Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007524.1 Hibiscus syriacus cultivar Beakdansim tig00020979_pilon, whole genome shotgun sequence
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: 70398
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Found at i:4116 original size:18 final size:18
Alignment explanation
Indices: 4093--4136 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
4083 TCTATAACCA
*
4093 TACTTTATAATATTTTCT
1 TACTTTATAATATTTTAT
4111 TACTTTATAATATTTTAT
1 TACTTTATAATATTTTAT
*
4129 TTCTTTAT
1 TACTTTAT
4137 CTTGTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (18 bp):
TACTTTATAATATTTTAT
Found at i:14681 original size:49 final size:49
Alignment explanation
Indices: 14628--15102 Score: 578
Period size: 49 Copynumber: 9.8 Consensus size: 49
14618 GTTATACATT
* ** * *
14628 TAACTTGCATTAATGGCATGTTTCTGCCAAAAGTGCACCATTTGTCATC
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
* * * *
14677 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCGTTAGACATT
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
14726 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
* * * * * * *
14775 TAACTTGCATTAGTGGAACCATTCTACCAAAAATGCAACGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
* *
14824 TAACTTGCATTAGTGGCACCTTTTTGCCAAAAATGCACCATTTGTCATC
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
* * * * * * *
14873 TAACTTGCATTAGTGGTACCTTTCTACAAAAAATGCAACGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
*
14922 TAACTTGCATTAGTGGCACCTTTCTACCAGAAATGCACCATTTGTCATC
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
* * * * * *
14971 TAACTTGCATTAGTGGTACCTTTCTACCAAAAATGCAACGTTAGGCATT
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
** *
15020 TAACTTGCATTAGTGGCACCTTTCT---GGAAATGCACTATTTGTCATC
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
* * * *
15066 TAACTTGCATTAATGGTACTTTTCTACAAAAAATGCA
1 TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCA
15103 ACGTTAGGCA
Statistics
Matches: 356, Mismatches: 67, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
46 35 0.10
49 321 0.90
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (49 bp):
TAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATC
Found at i:14781 original size:98 final size:98
Alignment explanation
Indices: 14624--15125 Score: 794
Period size: 98 Copynumber: 5.2 Consensus size: 98
14614 CACCGTTATA
* ** * *
14624 CATTTAACTTGCATTAATGGCATGTTTCTGCCAAAAGTGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
* * *
14689 GTGGCACCTTTCTACCAAAAATGCACCGTTAGA
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
14722 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
* *
14787 GTGGAACCATTCTACCAAAAATGCAACGTTAGG
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
* *
14820 CATTTAACTTGCATTAGTGGCACCTTTTTGCCAAAAATGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
*
14885 GTGGTACCTTTCTACAAAAAATGCAACGTTAGG
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
*
14918 CATTTAACTTGCATTAGTGGCACCTTTCTACCAGAAATGCACCATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
14983 GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
** *
15016 CATTTAACTTGCATTAGTGGCACCTTTCT---GGAAATGCACTATTTGTCATCTAACTTGCATTA
1 CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
* * *
15078 ATGGTACTTTTCTACAAAAAATGCAACGTTAGG
66 GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
*
15111 CATTTAACTTTCATT
1 CATTTAACTTGCATT
15126 TTAGAGCAGT
Statistics
Matches: 380, Mismatches: 24, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
95 75 0.20
98 305 0.80
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
CATTTAACTTGCATTAGTGGCACCTTTCTACCAAAAATGCACCATTTGTCATCTAACTTGCATTA
GTGGTACCTTTCTACCAAAAATGCAACGTTAGG
Found at i:19837 original size:98 final size:98
Alignment explanation
Indices: 19715--20919 Score: 1780
Period size: 98 Copynumber: 12.3 Consensus size: 98
19705 TCATGCCGAT
* * * * *
19715 AATGCACCGTTATGCATTTAACTTGCATTAGTGGCACTTTTCTACAAAAAATGCACCATTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
*
19780 TCTAACTTGCATTAGTGGCACCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * * * * * *
19813 AATGCATCGTTAAGCATATAACTTGCATTAGTAGCATCTTTCTACCAAAAATACACCATTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
* *
19878 TCTAACTTGCATTAGTGGCACCTTTCTACTAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * * * *
19911 AAAGCAACGTTAGGCATTTAACTTGCATTAGTGGCACATTTCTACCAAAAATGTACCAATTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
* *
19976 TCTAACTTGCATTAGTGGTACCTTTTTACTAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* *
20009 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCTAAAAATACACCATTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
* *
20074 TCTAACTTGCATTTGTGGTAGCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * * *
20107 AATTCAACGTTAGGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTTCTCT
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
* * *
20172 TCTAACTTACATCAGTAGTACCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * *
20205 AATGCAACATTAGGCATTTAACTTGCATTAGTGGCACGTTTCTGCCAAAAATGCACCTTTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
*
20270 TCTAACTTGCATTAGTGGTACCTTTCTACCAAC
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * * *
20303 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGAACCTTTCTGCCAAAAATGTACAATTTTTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
*
20368 TCTAACTTACATTAGTGGTACCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * * * *
20401 AATACAACGTTAGGCATTTAACATGCATTAGTGGCACATTTCTGCTAAAAATGCACCATTTGCCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
*
20466 TTTAACTTGCATTAGTGGTACCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* *
20499 AGTGCAACGTTAGGCATTTAACTTGCATTAGTGGCATCTTTCTGCCAAAAATGCACCATTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
*
20564 TCTAACTTGCATTAGTGGTACCTTTCTACTAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* *
20597 CATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCAAAAAATGCACCATTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
* *
20662 TCTAATTTGCATTTGTGGTACCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* * * * *
20695 TATTCAACGTTAGGCATTTAACTTGCATTAGTGACACCTTTCTACCAAAAATGCACCATTTGTCT
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
* * *
20760 TCTAACTTACATCAGTAGTACCTTTCTACCAAA
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
* ** * *
20793 AATCCAATATTAGGCATTTAACTTGCATTAGTGGCACGTTTCTGCCAAAAATACACCATTTGTCA
1 AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
*
20858 TCTAACTTGCATTAGTGGTACCTTTCTACCAAT
66 TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
*
20891 AATGCAACGTTAGGCATTTAACTTTCATT
1 AATGCAACGTTAGGCATTTAACTTGCATT
20920 TTACAGTAGT
Statistics
Matches: 989, Mismatches: 118, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 989 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (98 bp):
AATGCAACGTTAGGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTTGTCA
TCTAACTTGCATTAGTGGTACCTTTCTACCAAA
Found at i:21297 original size:18 final size:18
Alignment explanation
Indices: 21276--21322 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
21266 TCAATTTCTA
21276 TTACAATTTCAGCCTATC
1 TTACAATTTCAGCCTATC
*
21294 TTACGATTTCAGCCTATC
1 TTACAATTTCAGCCTATC
21312 TTACAATTTCA
1 TTACAATTTCA
21323 AGCTTAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (18 bp):
TTACAATTTCAGCCTATC
Found at i:23583 original size:17 final size:17
Alignment explanation
Indices: 23538--23642 Score: 97
Period size: 17 Copynumber: 6.1 Consensus size: 17
23528 AATATATGTA
*
23538 TGATAACTGTAAAATATC
1 TGATAACTGT-AAATATT
* *
23556 TAATACCTGTAAATATT
1 TGATAACTGTAAATATT
*
23573 TGATAATTGT-AATCATT
1 TGATAACTGTAAAT-ATT
*
23590 TGATATA-TGTAAATATC
1 TGATA-ACTGTAAATATT
*
23607 TGATAACTGAAAATCATT
1 TGATAACTGTAAAT-ATT
*
23625 TGATAACTGTAAACATT
1 TGATAACTGTAAATATT
23642 T
1 T
23643 AGAATTCATC
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.06
17 41 0.58
18 26 0.37
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (17 bp):
TGATAACTGTAAATATT
Found at i:23611 original size:34 final size:35
Alignment explanation
Indices: 23538--23637 Score: 107
Period size: 35 Copynumber: 2.9 Consensus size: 35
23528 AATATATGTA
* * * *
23538 TGATAACTGTAAAAT-ATCTAATACCTGTAAATATT
1 TGATAACTG-AAAATCATTTGATAACTGTAAATATC
* *
23573 TGATAATTG-TAATCATTTGATATA-TGTAAATATC
1 TGATAACTGAAAATCATTTGATA-ACTGTAAATATC
23607 TGATAACTGAAAATCATTTGATAACTGTAAA
1 TGATAACTGAAAATCATTTGATAACTGTAAA
23638 CATTTAGAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
33 3 0.06
34 24 0.45
35 26 0.49
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (35 bp):
TGATAACTGAAAATCATTTGATAACTGTAAATATC
Found at i:24467 original size:33 final size:32
Alignment explanation
Indices: 24413--24475 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
24403 TATAAAAACA
*
24413 TTTTATTATATTATATATTTATTTATTATTAT
1 TTTTATTATAATATATATTTATTTATTATTAT
*
24445 TTTTATTATTAATATATTTTTATTTATTATT
1 TTTTATTA-TAATATATATTTATTTATTATT
24476 TTTGTAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (32 bp):
TTTTATTATAATATATATTTATTTATTATTAT
Found at i:28844 original size:110 final size:110
Alignment explanation
Indices: 28644--29611 Score: 1383
Period size: 110 Copynumber: 8.8 Consensus size: 110
28634 GATGGCGGTT
* * * * *
28644 GCTCAACTTCACAACGAAAGGGCGACTAACGGTCAACAAACAACTTTTCAGTTTCATTCAGAGTT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
28709 AATTTAAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * * *
28754 GCTTAACTTCACAGTGAATGGGCGACTGACTGTCCACAGATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
** * *
28819 AATTTCAACTTCACAGCGATTGATATTGGACTAGAGAGAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * *
28864 GCTCAACTTCACAGCAAAGGGGCGGCTGATTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * * *
28929 AATTTCAATTTCAAAGTGAAGGATATTGGACTTGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
*
28974 GCTCAACTTCCCAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
29039 AATTTCAACTTCACAGTGAAGGATATTGGACTCGAGTCAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
** *
29084 GCTCAACTTCACAGCGAAGGGGAAACTGACTGTCAACAAACAACTTTTTAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
29149 AATTTTAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * *
29194 GCTCAACTTCACAACGAATGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
29259 AATTTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * * *
29304 GATCAACTTCACAACGAAGGGGCAATTGATTTTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
29369 AATTTCAACTTTACAGCGAAGGATATTGGACTCGAGATAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
*
29414 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
29479 AATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
* * * * * *
29524 GTTCAACTTCACTA-CGAA-GGGCGTCTGGCTGTCAACAAATAACTTTCCA-CTT--TT-AGAGT
1 GCTCAACTTCAC-AGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
29583 CAATTTGAACTTCAC-GACGAAGGATATTG
65 CAATTTCAACTTCACAG-CGAAGGATATTG
29612 TCCTCGAAAC
Statistics
Matches: 770, Mismatches: 86, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
104 1 0.00
105 29 0.04
106 2 0.00
108 2 0.00
109 27 0.04
110 708 0.92
111 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
Found at i:29981 original size:84 final size:83
Alignment explanation
Indices: 29735--30500 Score: 652
Period size: 84 Copynumber: 9.2 Consensus size: 83
29725 AATCGTGCCC
* * * * * * * *
29735 ACCAAAGGCCTTTGAGTTCGACTACGCTCAGCTCCAGGGTACATCATTTGCAACATAACGTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
29800 CAAGAAGGGTTATCTTCTA
66 CAAGAAGGGTTATC-TGTG
* * * * * * *
29819 ACCGAAGA-CTCTCGAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAGCATAACTCAA
1 ACCAAAGACCT-TCGAGTTCGACTACACTCAAC-TCCAAGGCACATCATTTGCAGCATAACTTAA
* * *
29883 GGCTAGAAGGGTTATTTGTG
64 GTCAAGAAGGGTTATCTGTG
* * * *
29903 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGAATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAG
* **
29968 TCAAGGAGGGTTATCTGCCA
65 TCAAGAAGGGTTATCTG-TG
* * * * * * *
29988 ACCAAAGACCTTCGAGTTCGACTACGCTAAACTCTAAGACACATCATTTGCAGTATAGCTTAAAT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * * *
30053 CGAGAAGAGCTATC--AG
66 CAAGAAGGGTTATCTGTG
* * * * * *
30069 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAA-GGCACATCATTTGCAGCATAACTTAAG
* * *
30133 GCTAGAAGGGTTATATGTG
65 TCAAGAAGGGTTATCTGTG
* *
30152 ACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAG
* * **
30217 TCGAGAAGAGTTATCTGCCA
65 TCAAGAAGGGTTATCTG-TG
* * *
30237 ACCAAAGACCTTCGAATTCAACTACACTCAACTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
30302 CGAGAAGGGCTATC--TG
66 CAAGAAGGGTTATCTGTG
* * * * *** *
30318 -CCAAAGACCCTCGAGTTCGATTACACTCATCTTCAAGGGCACATCATTTATGGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAA-GGCACATCATTTGCAGCATAACTTAAG
* * *
30382 GCTAGAAGGGTTATCTGTC
65 TCAAGAAGGGTTATCTGTG
* * * * * * * * *
30401 AACAAAGACCTTCGAATTTGACTCCACTCAGCTCAAAGGCACCATCATTTGTAGCATAGCTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCA-CATCATTTGCAGCATAACTTAAG
*
30466 ACAAGAAGGGTTATC--TG
65 TCAAGAAGGGTTATCTGTG
*
30483 -CCAAAGACCTTTGAGTTC
1 ACCAAAGACCTTCGAGTTC
30501 AATTCCATTC
Statistics
Matches: 543, Mismatches: 123, Indels: 35
0.77 0.18 0.05
Matches are distributed among these distances:
80 59 0.11
81 79 0.15
82 1 0.00
83 8 0.01
84 300 0.55
85 94 0.17
86 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGT
CAAGAAGGGTTATCTGTG
Found at i:30177 original size:249 final size:249
Alignment explanation
Indices: 29823--30486 Score: 988
Period size: 249 Copynumber: 2.7 Consensus size: 249
29813 CTTCTAACCG
* * *
29823 AAGACTCTCGAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAACTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
29888 GAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
66 GAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
* * * * *
29953 GCAGAATAACTTAAGTCAAGGAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTAA
131 GCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCAACTACACTAA
* *
30018 ACTCTAAGACACATCATTTGCAGTATAGCTTAAATCGAGAAGAGCTATCAGCCA
196 ACTCCAAGACACATCATTTGCAGCATAGCTTAAATCGAGAAGAGCTATCAGCCA
*
30072 AAGACCCTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAACTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTA
*
30137 GAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTT
66 GAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
* * *
30202 GCAGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAATTCAACTACACTCA
131 GCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCAACTACACTAA
* * * *
30267 ACTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA
196 ACTCCAAGACACATCATTTGCAGCATAGCTTAAATCGAGAAGAGCTATCAGCCA
* **
30321 AAGACCCTCGAGTTCGATTACACTCATCTTCAAGGGCACATCATTTATGGCATAACTCAAGGCTA
1 AAGACCCTCGAGTTCGATTACACTCAACTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTA
* * * * * * * * *
30386 GAAGGGTTATCTGTCAAC-AAAGACCTTCGAATTTGACTCCACTCAGCTCAAAGGCACCATCATT
66 GAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-TATCATT
* * * *
30450 TGTAGCATAGCTCAAGACAAGAAGGGTTATCTGCCAA
130 TGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAA
30487 AGACCTTTGA
Statistics
Matches: 375, Mismatches: 39, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
248 32 0.09
249 343 0.91
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (249 bp):
AAGACCCTCGAGTTCGATTACACTCAACTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTA
GAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
GCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAATTCAACTACACTAA
ACTCCAAGACACATCATTTGCAGCATAGCTTAAATCGAGAAGAGCTATCAGCCA
Found at i:30409 original size:333 final size:330
Alignment explanation
Indices: 29748--30480 Score: 751
Period size: 333 Copynumber: 2.2 Consensus size: 330
29738 AAAGGCCTTT
* * * * *
29748 GAGTTCGACTACGCTCAGCTCCAGGGTACATCATTTGCAACATAACGT-AAGTCAAGAAGGGTTA
1 GAGTTCGACTACACTCAGCTCAAGGGCACATCATTTGCAGCATAAC-TCAAGACAAGAAGGGTTA
* * * * *
29812 TCTTCTAACCGAAGACTCTCGAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAGCATA
65 TCATCTAACCAAAGACTCTCGAGTTCGACTACACTCAACTTCCAAGGCATATCATTTACAGCATA
* * * ** * * * *
29877 ACTCAAGGCTAGAAGGGTTATTTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
130 ACTCAAGGCGAGAAGAGTTATCTGCAACCAAAAGACCTTCGAATTCAACTACACTCAACTCCAAG
* * * *
29942 GCATATCATTTGCAGAATAACTTAAGTCAAGGAGGGTTATCTGCCAACCAAAGACCTTCGAGTTC
195 GCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTG---ACCAAAGACCCTCGAGTTC
* * * * * *
30007 GACTACGCTAAACTCTAAGACACATCATTTGCAGTATAGCTTAAATCGAGAAGAGCTATCAGCCA
257 GACTACACTAAACTCTAAGACACATCATTTACAGCATAACTCAAAGCGAGAAGAGCTATCAGCCA
30072 AAGACCCTC
322 AAGACCCTC
* * * *
30081 GAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
1 GAGTTCGACTACACTCAGC-TCAAGGGCACATCATTTGCAGCATAACTCAAGACAAGAAGGGTTA
* * * *
30146 T-ATGTGACCAAAAGAC-CTTCGAGTTCGACTACGCTCAAC-TCCAAGGCATATCATTTGCAGCA
65 TCATCTAACC-AAAGACTC-TCGAGTTCGACTACACTCAACTTCCAAGGCATATCATTTACAGCA
* *
30208 TAACTTAAGTCGAGAAGAGTTATCTGCCAACC-AAAGACCTTCGAATTCAACTACACTCAACTCC
128 TAACTCAAGGCGAGAAGAGTTATCTG-CAACCAAAAGACCTTCGAATTCAACTACACTCAACTCC
* * *
30272 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTC
192 AAGGCACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGACCAAAGACCCTCGAGTTC
* * * * ** * * * * *
30336 GATTACACTCATCT-TCAAGGGCACATCATTTATGGCATAACTCAAGGCTAGAAGGGTTATCTGT
257 GACTACACTAAACTCT-AA-GACACATCATTTACAGCATAACTCAAAGCGAGAAGAGCTATCAG-
*
30400 CAACAAAGACCTTC
319 C--CAAAGACCCTC
* * * * * *
30414 GAATTTGACTCCACTCAGCTCAAAGGCACCATCATTTGTAGCATAGCTCAAGACAAGAAGGGTTA
1 GAGTTCGACTACACTCAGCTCAAGGGCA-CATCATTTGCAGCATAACTCAAGACAAGAAGGGTTA
30479 TC
65 TC
30481 TGCCAAAGAC
Statistics
Matches: 325, Mismatches: 63, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
328 1 0.00
329 29 0.09
330 31 0.10
331 1 0.00
332 8 0.02
333 190 0.58
334 65 0.20
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (330 bp):
GAGTTCGACTACACTCAGCTCAAGGGCACATCATTTGCAGCATAACTCAAGACAAGAAGGGTTAT
CATCTAACCAAAGACTCTCGAGTTCGACTACACTCAACTTCCAAGGCATATCATTTACAGCATAA
CTCAAGGCGAGAAGAGTTATCTGCAACCAAAAGACCTTCGAATTCAACTACACTCAACTCCAAGG
CACATCATTTGCAGAATAACTTAAGTCAAGAAGGGCTATCTGACCAAAGACCCTCGAGTTCGACT
ACACTAAACTCTAAGACACATCATTTACAGCATAACTCAAAGCGAGAAGAGCTATCAGCCAAAGA
CCCTC
Found at i:30487 original size:165 final size:164
Alignment explanation
Indices: 29737--30500 Score: 671
Period size: 165 Copynumber: 4.6 Consensus size: 164
29727 TCGTGCCCAC
* * * * * * * *
29737 CAAAGGCCTTTGAGTTCGACTACGCTCAGCTCCAGGGTACATCATTTGCAACATAACGT-AAGTC
1 CAAAGACCTTCGAATTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAAC-TCAAGTC
* * * * *
29801 AAGAAGGGTTATCTTCTAACCGAAGA-CTCTCGAGTTCGATTACACTCAACTTCGAGGGCATATC
65 AAGAAGGGTTA---TCTGACCAAAGACCT-TCGAGTTCGACTACACTCAACTTC-AAGGCACATC
* * * * *
29865 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTGAC
125 ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAA
* * * * * *
29905 CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGAATAACTTAAGTC
1 C-AAAGACCTTCGAATTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGTC
* * * *
29970 AAGGAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTAAAC-TCTAAGACACATCA
65 AAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACACTCAACTTC-AAGGCACATCA
* * * * ** * *
30034 TTTGCAGTATAGCTTAAATCGAGAAGAGCTATCAG-C--
126 TTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAA
* * * * * *
30070 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAATTCGACTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGTC
* * * * *
30135 TAGAAGGGTTATATGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCAT
65 AAGAAGGG-T-TATCTGACC-AAAGACCTTCGAGTTCGACTACACTCAACTTCAAGGCACATCAT
* * * *
30200 TTGCAGCATAACTTAAGTCGAGAAGAGTTATCTGCCAA
127 TTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAA
* * * * *
30238 CCAAAGACCTTCGAATTCAACTACACTCAACTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 -CAAAGACCTTCGAATTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGTC
* * * * *
30303 GAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTCGATTACACTCATCTTCAAGGGCACATCATTT
65 AAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACACTCAACTTCAA-GGCACATCATTT
** * *
30367 ATGGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA
129 ACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAA
* * * * *
30403 CAAAGACCTTCGAATTTGACTCCACTCAGCTCAAAGGCACCATCATTTGTAGCATAGCTCAAGAC
1 CAAAGACCTTCGAATTCGACTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAACTCAAGTC
*
30468 AAGAAGGGTTATCTG-CCAAAGACCTTTGAGTTC
65 AAGAAGGGTTATCTGACCAAAGACCTTCGAGTTC
30501 AATTCCATTC
Statistics
Matches: 488, Mismatches: 91, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
164 92 0.19
165 193 0.40
166 11 0.02
167 5 0.01
168 71 0.15
169 114 0.23
170 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (164 bp):
CAAAGACCTTCGAATTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGTCA
AGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACACTCAACTTCAAGGCACATCATTTAC
AGCATAACTCAAGGCGAGAAGAGTTATCTGTCAA
Found at i:31371 original size:4 final size:4
Alignment explanation
Indices: 31356--31390 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
31346 TTTACATTGT
* *
31356 TTTA TATA TTTA TTTA TTTA TTTA TTTA TTCA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
31391 TTATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:34175 original size:31 final size:31
Alignment explanation
Indices: 34137--34198 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
34127 TTTGGCTCTA
34137 TAGGAAAGGTTACTCGAATTGTCCTTGATGT
1 TAGGAAAGGTTACTCGAATTGTCCTTGATGT
34168 TAGGAAAGGTTACTCGAATTGTCCTTGATGT
1 TAGGAAAGGTTACTCGAATTGTCCTTGATGT
34199 CGGTACCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (31 bp):
TAGGAAAGGTTACTCGAATTGTCCTTGATGT
Found at i:38903 original size:21 final size:20
Alignment explanation
Indices: 38876--38973 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
38866 AATCAGTGTC
38876 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
38897 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
38917 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
38937 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
38958 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
38974 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:38926 original size:41 final size:41
Alignment explanation
Indices: 38817--38973 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
38807 AAATGACCAA
* **
38817 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
38856 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
38897 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
38938 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
38974 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:38983 original size:20 final size:20
Alignment explanation
Indices: 38960--39130 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
38950 GCGAATATGA
38960 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
38980 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
39000 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
39020 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
39040 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
39060 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
39080 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
39100 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
39120 AAATCGCAACG
1 AAATCGCAACG
39131 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:39025 original size:60 final size:58
Alignment explanation
Indices: 38940--39149 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
38930 CGATTTTCCA
* ** * *
38940 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
39000 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
39060 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
39120 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
39150 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:39131 original size:20 final size:20
Alignment explanation
Indices: 38994--39149 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
38984 CGCAATGCGT
*
38994 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
39014 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
39034 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
39054 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
39074 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
39094 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
39114 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
39134 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
39150 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:39131 original size:40 final size:40
Alignment explanation
Indices: 38960--39149 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
38950 GCGAATATGA
* *
38960 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
39000 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
39040 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
39080 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
39120 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
39150 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:39861 original size:23 final size:23
Alignment explanation
Indices: 39832--39876 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39822 AATTTGGTCT
39832 TGGTCAATATC-CGGACTTTGATA
1 TGGTCAATA-CACGGACTTTGATA
*
39855 TGGTCAATACACGGATTTTGAT
1 TGGTCAATACACGGACTTTGAT
39877 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (23 bp):
TGGTCAATACACGGACTTTGATA
Found at i:40067 original size:12 final size:12
Alignment explanation
Indices: 40050--40074 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40040 ATATAATCCT
40050 GAAGAAGAAAAA
1 GAAGAAGAAAAA
40062 GAAGAAGAAAAA
1 GAAGAAGAAAAA
40074 G
1 G
40075 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:42378 original size:19 final size:19
Alignment explanation
Indices: 42356--42695 Score: 380
Period size: 19 Copynumber: 19.4 Consensus size: 19
42346 CGGAAATTAC
*
42356 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
42375 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
42389 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
42409 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
42423 AATAGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42442 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
42461 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
42475 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42494 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
42513 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
42527 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42546 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
42565 AATCGCAA--C---ATCAG
1 AATCGCAATGCGAAATGAA
42579 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
42598 ACTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42617 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42636 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
42650 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42669 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
42688 AATCGCAA
1 AATCGCAA
42696 CGAGAGAATC
Statistics
Matches: 274, Mismatches: 16, Indels: 62
0.78 0.05 0.18
Matches are distributed among these distances:
14 58 0.21
15 2 0.01
16 17 0.06
17 16 0.06
18 3 0.01
19 165 0.60
20 13 0.05
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:42471 original size:52 final size:52
Alignment explanation
Indices: 42384--42676 Score: 436
Period size: 52 Copynumber: 5.6 Consensus size: 52
42374 AAATCCCAAC
*
42384 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATAGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
42437 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
42489 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
42541 ATGAAAATCGCAATGCGAAATGAAAATCGCAAC-ATCAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAA
* *
42593 ATGAAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
42648 A-G--AATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
42677 TGCGAAATGA
Statistics
Matches: 228, Mismatches: 6, Indels: 13
0.92 0.02 0.05
Matches are distributed among these distances:
51 1 0.00
52 193 0.85
53 16 0.07
54 2 0.01
55 5 0.02
57 11 0.05
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:42511 original size:71 final size:72
Alignment explanation
Indices: 42384--42695 Score: 311
Period size: 71 Copynumber: 4.4 Consensus size: 72
42374 AAATCCCAAC
* *
42384 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATAGCAATGCGAAATGAAAA
1 ATGAAAATCGCAA-GC-G-AATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAATGAAAA
42444 TCGCAATGCGAA
61 TCGCAATGCGAA
*
42456 ATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAATGAAAATCG
*
42518 CAA--CGAC
64 CAATGCGAA
* *
42525 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC---ATCAGAATCG
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAATGAAAATCG
42584 CAATGCGAA
64 CAATGCGAA
*
42593 ATGAAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAA-G--AATCG
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAATGAAAATCG
42655 CAATGCGAA
64 CAATGCGAA
42664 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAA
42696 CGAGAGAATC
Statistics
Matches: 211, Mismatches: 11, Indels: 37
0.81 0.04 0.14
Matches are distributed among these distances:
66 29 0.14
67 1 0.00
68 9 0.04
69 7 0.03
70 3 0.01
71 148 0.70
72 13 0.06
74 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (72 bp):
ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAATGAAAATCGCA
ATGCGAA
Found at i:42677 original size:52 final size:51
Alignment explanation
Indices: 42356--42717 Score: 292
Period size: 52 Copynumber: 6.9 Consensus size: 51
42346 CGGAAATTAC
*
42356 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA-AATCGCAATGCGGAAATGAA
1 AATCGCAA-GCGAAATGAAAATCGCAACGA--AAGAATCGCAATGC-GAAATGAA
* *
42409 AATCGCAA-CG--A-GAGAATAGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
*
42461 AATCGCAA-CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
*
42513 AATCGCAA-CGACA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
* *
42565 AATCGCAA-C---ATCAGAATCGCAATGCGAAATGAAACTCGCAATGCGAAATGAA
1 AATCGCAAGCGAAATGAAAATCGCAA--CGAAA-G-AA-TCGCAATGCGAAATGAA
42617 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
*
42669 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAA-GCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
42718 TATAAACGCA
Statistics
Matches: 283, Mismatches: 8, Indels: 37
0.86 0.02 0.11
Matches are distributed among these distances:
48 8 0.03
49 4 0.01
50 1 0.00
51 6 0.02
52 223 0.79
53 21 0.07
54 4 0.01
55 5 0.02
57 11 0.04
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (51 bp):
AATCGCAAGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
Found at i:42696 original size:123 final size:123
Alignment explanation
Indices: 42442--42676 Score: 132
Period size: 123 Copynumber: 2.0 Consensus size: 123
42432 GCGAAATGAA
* *
42442 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
42502 TGCGAAATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATGAAAATCGCAATG-C-G
66 --CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
* * *
42558 AAAT-GAAAAT-CGCAACATCAGAA-TCGCAATGCGAAATGAAACTCGCAATGCGAAATGAAAAT
1 -AATCG-CAATGCG-AA-ATGA-AACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
42620 CGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAA
61 CGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
42677 TGCGAAATGA
Statistics
Matches: 104, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
116 3 0.03
117 8 0.08
118 9 0.09
119 2 0.02
120 2 0.02
122 1 0.01
123 79 0.76
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (123 bp):
AATCGCAATGCGAAATGAAACTCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
CGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
Found at i:42733 original size:123 final size:123
Alignment explanation
Indices: 42478--42717 Score: 437
Period size: 123 Copynumber: 2.0 Consensus size: 123
42468 ACGAGAGAAT
*
42478 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAAT
1 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
*
42543 GAAAATCGCAATGCGAAATGAAAATCGCAACATCAGAATCGCAATGCGAAATGAAACT
66 GAAAATCGCAATGCGAAATGAAAATCGCAACATCAGAATCGCAATGCGAAATGAAACA
42601 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
1 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
*
42666 GAAAATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAAAT
66 GAAAATCGCAATGCGAAATGAAAATCGCAAC-ATCAGAATCGCAATGCGAAAT
42718 TATAAACGCA
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
123 113 0.99
124 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (123 bp):
CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
GAAAATCGCAATGCGAAATGAAAATCGCAACATCAGAATCGCAATGCGAAATGAAACA
Found at i:42833 original size:19 final size:19
Alignment explanation
Indices: 42724--42825 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
42714 AAATTATAAA
42724 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
42743 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
42763 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
42779 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
42796 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
42815 CGCATTGCGAT
1 CGCATTGCGAT
42826 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:42951 original size:14 final size:14
Alignment explanation
Indices: 42932--42968 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
42922 CATCAATTAC
42932 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
42946 ACAAATCATCTTTT
1 ACAAATCAACTTTT
42960 ACAAATCAA
1 ACAAATCAA
42969 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:44964 original size:14 final size:14
Alignment explanation
Indices: 44945--45001 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
44935 GCGAAATGAA
*
44945 AATCGCAACGACAG
1 AATCGCAACGAAAG
44959 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
44976 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
44992 AATCGCAACG
1 AATCGCAACG
45002 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:44972 original size:33 final size:33
Alignment explanation
Indices: 44926--45018 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
44916 GCGAAACCAA
*
44926 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
44959 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
44992 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
45019 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:44983 original size:19 final size:19
Alignment explanation
Indices: 44889--45023 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
44879 TAGTTTACTT
* *
44889 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
44909 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
44928 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
44947 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
44961 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
44980 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
44994 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
45013 TCGCAATGCGA
1 TCGCAACGCGA
45024 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:45041 original size:19 final size:18
Alignment explanation
Indices: 45019--45112 Score: 78
Period size: 19 Copynumber: 5.5 Consensus size: 18
45009 AAAATCGCAA
45019 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
45038 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
45052 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
45066 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
45085 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
45104 TGCGATTTT
1 TGCGATTTT
45113 AACTTTCGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
14 23 0.37
16 1 0.02
17 1 0.02
18 1 0.02
19 37 0.59
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:45054 original size:14 final size:14
Alignment explanation
Indices: 45035--45072 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
45025 TTTGGTTTCG
45035 CGTTGCGA-TCTTGT
1 CGTTGCGATTC-TGT
45049 CGTTGCGATTCTGT
1 CGTTGCGATTCTGT
45063 CGTTGCGATT
1 CGTTGCGATT
45073 TTCATTTCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.08, C:0.21, G:0.29, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTGT
Found at i:45125 original size:20 final size:18
Alignment explanation
Indices: 45063--45128 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 18
45053 GCGATTCTGT
45063 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-ATTTCG
*
45082 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
45101 CGTTGCGATTTTAACTTTCG
1 CGTTGCGATTTT-A-TTTCG
*
45121 TGTTGCGA
1 CGTTGCGA
45129 AAGTAAACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.11, C:0.18, G:0.26, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTTATTTCG
Found at i:45417 original size:93 final size:93
Alignment explanation
Indices: 45176--45643 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
45166 ATGGATTGCA
*
45176 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
45240 TAGCAGAATTGGCAGCAA-CGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
45267 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
45332 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
45360 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
45425 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
45453 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
45518 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
45546 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
45611 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
45639 TTACT
1 TTACT
45644 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
91 4 0.01
92 77 0.21
93 292 0.78
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:47367 original size:14 final size:14
Alignment explanation
Indices: 47348--47437 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
47338 TTGAAATGAA
47348 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
47362 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
47381 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
47395 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
47414 AATCGCAACGAGAG
1 AATCGCAACGAGAG
47428 AATCGCAACG
1 AATCGCAACG
47438 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:47385 original size:33 final size:33
Alignment explanation
Indices: 47340--47454 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
47330 TCTTTTGGTT
47340 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
47373 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
47406 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
47439 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
47455 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:47386 original size:19 final size:19
Alignment explanation
Indices: 47362--47459 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
47352 GCAACGAGAG
*
47362 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
47381 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
47395 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
47414 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
47428 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
47447 AATCGCAATGCGA
1 AATCGCAACGCGA
47460 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:47490 original size:14 final size:14
Alignment explanation
Indices: 47471--47527 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
47461 TTTGGTTTCG
47471 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
47485 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
47504 CGTTGCGATTATCT
1 CGTTGCGATTCTCT
47518 CGTTGCGATT
1 CGTTGCGATT
47528 GTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 2 0.06
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:47509 original size:19 final size:19
Alignment explanation
Indices: 47485--47573 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
47475 GCGATTCTCT
47485 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
47504 CGTTGCGA--TT-A--TCT
1 CGTTGCGATTTTCATTTCG
*
47518 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
47537 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
47557 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
47574 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:47572 original size:39 final size:33
Alignment explanation
Indices: 47455--47573 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
47445 AAAATCGCAA
**
47455 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
47488 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
47521 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
47560 TGCGATTTTCATTT
1 TGCGATTTTCATTT
47574 ATCTCGTTGC
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
33 49 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 22 0.30
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:47707 original size:33 final size:33
Alignment explanation
Indices: 47665--47735 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
47655 AATACTAACT
47665 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
47698 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
47731 TGAAA
1 TGAAA
47736 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:47967 original size:22 final size:22
Alignment explanation
Indices: 47915--47969 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
47905 TGGTTATGAG
**
47915 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
47937 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
47959 GGATTTCTTCG
1 GGATTTCTTCG
47970 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:48141 original size:20 final size:20
Alignment explanation
Indices: 48116--48309 Score: 194
Period size: 20 Copynumber: 9.7 Consensus size: 20
48106 CTTTAAATAT
48116 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
48136 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
48158 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
48177 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
48197 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
*
48217 CGCGTTACGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
48237 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
48257 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
48277 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
48297 CGCGTTGCGATTT
1 CGCGTTGCGATTT
48310 TGGAAAATCG
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
19 2 0.01
20 122 0.87
21 15 0.11
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:48303 original size:60 final size:60
Alignment explanation
Indices: 48116--48309 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 60
48106 CTTTAAATAT
* ** *
48116 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACAGATA
* *** * * *
48177 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTACGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
* * * * *
48237 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
48297 CGCGTTGCGATTT
1 CGCGTTGCGATTT
48310 TGGAAAATCG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 82 0.75
61 28 0.25
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
Found at i:48326 original size:21 final size:20
Alignment explanation
Indices: 48276--48373 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
48266 ATTTATGTGT
* * * *
48276 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
48296 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
48317 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
48337 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
48358 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
48374 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:48368 original size:41 final size:41
Alignment explanation
Indices: 48276--48373 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
48266 ATTTATGTGT
* * *
48276 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
48317 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
48358 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
48374 GAAACTGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 42 0.91
42 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:50931 original size:7 final size:7
Alignment explanation
Indices: 50919--50943 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50909 CAAACTATAC
50919 ATATAAT
1 ATATAAT
50926 ATATAAT
1 ATATAAT
50933 ATATAAT
1 ATATAAT
50940 ATAT
1 ATAT
50944 CTGTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:52665 original size:12 final size:12
Alignment explanation
Indices: 52645--52674 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52635 GCTTGTAAGC
*
52645 ATTAATCATGAT
1 ATTATTCATGAT
52657 ATTATTCATGAT
1 ATTATTCATGAT
52669 ATTATT
1 ATTATT
52675 GCTATGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (12 bp):
ATTATTCATGAT
Found at i:52957 original size:45 final size:45
Alignment explanation
Indices: 52900--53011 Score: 188
Period size: 45 Copynumber: 2.5 Consensus size: 45
52890 TTGTCGTCAT
*
52900 AAGTAAATTCAAAGGATTAGTTTCTTTTCATTATTGTGTTGCCAA
1 AAGTAAAATCAAAGGATTAGTTTCTTTTCATTATTGTGTTGCCAA
* *
52945 AAGTAAAATCAAAGTATTAGTTTCTTTTGATTATTGTGTTGCCAA
1 AAGTAAAATCAAAGGATTAGTTTCTTTTCATTATTGTGTTGCCAA
*
52990 AAGTAAAATCAAACGATTAGTT
1 AAGTAAAATCAAAGGATTAGTT
53012 CCTATCGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (45 bp):
AAGTAAAATCAAAGGATTAGTTTCTTTTCATTATTGTGTTGCCAA
Found at i:53022 original size:45 final size:44
Alignment explanation
Indices: 52900--53025 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 44
52890 TTGTCGTCAT
* *
52900 AAGTAAATTCAAAGGATTAGTTTCTTTTC-ATTATTGTGTTGCCAA
1 AAGTAAAATCAAA-GATTAG-TTCCTTTCGATTATTGTGTTGCCAA
* *
52945 AAGTAAAATCAAAGTATTAGTTTCTTTTGATTATTGTGTTGCCAA
1 AAGTAAAATCAAAG-ATTAGTTCCTTTCGATTATTGTGTTGCCAA
*
52990 AAGTAAAATCAAACGATTAGTTCCTATCGATTATTG
1 AAGTAAAATCAAA-GATTAGTTCCTTTCGATTATTG
53026 GATTATGAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 6 0.08
45 64 0.90
46 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (44 bp):
AAGTAAAATCAAAGATTAGTTCCTTTCGATTATTGTGTTGCCAA
Found at i:53083 original size:46 final size:45
Alignment explanation
Indices: 52875--53088 Score: 130
Period size: 45 Copynumber: 4.7 Consensus size: 45
52865 TATTCCAAGG
* * * * **
52875 CTTTTGATTATTGGGTTGTCGTCATAAGTAAATTCAAAGGATTAGTTT
1 CTTTTGATTATTGGGATG-C--CAAAAGTAAAATCAACGGATTAAATT
* * * * * **
52923 CTTTTCATTATTGTGTTGCCAAAAGTAAAATCAAAGTATTAGTTT
1 CTTTTGATTATTGGGATGCCAAAAGTAAAATCAACGGATTAAATT
* * *
52968 CTTTTGATTATTGTGTTGCCAAAAGTAAAATCAAAC-GATT-AGTT
1 CTTTTGATTATTGGGATGCCAAAAGTAAAATC-AACGGATTAAATT
* * * *
53012 CCTATCGATTATTGGATTATG--AAAATTAAAATCAACGGATTAAATT
1 -CTTTTGATTATTGG--GATGCCAAAAGTAAAATCAACGGATTAAATT
* *
53058 CATTTTGATTATTGGGATGCTAAAATTAAAA
1 C-TTTTGATTATTGGGATGCCAAAAGTAAAA
53089 GATTAATTCC
Statistics
Matches: 137, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
44 8 0.06
45 84 0.61
46 26 0.19
47 3 0.02
48 16 0.12
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (45 bp):
CTTTTGATTATTGGGATGCCAAAAGTAAAATCAACGGATTAAATT
Found at i:53327 original size:66 final size:58
Alignment explanation
Indices: 53264--53485 Score: 327
Period size: 58 Copynumber: 3.8 Consensus size: 58
53254 CTTTGTAAGG
* * * *
53264 TTGTAAGTAAAATAGATTGTTGAATTTATTTTCTTGAAAATATTAAATGATTCTAACT
1 TTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATATTAAATGATTCTAACT
* * * *
53322 TTGTAAGGAAAATATATTGTTGAATATATTTCCTTGAGAATCTTAAATGATTATAACT
1 TTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATATTAAATGATTCTAACT
* *
53380 TTCTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATATTAAATAATTCTAACT
1 TTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATATTAAATGATTCTAACT
* * *
53438 TTGTAAGAAAAATAAATTGTTGAATTTATTTTCTTGAGAATCTTAAAT
1 TTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATATTAAAT
53486 TTTGTAAGGA
Statistics
Matches: 147, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 147 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (58 bp):
TTGTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATATTAAATGATTCTAACT
Found at i:53598 original size:57 final size:58
Alignment explanation
Indices: 53537--53666 Score: 145
Period size: 58 Copynumber: 2.3 Consensus size: 58
53527 ATCTATCATT
** * *
53537 TAAAAAGAAATAGTTTGTTAAATTT-GTTTCTTGAAAATCTTAAATGATTCTATTTTG
1 TAAAAAGAAATAAATTGTTAAATTTAGTTTCTTGAAAATCTTAAACGATTCTAGTTTG
*** * ** *
53594 TAAAATTTAATAAATTGTTAAATTTATTTTCTTGTGAATCTTATACGATTCTAGTTTG
1 TAAAAAGAAATAAATTGTTAAATTTAGTTTCTTGAAAATCTTAAACGATTCTAGTTTG
*
53652 TAAAAGGAAATAAAT
1 TAAAAAGAAATAAAT
53667 AGTAGGATTT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
57 20 0.34
58 38 0.66
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (58 bp):
TAAAAAGAAATAAATTGTTAAATTTAGTTTCTTGAAAATCTTAAACGATTCTAGTTTG
Found at i:53713 original size:96 final size:96
Alignment explanation
Indices: 53584--53815 Score: 254
Period size: 96 Copynumber: 2.4 Consensus size: 96
53574 TCTTAAATGA
* * * * **
53584 TTCTATTTTGTAAAATTTAATAAATTGTTAAATTTATTTTCTTGTGAATCTTATACGATTCT-AG
1 TTCTATTTTGTAAAAATAAATAAATCGTTAAATTTATTTTCCTAAGAATCTTATACGATTCTGA-
* * * * *
53648 TTTGTAAAAGGAAATAAATAGTAGGATTTATT
65 TATGAAAAAGAAAATAAATAGAAGAATTTATT
* *
53680 TAT-TGTTTTGTAAAAATAAATAAATCGTTAAATTTATTTTCCTAAGAATCTTATATGATTCTGA
1 T-TCTATTTTGTAAAAATAAATAAATCGTTAAATTTATTTTCCTAAGAATCTTATACGATTCTGA
* *
53744 TATGAAAAAGAAAATAAATCGAATAATTTATT
65 TATGAAAAAGAAAATAAATAGAAGAATTTATT
* * *
53776 TTCCTATTTTGTAAAAAGAAATAAATCATTGAATTT-TTTT
1 TT-CTATTTTGTAAAAATAAATAAATCGTTAAATTTATTTT
53816 GGTTCTTGTT
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
95 1 0.01
96 82 0.73
97 30 0.27
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.44
Consensus pattern (96 bp):
TTCTATTTTGTAAAAATAAATAAATCGTTAAATTTATTTTCCTAAGAATCTTATACGATTCTGAT
ATGAAAAAGAAAATAAATAGAAGAATTTATT
Found at i:56951 original size:17 final size:16
Alignment explanation
Indices: 56924--56958 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
56914 GGAAAATGTG
56924 AAGGAATGAAGACAAT
1 AAGGAATGAAGACAAT
*
56940 AAGGAGATGAAGAGAAT
1 AAGGA-ATGAAGACAAT
56957 AA
1 AA
56959 AAAGCCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.57, C:0.03, G:0.29, T:0.11
Consensus pattern (16 bp):
AAGGAATGAAGACAAT
Found at i:60919 original size:32 final size:32
Alignment explanation
Indices: 60876--60951 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
60866 AACTTCTACT
* *
60876 CATTATGTAAATGCGACACTAACACTCTTGTG
1 CATTATCTAAATGCGAAACTAACACTCTTGTG
* * * *
60908 CATTATCTAAATGTGAAACTTACTCTGTTGTG
1 CATTATCTAAATGCGAAACTAACACTCTTGTG
60940 CATTATCTAAAT
1 CATTATCTAAAT
60952 ACAACACTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (32 bp):
CATTATCTAAATGCGAAACTAACACTCTTGTG
Found at i:64717 original size:29 final size:29
Alignment explanation
Indices: 64668--64728 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
64658 AGTCCATTAT
*
64668 TCTTTTACTCAATAATGTTTAACCGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
* **
64697 TCTTTTACTCAACAATTTTTAATTGTTCA
1 TCTTTTACTCAACAATGTTTAACCGTTCA
64726 TCT
1 TCT
64729 AACTAACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (29 bp):
TCTTTTACTCAACAATGTTTAACCGTTCA
Found at i:64978 original size:68 final size:68
Alignment explanation
Indices: 64803--65055 Score: 345
Period size: 68 Copynumber: 3.8 Consensus size: 68
64793 TCTTTAACCG
* * * *
64803 TTCATCTAACTGGCATAATTGACGCCTTCCTG-CTAAATGCACAGTTA-G--TCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTC-AAATGCACAGTTAGGCCTAAAAGGCACTTA
64864 GCCT
65 GCCT
* *
64868 TTCATCTAACT-GCATAAATGACACATTTCTGTCAAATACACAGTTAGGCCTAAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTAAAAGGCACTTAG
64932 CCT
66 CCT
** * * *
64935 TTCATCTAACTGATATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCATTTAA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTAAAAGGCACTTAG
65000 CCT
66 CCT
* *
65003 TTTATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGACCTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTA
65056 TTAATCTTTT
Statistics
Matches: 165, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
64 28 0.17
65 13 0.08
67 27 0.16
68 97 0.59
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTAAAAGGCACTTAG
CCT
Found at i:65046 original size:136 final size:132
Alignment explanation
Indices: 64803--65055 Score: 355
Period size: 132 Copynumber: 1.9 Consensus size: 132
64793 TCTTTAACCG
* * * *
64803 TTCATCTAACTGGCATAATTGACGCCTTCCTGCTAAATGCACAGTTAGTCAAAGGCACTTAGCCT
1 TTCATCTAACTGACATAAATGACACCTTCCTGCTAAATGCACAGTTAGTCAAAGGCACTTAACCT
*
64868 TTCATCTAACTGCATAAATGACACATTTCTGTCAAATACACAGTTAGGCCTAAAAGGCACTTAGC
66 TTCATCTAACTGCATAAATGACACATTTCTGTCAAATACACAGTTAGACCTAAAAGGCACTTAGC
64933 CT
131 CT
* * *
64935 TTCATCTAACTGATATAAATGACACCTTTCTG-TCAAATGCACAGTTAGGCCTCAAAGGCATTTA
1 TTCATCTAACTGACATAAATGACACCTTCCTGCT-AAATGCACAGTTA-G--TCAAAGGCACTTA
* * *
64999 ACCTTTTATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGACCTA
62 ACCTTTCATCTAACT-GCATAAATGACACATTTCTGTCAAATACACAGTTAGACCTA
65056 TTAATCTTTT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
131 1 0.01
132 40 0.38
133 1 0.01
135 25 0.24
136 38 0.36
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (132 bp):
TTCATCTAACTGACATAAATGACACCTTCCTGCTAAATGCACAGTTAGTCAAAGGCACTTAACCT
TTCATCTAACTGCATAAATGACACATTTCTGTCAAATACACAGTTAGACCTAAAAGGCACTTAGC
CT
Found at i:65757 original size:59 final size:59
Alignment explanation
Indices: 65274--65738 Score: 752
Period size: 59 Copynumber: 7.9 Consensus size: 59
65264 TTTCCCATAT
* ** * *
65274 GGAAATTCATACACTTAGTATGAGTTTCTT-ATGTTTTTGCACATAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
**
65332 GGAAATTCATACTTTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
65391 GGAAATTCATACACTTAGTATGAGTTTCTTAACATTTTAGCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
65450 GGAAATTCATACACTTAGTATGAGTTTCTTAACATTTTAGCACACAAAGTGCCCAATAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
65509 GAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
65568 AGAAACTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCCATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* * *
65627 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTTCCCCATGC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
*
65686 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAGGTGCC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCC
65739 ATTTGGTAAT
Statistics
Matches: 382, Mismatches: 24, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
58 27 0.07
59 355 0.93
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
Found at i:66218 original size:22 final size:22
Alignment explanation
Indices: 66153--66248 Score: 101
Period size: 22 Copynumber: 4.5 Consensus size: 22
66143 CGATGTTACC
* *
66153 TGGTATCGATAC--CCTTACCA
1 TGGTATCGATACTACCATACTA
* * *
66173 TGGTATAGATAC--CCTTACCA
1 TGGTATCGATACTACCATACTA
*
66193 TGGTATTGATACTACCATACTA
1 TGGTATCGATACTACCATACTA
66215 TGGTATCGATACTACCATACTA
1 TGGTATCGATACTACCATACTA
*
66237 TGGTACCGATAC
1 TGGTATCGATAC
66249 CCCCTTCCGG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 30 0.44
22 38 0.56
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (22 bp):
TGGTATCGATACTACCATACTA
Found at i:66226 original size:42 final size:39
Alignment explanation
Indices: 66148--66226 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 39
66138 AGGTTCGATG
*
66148 TTACCTGGTATCGATACCCTTACCATGGTATAGATACCC
1 TTACCTGGTATCGATACCCATACCATGGTATAGATACCC
* * *
66187 TTACCATGGTATTGATACTACCATACTATGGTATCGATAC
1 TTACC-TGGTATCGATAC--CCATACCATGGTATAGATAC
66227 TACCATACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.15
40 11 0.33
42 17 0.52
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (39 bp):
TTACCTGGTATCGATACCCATACCATGGTATAGATACCC
Found at i:70325 original size:5 final size:5
Alignment explanation
Indices: 70302--70339 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
70292 TGTTTTTGTT
70302 CCCCAA CCCCA CTCCCA CCCCA CCCCA CCCCA CCCCA C
1 CCCC-A CCCCA C-CCCA CCCCA CCCCA CCCCA CCCCA C
70340 GTTGATTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.21, C:0.76, G:0.00, T:0.03
Consensus pattern (5 bp):
CCCCA
Done.