 0.81
95 1 0.01
96 21 0.18
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (94 bp):
AGGACATTAAACATGGGGTTACATGTGTAAAACCTTAGCTCAACTATGGCAACATATAGAGTCAT
CCGGGATAGTAAACATAGGGAAGTCCACC
Found at i:46005917 original size:21 final size:21
Alignment explanation
Indices: 46005893--46005935 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46005883 TTTCAAACAA
* *
46005893 TACAAGAAGTATCAATACCTT
1 TACAAAAAATATCAATACCTT
46005914 TACAAAAAATATCAATACCTT
1 TACAAAAAATATCAATACCTT
46005935 T
1 T
46005936 TACCAGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (21 bp):
TACAAAAAATATCAATACCTT
Found at i:46008790 original size:16 final size:16
Alignment explanation
Indices: 46008766--46008798 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46008756 TTTTATATAT
*
46008766 TAAATTATTATATTAA
1 TAAAATATTATATTAA
46008782 TAAAATATTATATTAA
1 TAAAATATTATATTAA
46008798 T
1 T
46008799 TAGCTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTATATTAA
Found at i:46008841 original size:13 final size:13
Alignment explanation
Indices: 46008823--46008847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46008813 TTATAAATTA
46008823 TATTATATTATAT
1 TATTATATTATAT
46008836 TATTATATTATA
1 TATTATATTATA
46008848 AAATAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:46009836 original size:36 final size:35
Alignment explanation
Indices: 46009796--46009878 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 35
46009786 TATATGTGTG
46009796 GAATTGAATCGAATAT-TGACTTGAAAATGAAAAAGT
1 GAATTGAATCGAAT-TGTGA-TTGAAAATGAAAAAGT
* *
46009832 GAATTTTGAATCGAATTGTGATTGAAAGTGAAAAGGT
1 GAA--TTGAATCGAATTGTGATTGAAAATGAAAAAGT
46009869 GAAATTGAAT
1 G-AATTGAAT
46009879 TGAAACGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 9 0.22
37 16 0.39
38 16 0.39
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (35 bp):
GAATTGAATCGAATTGTGATTGAAAATGAAAAAGT
Found at i:46009864 original size:37 final size:38
Alignment explanation
Indices: 46009799--46009871 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
46009789 ATGTGTGGAA
46009799 TTGAATCGAATATTGACTTGAAAATGAAAAAGTGAATT
1 TTGAATCGAATATTGACTTGAAAATGAAAAAGTGAATT
* *
46009837 TTGAATCGAAT-TGTGA-TTGAAAGTGAAAAGGTGAA
1 TTGAATCGAATAT-TGACTTGAAAATGAAAAAGTGAA
46009872 ATTGAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 18 0.56
38 14 0.44
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.30
Consensus pattern (38 bp):
TTGAATCGAATATTGACTTGAAAATGAAAAAGTGAATT
Found at i:46012744 original size:29 final size:29
Alignment explanation
Indices: 46012710--46012885 Score: 132
Period size: 29 Copynumber: 6.2 Consensus size: 29
46012700 TTCGTTCCAA
* *
46012710 AGATAGCCACATAGCATTCCTTTTAATAG
1 AGATAGCCACAAAGCATTCCTTATAATAG
* * *
46012739 AGATAGCCACTAAG-GTGTCCATT-TAGT-G
1 AGATAGCCACAAAGCAT-TCC-TTATAATAG
** *
46012767 -G-TAGCCACAAAGGTTTTCTTATAATAG
1 AGATAGCCACAAAGCATTCCTTATAATAG
* * *
46012794 AGATAGGCAGAAAGGATTCCTTATAATAG
1 AGATAGCCACAAAGCATTCCTTATAATAG
*
46012823 AGATAGGCACAAAGGC-TTCCTTATAATAG
1 AGATAGCCACAAA-GCATTCCTTATAATAG
* * *
46012852 AGATCGTCATAAAGGC-TTCCTTATAATAG
1 AGATAGCCACAAA-GCATTCCTTATAATAG
46012881 AGATA
1 AGATA
46012886 ATCATACAGG
Statistics
Matches: 121, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.02
26 15 0.12
27 3 0.02
28 3 0.02
29 95 0.79
30 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (29 bp):
AGATAGCCACAAAGCATTCCTTATAATAG
Found at i:46012896 original size:29 final size:29
Alignment explanation
Indices: 46012775--46012885 Score: 159
Period size: 29 Copynumber: 3.8 Consensus size: 29
46012765 TGGTAGCCAC
* * *
46012775 AAAGGTTTTCTTATAATAGAGATAGGCAG
1 AAAGGCTTCCTTATAATAGAGATAGGCAT
* *
46012804 AAAGGATTCCTTATAATAGAGATAGGCAC
1 AAAGGCTTCCTTATAATAGAGATAGGCAT
* *
46012833 AAAGGCTTCCTTATAATAGAGATCGTCAT
1 AAAGGCTTCCTTATAATAGAGATAGGCAT
46012862 AAAGGCTTCCTTATAATAGAGATA
1 AAAGGCTTCCTTATAATAGAGATA
46012886 ATCATACAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (29 bp):
AAAGGCTTCCTTATAATAGAGATAGGCAT
Found at i:46017784 original size:19 final size:19
Alignment explanation
Indices: 46017731--46017785 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
46017721 TAAATGATAT
46017731 TTAGGATGTTTGAAATCGAAA
1 TTAGGATG-TTGAAA-CGAAA
* *
46017752 TTGAGGAT-TAGAAACGAAG
1 TT-AGGATGTTGAAACGAAA
46017771 TTAGGATGTTGAAAC
1 TTAGGATGTTGAAAC
46017786 TTTAATTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 12 0.41
20 5 0.17
21 2 0.07
22 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.29
Consensus pattern (19 bp):
TTAGGATGTTGAAACGAAA
Found at i:46035674 original size:18 final size:17
Alignment explanation
Indices: 46035641--46035694 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 17
46035631 AAGGAAAAAG
46035641 AAAATTAAAA-AAATAAT
1 AAAA-TAAAATAAATAAT
46035658 AATAATAAAATAAATAAAT
1 AA-AATAAAATAAAT-AAT
*
46035677 AAAATAAGACTAAATAAT
1 AAAATAA-AATAAATAAT
46035695 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 7 0.22
18 14 0.44
19 11 0.34
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATAAAATAAATAAT
Found at i:46035679 original size:13 final size:15
Alignment explanation
Indices: 46035661--46035693 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
46035651 AAATAATAAT
46035661 AATAAAATAA-A-TA
1 AATAAAATAAGACTA
46035674 AATAAAATAAGACTA
1 AATAAAATAAGACTA
46035689 AATAA
1 AATAA
46035694 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAAAATAAGACTA
Found at i:46035690 original size:19 final size:19
Alignment explanation
Indices: 46035646--46035693 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
46035636 AAAAGAAAAT
46035646 TAAAA-AAAT-AATAATAA
1 TAAAATAAATAAATAATAA
46035663 TAAAATAAATAAATAA-AA
1 TAAAATAAATAAATAATAA
*
46035681 TAAGACTAAATAA
1 TAA-AATAAATAA
46035694 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 5 0.19
18 9 0.33
19 13 0.48
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAATAAATAAATAATAA
Found at i:46042915 original size:23 final size:24
Alignment explanation
Indices: 46042885--46042945 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
46042875 AAGAAGTAAC
* *
46042885 TAGACACAATTAATTTGT-CTAAA
1 TAGACACAATTAATATGTCCGAAA
46042908 TAGACACAATTAATATGTCCGAAA
1 TAGACACAATTAATATGTCCGAAA
*
46042932 TAAGACCCAATTAA
1 T-AGACACAATTAA
46042946 ACAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 17 0.52
24 5 0.15
25 11 0.33
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (24 bp):
TAGACACAATTAATATGTCCGAAA
Found at i:46047355 original size:16 final size:16
Alignment explanation
Indices: 46047330--46047381 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
46047320 AATTTTATTA
46047330 AATTAT-ATATATTTT
1 AATTATAATATATTTT
46047345 AATTATAATATA-TTT
1 AATTATAATATATTTT
* *
46047360 AATAATAAT-TATGTTA
1 AATTATAATATAT-TTT
46047376 AATTAT
1 AATTAT
46047382 CTTTTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 12 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
AATTATAATATATTTT
Found at i:46047365 original size:18 final size:15
Alignment explanation
Indices: 46047330--46047359 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46047320 AATTTTATTA
46047330 AATTATATATATTTT
1 AATTATATATATTTT
46047345 AATTATAATATATTT
1 AATTAT-ATATATTT
46047360 AATAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTATATATATTTT
Found at i:46047457 original size:122 final size:120
Alignment explanation
Indices: 46047240--46047499 Score: 448
Period size: 122 Copynumber: 2.1 Consensus size: 120
46047230 GGCAGTTGTC
*
46047240 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAAAA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAA
*
46047305 ATATTAGTTATTAAGAATTTTATTAAATTATATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAA-T-TATATATTTTAATTATAATATATTTAA
* * *
46047362 TAATAATTATGTTAAATTATCTTTTATATTATCATATATTATGATTTGAGTAAATTCATATTAGA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAA
46047427 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
46047482 TAATAATTATGTTTAAAT
1 TAATAATTATG-TTAAAT
46047500 ATGATTAAAT
Statistics
Matches: 132, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 38 0.29
121 7 0.05
122 87 0.66
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
Found at i:46047459 original size:59 final size:58
Alignment explanation
Indices: 46047274--46047459 Score: 148
Period size: 66 Copynumber: 3.1 Consensus size: 58
46047264 TATAGTATCA
* *
46047274 TATATTATGATTTGAGTAAATTTATATAAAAATATTAGTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAA-TTATATTAAAATATTAATTATTAAGAATTTTATTAAAT
* * * * * *
46047333 TATA-TAT-ATTTTAATTATAA-TATATT-TAATAATAATTATGTTA-AATTATCTTTTATATTA
1 TATATTATGA-TTTGAGTA-AATTATATTAAAATATTAATTAT-TAAGAATT-T-TATTA-A--A
46047393 T
58 T
*
46047394 CATATATTATGATTTGAGTAAATTCATATTAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATT-ATATTAAAATATTAATTATTAAGAATTTTATTAAAT
46047455 TATAT
1 TATAT
46047460 ATTTTAATTA
Statistics
Matches: 97, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
56 14 0.14
57 9 0.09
58 13 0.13
59 12 0.12
61 4 0.04
63 7 0.07
64 14 0.14
65 9 0.09
66 15 0.15
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (58 bp):
TATATTATGATTTGAGTAAATTATATTAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:46047477 original size:16 final size:16
Alignment explanation
Indices: 46047456--46047497 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46047446 TTATTAAATT
*
46047456 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46047472 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46047487 AT-TATGTTTAA
1 ATATAT-TTTAA
46047498 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46047482 original size:15 final size:15
Alignment explanation
Indices: 46047447--46047488 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46047437 TTAAGAATTT
*
46047447 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46047461 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46047475 TATTTAATAATAAT
1 TATTTAATTATAAT
46047489 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46047668 original size:39 final size:40
Alignment explanation
Indices: 46047625--46047729 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
46047615 TTCCATTATG
46047625 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
46047664 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
46047709 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
46047730 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:46047723 original size:45 final size:44
Alignment explanation
Indices: 46047623--46047732 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
46047613 TTTTCCATTA
46047623 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
46047662 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
46047707 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
46047733 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:46047732 original size:16 final size:16
Alignment explanation
Indices: 46047711--46047748 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46047701 TTGATTTGCT
*
46047711 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
46047727 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
46047743 AATACA
1 ATTACA
46047749 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:46049821 original size:18 final size:18
Alignment explanation
Indices: 46049794--46049831 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46049784 AATTTCTGAT
*
46049794 AATTATAATTATAATTTA
1 AATTACAATTATAATTTA
*
46049812 AATTACAATTATTATTTA
1 AATTACAATTATAATTTA
46049830 AA
1 AA
46049832 AGAAGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTACAATTATAATTTA
Found at i:46051489 original size:15 final size:13
Alignment explanation
Indices: 46051456--46051482 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46051446 AGTTTGGCAA
46051456 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46051469 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
46051482 T
1 T
46051483 TTGCTTTAAA
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:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:46058828 original size:98 final size:98
Alignment explanation
Indices: 46058654--46058850 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
46058644 GTACAATAAA
* *
46058654 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
46058719 CCTTTAGAATCCCAAACTTGGAATATTTCATTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCATTT
*
46058752 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTCGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
46058817 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCATTT
46058850 A
1 A
46058851 TTATTTTAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCATTT
Found at i:46061272 original size:45 final size:43
Alignment explanation
Indices: 46061000--46061510 Score: 248
Period size: 44 Copynumber: 11.8 Consensus size: 43
46060990 CCGTCTTCGA
* ** * *
46061000 TCTGCTCCACTACTGCTT-AGGGAGATAAGACCTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAG
* * * *
46061043 TCTGCTCCACTACAACTTCAGGGAAATAAGACTAG-ATAC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAG
* * * * * *
46061084 TCTGCT-CTCTGCAACTTCAGAGAGATAAG-TTCTGAGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAG
** * * * * *
46061127 TCCACTCCACTACAACTTCAGGGAGATAGGA-TTATCAGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCA-TCTTAG
* *
46061171 ACTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCATCTT-AG
* * *
46061216 CCTGC-CTCACTGCAACTTCA-GGAGGATAAGAGTTGCTTTGCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC-AT-CTTAG
* * *
46061261 TCTGCTCCACTGCAACTTCAGGGAAATAAGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAG
* * * * * *
46061302 TCTGCT-CTCTGCAACTTTAGAGAGATAAGATTTG-AGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCA--TCTTAG
* * * * * *
46061345 TCCGCTCCAATGCAACTTCAAGGAGATAGGATTATCGGC-T-TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCATCTTAG
** *
46061389 TCTATTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AG
* * *
46061434 TCTGC-CTCATTGCAACTTTA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAG
*
46061478 TCTGCTCCATTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
46061511 AGATGCGATC
Statistics
Matches: 362, Mismatches: 70, Indels: 71
0.72 0.14 0.14
Matches are distributed among these distances:
39 1 0.00
40 43 0.12
41 13 0.04
42 8 0.02
43 35 0.10
44 160 0.44
45 94 0.26
46 7 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAG
Found at i:46061279 original size:218 final size:217
Alignment explanation
Indices: 46061023--46061522 Score: 768
Period size: 218 Copynumber: 2.3 Consensus size: 217
46061013 TGCTTAGGGA
* * *
46061023 GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATACGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTG
* *
46061088 CTCTCTGCAACTTCAGAGAGATAAG-TTCTGAGATTTTAATCCACTCCACTACAACTTCAGGGAG
66 CTCTCTGCAACTTCAGAGAGATAAGATT-TGAGATTTTAATCCACTCCAATACAACTTCAAGGAG
* *
46061152 ATAGGATTATCAGTTTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
130 ATAGGATTATCAGCTTTAAACTACTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
46061217 CTGCCTCACTGCAACTTCAGGAG
195 CTGCCTCACTGCAACTTCAGGAG
* *
46061240 GATAAGAGTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCT
1 GATAAGACTTGC-TTACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCT
* * * *
46061305 GCTCTCTGCAACTTTAGAGAGATAAGATTTGAGGTTTTAATCCGCTCCAATGCAACTTCAAGGAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATTTGAGATTTTAATCCACTCCAATACAACTTCAAGGAG
* * * * * *
46061370 ATAGGATTATCGGCTTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
130 ATAGGATTATCAGCTTTAAACTACTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
* *
46061435 CTGCCTCATTGCAACTTTAGGAG
195 CTGCCTCACTGCAACTTCAGGAG
* *
46061458 GATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTG
46061523 TTATCTTCAC
Statistics
Matches: 256, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
217 60 0.23
218 194 0.76
219 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATTTGAGATTTTAATCCACTCCAATACAACTTCAAGGAGA
TAGGATTATCAGCTTTAAACTACTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGCC
TGCCTCACTGCAACTTCAGGAG
Found at i:46073054 original size:98 final size:98
Alignment explanation
Indices: 46072880--46073076 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
46072870 GTACAATAAA
* *
46072880 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* * *
46072945 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
46072978 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
46073043 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
46073076 A
1 A
46073077 TTATTTTAAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:46076964 original size:32 final size:30
Alignment explanation
Indices: 46076922--46077005 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 30
46076912 AAATTTCTAA
46076922 AAATATTAAAAAATTGTAAAAAAGTATTTT
1 AAATATTAAAAAATTGTAAAAAAGTATTTT
* *
46076952 AAAATTTATAAAAAATTTGT-AAAAATTATTTT
1 -AAATAT-TAAAAAA-TTGTAAAAAAGTATTTT
*
46076984 AAATATTAAAAAGTTGTAAAAA
1 AAATATTAAAAAATTGTAAAAA
46077006 TGATAACTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 4 0.09
30 10 0.22
31 10 0.22
32 18 0.39
33 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (30 bp):
AAATATTAAAAAATTGTAAAAAAGTATTTT
Found at i:46077077 original size:19 final size:18
Alignment explanation
Indices: 46077054--46077095 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
46077044 TAAAAAAAAC
46077054 TAAAAATGTTAAAACT-AT
1 TAAAAATGTTAAAA-TGAT
*
46077072 TAAAAATGGTAAAATGAT
1 TAAAAATGTTAAAATGAT
46077090 TAAAAA
1 TAAAAA
46077096 AGTGTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (18 bp):
TAAAAATGTTAAAATGAT
Found at i:46081464 original size:67 final size:65
Alignment explanation
Indices: 46081328--46081464 Score: 141
Period size: 67 Copynumber: 2.1 Consensus size: 65
46081318 TAGCTAATTC
* * * * * **
46081328 AATCAACTTATCTTTTATATTTAGATATTGAAACTCCTATAAATACCATGCATGACCATCTATTT
1 AATCAACTTACCTTTTATATTTAGATAGTGAAACTCCTATAAATACCATACATGACAACCTATAA
* * * *
46081393 AATCAACTTACCTTTGCTATATTTAGCTAGTGAAATTCCTATAAGTACCATACATGGCAACCT-T
1 AATCAACTTACCTTT--TATATTTAGATAGTGAAACTCCTATAAATACCATACATGACAACCTAT
46081457 CAA
64 -AA
46081460 AATCA
1 AATCA
46081465 TTCAACTAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
65 14 0.24
66 1 0.02
67 43 0.74
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (65 bp):
AATCAACTTACCTTTTATATTTAGATAGTGAAACTCCTATAAATACCATACATGACAACCTATAA
Found at i:46082223 original size:24 final size:24
Alignment explanation
Indices: 46082191--46082239 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
46082181 GAAAAGCTAA
46082191 CTAAGTGGGCATAACATCCCTTGC
1 CTAAGTGGGCATAACATCCCTTGC
46082215 CTAAGTGGGCATAACATCCCTTGC
1 CTAAGTGGGCATAACATCCCTTGC
46082239 C
1 C
46082240 CAACTTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (24 bp):
CTAAGTGGGCATAACATCCCTTGC
Found at i:46083357 original size:22 final size:20
Alignment explanation
Indices: 46083327--46083371 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
46083317 TTCTTTTCAT
*
46083327 ATTCTAAGCTCAATATCTATCA
1 ATTCCAAGCTCAAT-T-TATCA
*
46083349 ATTCCAAGCTTAATTTATCA
1 ATTCCAAGCTCAATTTATCA
46083369 ATT
1 ATT
46083372 TATCAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (20 bp):
ATTCCAAGCTCAATTTATCA
Found at i:46084704 original size:22 final size:22
Alignment explanation
Indices: 46084677--46084719 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46084667 ATATATATAC
*
46084677 ACATGGTAGCACAATCAACATT
1 ACATGGCAGCACAATCAACATT
* *
46084699 ACATGGCGGCACAGTCAACAT
1 ACATGGCAGCACAATCAACAT
46084720 ATTGTTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
ACATGGCAGCACAATCAACATT
Found at i:46085116 original size:10 final size:10
Alignment explanation
Indices: 46085103--46085173 Score: 56
Period size: 10 Copynumber: 7.3 Consensus size: 10
46085093 ACATGTGGCG
46085103 AAAAATAATA
1 AAAAATAATA
46085113 AAAAATAATA
1 AAAAATAATA
* *
46085123 AGAATTAAT-
1 AAAAATAATA
* *
46085132 AAAAGTTATA
1 AAAAATAATA
*
46085142 AAAATTAATA
1 AAAAATAATA
***
46085152 AATTTTAATA
1 AAAAATAATA
46085162 AAAAAT-ATA
1 AAAAATAATA
46085171 AAA
1 AAA
46085174 GTTGTCGAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
9 12 0.25
10 36 0.75
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAATAATA
Found at i:46085164 original size:19 final size:19
Alignment explanation
Indices: 46085103--46085164 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
46085093 ACATGTGGCG
* **
46085103 AAAAATAATAAAAAATAAT
1 AAAATTAATAAAAGTTAAT
46085122 AAGAATTAATAAAAGTT-AT
1 AA-AATTAATAAAAGTTAAT
**
46085141 AAAAATTAATAAATTTTAAT
1 -AAAATTAATAAAAGTTAAT
46085161 AAAA
1 AAAA
46085165 AATATAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAATTAATAAAAGTTAAT
Found at i:46086216 original size:13 final size:13
Alignment explanation
Indices: 46086180--46086224 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
46086170 GCATATGGAT
46086180 ATAA-AAATAATA
1 ATAATAAATAATA
46086192 A-AATGAAAATAATA
1 ATAAT--AAATAATA
46086206 ATAATAAATAATA
1 ATAATAAATAATA
46086219 ATAATA
1 ATAATA
46086225 CAATGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.07
12 1 0.03
13 14 0.48
14 9 0.31
15 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:46087421 original size:22 final size:23
Alignment explanation
Indices: 46087387--46087433 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
46087377 GGGCTTGTAC
*
46087387 AAAAGTTATTAAAAATTAGAAAA
1 AAAAGTTATTAAAAATCAGAAAA
* *
46087410 AAAATTTA-TAAAAATCATAAAA
1 AAAAGTTATTAAAAATCAGAAAA
46087432 AA
1 AA
46087434 TTATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAGTTATTAAAAATCAGAAAA
Found at i:46087447 original size:28 final size:28
Alignment explanation
Indices: 46087410--46087470 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
46087400 AATTAGAAAA
* *
46087410 AAAATTTATAAAAATCATA-AAAAATTAT
1 AAAATATATAAAAAT-ATAGAAAAAATAT
*
46087438 AAAATATATAGAAATATAGAAAAAATAT
1 AAAATATATAAAAATATAGAAAAAATAT
46087466 AAAAT
1 AAAAT
46087471 TTTATACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAATATATAAAAATATAGAAAAAATAT
Found at i:46087863 original size:12 final size:12
Alignment explanation
Indices: 46087846--46087880 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46087836 TCTATAGTGA
*
46087846 GTATGTATGTAT
1 GTATGTATGCAT
46087858 GTATGTATGCAT
1 GTATGTATGCAT
*
46087870 GCATGTATGCA
1 GTATGTATGCA
46087881 CGTACGTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (12 bp):
GTATGTATGCAT
Found at i:46088206 original size:10 final size:11
Alignment explanation
Indices: 46088191--46088223 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
46088181 AAATTTAAAT
46088191 ATTTTTCTATA
1 ATTTTTCTATA
46088202 ATTTTT-TATA
1 ATTTTTCTATA
46088212 ATTTTTCTATA
1 ATTTTTCTATA
46088223 A
1 A
46088224 CTTCTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTCTATA
Found at i:46088477 original size:4 final size:4
Alignment explanation
Indices: 46088468--46088497 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
46088458 GCTAAGCCAG
46088468 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
46088498 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:46105216 original size:44 final size:44
Alignment explanation
Indices: 46105090--46105534 Score: 583
Period size: 44 Copynumber: 10.1 Consensus size: 44
46105080 AAGACTTGTA
* * *
46105090 TCTTCGATCTA-TT-TCGCCAATATATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGCTT
* * *
46105134 TATTCGATCTACTTTGC-CCCCAATACATAAAGACAAGATCTGCTT
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTT
* * * *
46105179 TCTTCGATCTCCTTCACGCCAATATATGAAAACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
46105223 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
46105267 T-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * **
46105310 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAAATCTATTT
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* *
46105355 TCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* **
46105399 TCTTCGATTTACTTCACGCCAATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
46105443 TCTTCGATCTACTTCACGCCAATACATGAAGACAATATATGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
46105487 TCTTCGATCTACTTCACGTCGATACATGAAGACAAGATTTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
46105531 TCTT
1 TCTT
46105535 TCAACATGCC
Statistics
Matches: 356, Mismatches: 38, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
43 44 0.12
44 237 0.67
45 64 0.18
46 2 0.01
47 9 0.03
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:46107793 original size:19 final size:19
Alignment explanation
Indices: 46107769--46107807 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46107759 GGTTTGGCAG
46107769 AAAAATCCAAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
***
46107788 AAAAATTGTAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
46107807 A
1 A
46107808 GAACATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAAATCCAAAAGAATGAA
Found at i:46111960 original size:12 final size:12
Alignment explanation
Indices: 46111943--46111980 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46111933 TATAGAAAAT
46111943 ATGATAATAATA
1 ATGATAATAATA
*
46111955 ATGATAGTAAATA
1 ATGATAAT-AATA
46111968 ATG-TAATAATA
1 ATGATAATAATA
46111979 AT
1 AT
46111981 AGTAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:46111966 original size:24 final size:24
Alignment explanation
Indices: 46111934--46111980 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
46111924 ATGTATATGT
46111934 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
46111958 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
46111981 AGTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:46117298 original size:14 final size:16
Alignment explanation
Indices: 46117269--46117301 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
46117259 AATTAAACCG
46117269 AATTCAAAATTAAATA
1 AATTCAAAATTAAATA
46117285 AATT-AAAA-TAAATA
1 AATTCAAAATTAAATA
46117299 AAT
1 AAT
46117302 GTGGGTTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTCAAAATTAAATA
Found at i:46120862 original size:20 final size:21
Alignment explanation
Indices: 46120830--46120872 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46120820 ATAGATGCAC
46120830 TTAAATCACACATAACCT-TT
1 TTAAATCACACATAACCTATT
*
46120850 TTAATATCA-ACATTACCTATT
1 TTAA-ATCACACATAACCTATT
46120871 TT
1 TT
46120873 GCAAGATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATCACACATAACCTATT
Found at i:46124206 original size:27 final size:28
Alignment explanation
Indices: 46124176--46124228 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
46124166 TGAAATTCTT
*
46124176 ACTTTAATTA-TAAAATAATTAATTTAC
1 ACTTAAATTATTAAAATAATTAATTTAC
* *
46124203 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
46124229 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTAC
Found at i:46129477 original size:188 final size:188
Alignment explanation
Indices: 46129160--46129522 Score: 708
Period size: 188 Copynumber: 1.9 Consensus size: 188
46129150 ACAATATCAG
*
46129160 GAATTAAAAAAGGATCGTGCTCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
1 GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
46129225 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
66 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
*
46129290 TAGATATGATTCTCTTTCTCGAATAACGTGAAATATCCCCTTTTTATTCGCGTATCGA
131 TAAATATGATTCTCTTTCTCGAATAACGTGAAATATCCCCTTTTTATTCGCGTATCGA
46129348 GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
1 GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
46129413 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
66 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
46129478 TAAATATGATTCTCTTTCTCGAATAACGTGAAATATCCCCTTTTT
131 TAAATATGATTCTCTTTCTCGAATAACGTGAAATATCCCCTTTTT
46129523 CTTGAAAATT
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 173 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (188 bp):
GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
TAAATATGATTCTCTTTCTCGAATAACGTGAAATATCCCCTTTTTATTCGCGTATCGA
Found at i:46131444 original size:17 final size:18
Alignment explanation
Indices: 46131422--46131458 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46131412 TTATTCTTTT
46131422 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
46131439 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
46131457 AT
1 AT
46131459 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:46132174 original size:44 final size:44
Alignment explanation
Indices: 46132124--46132212 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
46132114 ATAACATTGA
46132124 TTCTGGTCGAAAAGCATGACCAGGACTTGCCTAATCTCATGAGT
1 TTCTGGTCGAAAAGCATGACCAGGACTTGCCTAATCTCATGAGT
46132168 TTCTGGTCGAAAAGCATGACCAGGACTTGCCTAATCTCATGAGT
1 TTCTGGTCGAAAAGCATGACCAGGACTTGCCTAATCTCATGAGT
46132212 T
1 T
46132213 CAGACTCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (44 bp):
TTCTGGTCGAAAAGCATGACCAGGACTTGCCTAATCTCATGAGT
Found at i:46132239 original size:8 final size:8
Alignment explanation
Indices: 46132228--46132307 Score: 81
Period size: 9 Copynumber: 9.4 Consensus size: 8
46132218 TCAAAAATAA
46132228 AAAAAATC
1 AAAAAATC
*
46132236 AAAAAATAAA
1 AAAAAAT--C
46132246 AAAAAATC
1 AAAAAATC
46132254 AAAAAAATC
1 -AAAAAATC
46132263 AAAAAAATC
1 -AAAAAATC
46132272 AAAAAAATC
1 -AAAAAATC
46132281 AAAAAATC
1 AAAAAATC
*
46132289 -AAAAATAA
1 AAAAAAT-C
46132297 AAAAAATC
1 AAAAAATC
46132305 AAA
1 AAA
46132308 GTCAAAATAG
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
7 6 0.10
8 18 0.29
9 32 0.51
10 7 0.11
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:46132257 original size:27 final size:27
Alignment explanation
Indices: 46132220--46132307 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
46132210 GTTCAGACTC
*
46132220 AAAAATAAAAAAAATCAAAAAATAAAA
1 AAAAATCAAAAAAATCAAAAAATAAAA
*
46132247 AAAAATCAAAAAAATCAAAAAA-ATCAA
1 AAAAATCAAAAAAATCAAAAAATA-AAA
46132274 AAAAATC-AAAAAATC-AAAAAT-AAA
1 AAAAATCAAAAAAATCAAAAAATAAAA
46132298 AAAAATCAAA
1 AAAAATCAAA
46132308 GTCAAAATAG
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 9 0.16
25 7 0.13
26 9 0.16
27 30 0.55
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (27 bp):
AAAAATCAAAAAAATCAAAAAATAAAA
Found at i:46132314 original size:16 final size:16
Alignment explanation
Indices: 46132218--46132307 Score: 110
Period size: 18 Copynumber: 5.3 Consensus size: 16
46132208 GAGTTCAGAC
46132218 TCAAAAATAAAAAAAA
1 TCAAAAATAAAAAAAA
46132234 TCAAAAAATAAAAAAAAA
1 TC-AAAAAT-AAAAAAAA
*
46132252 TCAAAAAAATCAAAAAAA
1 TC--AAAAATAAAAAAAA
46132270 TCAAAAA-AATCAAAAAA
1 TCAAAAATAA--AAAAAA
46132287 TCAAAAATAAAAAAAA
1 TCAAAAATAAAAAAAA
46132303 TCAAA
1 TCAAA
46132308 GTCAAAATAG
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.02
16 18 0.27
17 19 0.29
18 21 0.32
19 7 0.11
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (16 bp):
TCAAAAATAAAAAAAA
Found at i:46132330 original size:16 final size:16
Alignment explanation
Indices: 46132319--46132351 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46132309 TCAAAATAGG
46132319 AAAA-AAGAAAAATAA
1 AAAAGAAGAAAAATAA
*
46132334 AAAAGAAGAAAAAGAA
1 AAAAGAAGAAAAATAA
46132350 AA
1 AA
46132352 GAAAGAGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAGAAGAAAAATAA
Found at i:46133174 original size:9 final size:9
Alignment explanation
Indices: 46133162--46133193 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
46133152 AAAAAAATGC
46133162 TGAAAAAAA
1 TGAAAAAAA
46133171 TG--AAAAA
1 TGAAAAAAA
46133178 TGAAAAAAA
1 TGAAAAAAA
46133187 TGAAAAA
1 TGAAAAA
46133194 GTAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:46133200 original size:16 final size:16
Alignment explanation
Indices: 46133162--46133193 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46133152 AAAAAAATGC
46133162 TGAAAAAAATGAAAAA
1 TGAAAAAAATGAAAAA
46133178 TGAAAAAAATGAAAAA
1 TGAAAAAAATGAAAAA
46133194 GTAAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
TGAAAAAAATGAAAAA
Found at i:46134552 original size:88 final size:88
Alignment explanation
Indices: 46134403--46136039 Score: 2713
Period size: 88 Copynumber: 18.6 Consensus size: 88
46134393 AACAGATAAG
* * *
46134403 TGAAGACAAAAGATCTTGCCTTCCTGTATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46134468 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
46134491 TGAAGACAAAAGATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46134556 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
46134579 TGAAGACAAAAGATTTTGCCTTCCTGCATTGACAGCGAAGAAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46134644 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
**
46134667 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAAAAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
* *
46134732 CTCTCAGTTGTGATGGAGCTAGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
46134755 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGCCGAAGATATAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
46134820 TTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
46134843 TGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46134908 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
46134931 TGAAGAAAAAAGATTTTGCCTTCCTAG-ATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCC
1 TGAAGACAAAAGATCTTGCCTTCCT-GCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCC
*
46134995 TCTTTCGGTTGTGATGGAGCTGGT
65 TCTCTCGGTTGTGATGGAGCTGGT
*
46135019 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46135084 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * *
46135107 TGAATACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACATAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
46135172 CTCTCGGTTGTGATGGAGCTGAT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
46135195 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACAC-AACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
46135259 CTCTCGGTTGTGATGGAGTTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
46135282 TGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCAAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46135347 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
46135370 TGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46135435 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
46135458 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGCCGAAGATATAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
46135523 TTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
46135546 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGTTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46135611 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
46135634 TGAAGAAAAAAGATTTTGCCTTCCTAG-ATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCC
1 TGAAGACAAAAGATCTTGCCTTCCT-GCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCC
*
46135698 TCTTTCGGTTGTGATGGAGCTGGT
65 TCTCTCGGTTGTGATGGAGCTGGT
*
46135722 TGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
46135787 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * *
46135810 TGAAGATAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACATAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
46135875 CTCTCGGTTGTGATGGAGCTGAT
66 CTCTCGGTTGTGATGGAGCTGGT
* * **
46135898 TGAAGACAAAAGATCTTGCCTTCCTGCATTGAGAGTGAAGCAAATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
46135963 CTCTCGGTTGTGATGGAGTTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
46135986 TGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACAC
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
46136040 CTGCATTGAG
Statistics
Matches: 1447, Mismatches: 97, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
87 82 0.06
88 1363 0.94
89 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:46136043 original size:31 final size:31
Alignment explanation
Indices: 46136008--46136070 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
46135998 ATCTTGCCTT
* *
46136008 CCTGCATTGACAGCGAAGTAGGTCGAAGACA
1 CCTGCATTGACAGCGAAGCAGATCGAAGACA
* *
46136039 CCTGCATTGAGAGTGAAGCAGATCGAAGACA
1 CCTGCATTGACAGCGAAGCAGATCGAAGACA
46136070 C
1 C
46136071 AAACCTTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.29, T:0.16
Consensus pattern (31 bp):
CCTGCATTGACAGCGAAGCAGATCGAAGACA
Found at i:46136131 original size:119 final size:119
Alignment explanation
Indices: 46135920--46136158 Score: 460
Period size: 119 Copynumber: 2.0 Consensus size: 119
46135910 ATCTTGCCTT
*
46135920 CCTGCATTGAGAGTGAAGCAAATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGTTGG
1 CCTGCATTGAGAGTGAAGCAAATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGTTGG
46135985 TTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACA
66 TTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACA
*
46136039 CCTGCATTGAGAGTGAAGCAGATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGTTGG
1 CCTGCATTGAGAGTGAAGCAAATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGTTGG
46136104 TTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACA
66 TTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACA
46136158 C
1 C
46136159 AAACCTTGCC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (119 bp):
CCTGCATTGAGAGTGAAGCAAATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGTTGG
TTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACA
Found at i:46136193 original size:88 final size:88
Alignment explanation
Indices: 46136039--46136851 Score: 1317
Period size: 88 Copynumber: 9.2 Consensus size: 88
46136029 GTCGAAGACA
* * * * *
46136039 CCTGCATTGAGAGTGAAGCAGATCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGTTGG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
*
46136104 TTGAAGATAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
* *
46136127 CCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTATGATGGAGCTGG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
46136192 TTGAAGACAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
* *
46136215 CCTACATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
46136280 TTGAAGACAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
*
46136303 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCAGTTGTGATGGAGCTGG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
46136368 TTGAAGACAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
* *
46136391 CCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGA
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
46136456 TTGAAGACAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
* * *
46136479 CCTGCACTGACAGCGAAGCAGGTCGAAGACACAAGCCTTGCCTCTCTCTGTTGTGATGGAGCTGG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
*
46136544 TTAAAGACAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
*
46136567 CCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
46136632 TTGAAGACAAAAGATCTTGCCTT
66 TTGAAGACAAAAGATCTTGCCTT
* * *
46136655 CCTGCATTGACAGCGAAGCAGGTCGAAGATACAAATCTTGCCTCTCTCGGTTGT-AGTAGAGCTG
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTG
*
46136719 GTTGAAGACAACAGATCTTGCCTT
65 GTTGAAGACAAAAGATCTTGCCTT
* ** *
46136743 CCTGCATTAACAGCGAAGCAAATCGAAGACACAAACCTTGCCTCTCTCAGTTGT-A-GCAGAGCT
1 CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATG--GAGCT
* *
46136806 GGTTGAAGACAACAGATCTTTCCTT
64 GGTTGAAGACAAAAGATCTTGCCTT
*
46136831 CCTGCATTGACAGCGGAGCAG
1 CCTGCATTGACAGCGAAGCAG
46136852 ACTGAAGATA
Statistics
Matches: 679, Mismatches: 43, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
87 1 0.00
88 678 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
CCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGG
TTGAAGACAAAAGATCTTGCCTT
Found at i:46136209 original size:207 final size:207
Alignment explanation
Indices: 46135854--46136246 Score: 660
Period size: 207 Copynumber: 1.9 Consensus size: 207
46135844 GCGAAGTAGG
* *
46135854 TCGAAGACATAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGATTGAAGACAAAAGATCTTGCCT
1 TCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGCTGATTGAAGACAAAAGATCTTGCCT
* * * *
46135919 TCCTGCATTGAGAGTGAAGCAAATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGTTG
66 TCCTGCATTGACAGCGAAGCAAATCGAAGACACAAACCTTGCCTCTCTCGGTTATGATGGAGCTG
* *
46135984 GTTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGTAGGTCGAAGACACCTGCATTGA
131 GTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGTAGGTCGAAGACACCTGCATTGA
46136049 GAGTGAAGCAGA
196 GAGTGAAGCAGA
* * *
46136061 TCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGTTGGTTGAAGATAAAAGATCTTGCCT
1 TCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGCTGATTGAAGACAAAAGATCTTGCCT
* **
46136126 TCCTGCATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTATGATGGAGCTG
66 TCCTGCATTGACAGCGAAGCAAATCGAAGACACAAACCTTGCCTCTCTCGGTTATGATGGAGCTG
46136191 GTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGTAGGTCGAAGACAC
131 GTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGTAGGTCGAAGACAC
46136247 AAACCTTGCC
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
207 172 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (207 bp):
TCGAAGACACAAACCTTACCTCTCTCGGTTGTGATGGAGCTGATTGAAGACAAAAGATCTTGCCT
TCCTGCATTGACAGCGAAGCAAATCGAAGACACAAACCTTGCCTCTCTCGGTTATGATGGAGCTG
GTTGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGTAGGTCGAAGACACCTGCATTGA
GAGTGAAGCAGA
Found at i:46158524 original size:40 final size:39
Alignment explanation
Indices: 46158467--46158563 Score: 131
Period size: 40 Copynumber: 2.5 Consensus size: 39
46158457 ACCTATACTA
* *
46158467 GATTGCACATACATGCCCATGTTTGTACTTCGGTACCCCT
1 GATTGCACATACGTGCCCATCTTTGTACTTCGGTA-CCCT
* * *
46158507 GATTGCACAAACGTGCCCCTCTTTGTACTTTGGTACCCT
1 GATTGCACATACGTGCCCATCTTTGTACTTCGGTACCCT
*
46158546 GGTTGCACATACGTGCCC
1 GATTGCACATACGTGCCC
46158564 CTATTTACAC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 20 0.40
40 30 0.60
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.31
Consensus pattern (39 bp):
GATTGCACATACGTGCCCATCTTTGTACTTCGGTACCCT
Found at i:46158560 original size:39 final size:40
Alignment explanation
Indices: 46158467--46158580 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 40
46158457 ACCTATACTA
* * * *
46158467 GATTGCACATACATGCCCATGTTTGTACTTCGGTACCCCT
1 GATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
* *
46158507 GATTGCACAAACGTGCCCCTCTTTGTACTTTGGTA-CCCT
1 GATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
* **
46158546 GGTTGCACATACGTGCCCCTATTTACACTTTGGTA
1 GATTGCACATACGTGCCCCTATTTGTACTTTGGTA
46158581 ACTTCAATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 34 0.53
40 30 0.47
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.33
Consensus pattern (40 bp):
GATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCCT
Found at i:46169396 original size:16 final size:16
Alignment explanation
Indices: 46169375--46169408 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
46169365 AATTCACAAT
46169375 TTGGTGAACTCTAAGG
1 TTGGTGAACTCTAAGG
*
46169391 TTGGTGAACTCTAGGG
1 TTGGTGAACTCTAAGG
46169407 TT
1 TT
46169409 TGTTGGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (16 bp):
TTGGTGAACTCTAAGG
Found at i:46173184 original size:15 final size:15
Alignment explanation
Indices: 46173164--46173194 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46173154 TTTGCTTGTA
46173164 AACTTACTAGGCTTT
1 AACTTACTAGGCTTT
*
46173179 AACTTACTATGCTTT
1 AACTTACTAGGCTTT
46173194 A
1 A
46173195 TGCTTACTCC
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:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (15 bp):
AACTTACTAGGCTTT
Found at i:46178037 original size:15 final size:16
Alignment explanation
Indices: 46178007--46178038 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46177997 ACTTTAGAGG
46178007 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
46178023 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
46178039 GGATTGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:46178380 original size:101 final size:102
Alignment explanation
Indices: 46178264--46178448 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
46178254 AAAGTGATGG
* *
46178264 TCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTA-CTAGA-A-TGATAGGTCACATGTGTAG
1 TCACGTGTGTAGTACTATCTGCAGGCTACTACGTGTATC-AGATAGTGAT-GGTCACATGTGTAG
*
46178326 TACTATCTGTAGGCTACTATGCGTACCGAATAGCTTCGA
64 TACTATCTGCAGGCTACTATGCGTACCGAATAGCTTCGA
*
46178365 TCACGTGTGTAGTACTATCTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATCTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
*
46178430 CTATGTGCAGGCTACTATG
66 CTATCTGCAGGCTACTATG
46178449 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 37 0.49
102 35 0.46
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATCTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
CTATCTGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:46178381 original size:51 final size:50
Alignment explanation
Indices: 46178264--46178448 Score: 169
Period size: 51 Copynumber: 3.7 Consensus size: 50
46178254 AAAGTGATGG
* * * * * * *
46178264 TCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTACTAGAAT-G-ATAGG
1 TCACATGTGTAGTACTATCTGCAGGCTACTATGCGTAC-CGAATAGTAT-GA
*
46178314 TCACATGTGTAGTACTATCTGTAGGCTACTATGCGTACCGAATAGCT-TCGA
1 TCACATGTGTAGTACTATCTGCAGGCTACTATGCGTACCGAATAG-TAT-GA
* * * * * *
46178365 TCACGTGTGTAGTACTATCTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATCTGCAGGCTACTATGCGTACCGAATAGT-ATGA
*
46178416 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATCTGCAGGCTACTATG
46178449 TGAACCGGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.04
50 34 0.31
51 72 0.65
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATCTGCAGGCTACTATGCGTACCGAATAGTATGA
Found at i:46178450 original size:26 final size:26
Alignment explanation
Indices: 46178370--46178450 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
46178360 TTCGATCACG
*
46178370 TGTGTAGTACTATCTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
46178396 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
46178421 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
46178447 TGTG
1 TGTG
46178451 AACCGGTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 21 0.51
27 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:46183565 original size:50 final size:50
Alignment explanation
Indices: 46183439--46183673 Score: 235
Period size: 50 Copynumber: 4.6 Consensus size: 50
46183429 TTGGGTAAAA
*
46183439 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAG
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAG
* *
46183495 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* * *
46183545 AGATCCC-TCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAG
1 AGATCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* * * * * * *
46183595 A-ACTCCCATGTAAGACCGTATCTAGGATATGGCATTGGCA--GTACAAGAA
1 AGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAG
*
46183644 ACATCCCATGTAAGACCATGTCTGGGACAT
1 AGATCCCATGTAAGACCATGTCTGGGACAT
46183674 TTCTTTGGCA
Statistics
Matches: 153, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 30 0.20
50 79 0.52
51 1 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 38 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
Found at i:46204851 original size:49 final size:48
Alignment explanation
Indices: 46204794--46204923 Score: 142
Period size: 49 Copynumber: 2.6 Consensus size: 48
46204784 GTTGCATATA
46204794 TATTTAAAACTTGTTTAAATAATAATTTAAATT-T-TATTTAATTA-TATTT
1 TATTTAAAACTT-TTTAAATAATAA-TTAAATTATGT-TTTAATTATTA-TT
*
46204843 TATTTAAAACTCATTTAAATAATTAA-TAAATTATGTTTTAATTATTATT
1 TATTTAAAACT-TTTTAAATAA-TAATTAAATTATGTTTTAATTATTATT
* *
46204892 TATCTAAAACTCTTTTGAATAATAATTAAATT
1 TATTTAAAACT-TTTTAAATAATAATTAAATT
46204924 CTTTTTCCTT
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
48 9 0.13
49 56 0.79
50 6 0.08
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (48 bp):
TATTTAAAACTTTTTAAATAATAATTAAATTATGTTTTAATTATTATT
Found at i:46204982 original size:94 final size:94
Alignment explanation
Indices: 46204878--46205052 Score: 305
Period size: 94 Copynumber: 1.9 Consensus size: 94
46204868 ATAAATTATG
* * *
46204878 TTTTAATTATTATTTATCTAAAACTCTTTTGAATAATAATTAAATTCTTTTTCCTTATCTGATAA
1 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTAATAA
46204943 GGAATATATCAAATCCTTTTGATTTTGAA
66 GGAATATATCAAATCCTTTTGATTTTGAA
* *
46204972 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATTATTAAATTCTATTTGCTTATCTAATAA
1 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTAATAA
46205037 GGAATATATCAAATCC
66 GGAATATATCAAATCC
46205053 CCTTTTTATC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (94 bp):
TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTAATAA
GGAATATATCAAATCCTTTTGATTTTGAA
Found at i:46218237 original size:33 final size:33
Alignment explanation
Indices: 46218200--46218269 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
46218190 TTGGCCATTG
*
46218200 ATAATTGTTTCTGGCAATTCTCTCAATGATGTC
1 ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
46218233 ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
1 ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
46218266 ATAA
1 ATAA
46218270 GCCTCATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
ATAATTGTTTCTGGCAATTCTCTCAAAGATGTC
Found at i:46220913 original size:22 final size:23
Alignment explanation
Indices: 46220880--46220923 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
46220870 TCTGTCGAAA
46220880 ATTATCAAAATTAA-TCAAAATTT
1 ATTATCAAAATTAAGT-AAAATTT
46220903 ATTAT-AAAATTAAGTAAAATT
1 ATTATCAAAATTAAGTAAAATT
46220924 AAACATGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTATCAAAATTAAGTAAAATTT
Found at i:46225700 original size:21 final size:21
Alignment explanation
Indices: 46225674--46225716 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46225664 TGATATTGTT
46225674 ATTTTTTAATAACAATTTTAA
1 ATTTTTTAATAACAATTTTAA
* **
46225695 ATTTTTTTATAACTTTTTTAA
1 ATTTTTTAATAACAATTTTAA
46225716 A
1 A
46225717 AAAATTGTTT
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:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTTAATAACAATTTTAA
Done.