Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 10 of 35
Found at i:1399850 original size:78 final size:77
Alignment explanation
Indices: 1399744--1400027 Score: 275
Period size: 79 Copynumber: 3.6 Consensus size: 77
1399734 TTTTCAAGAG
* * ** *
1399744 GATACTCTAACCTCGTTATTTGC-AAGGGGATACTTTAACCCTGGTTTTATTTTCAAAACATTGA
1 GATACTC-AACCCCATTATTT-CTAAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTGA
1399808 TTTTCCACAATCGA
64 TTTTCCACAATCGA
* * *
1399822 GATACATCAACCCTATTATTTCTAAGGGGATACTCCAACCTTGGTTTTATTTCCAAAACACTGAT
1 GATAC-TCAACCCCATTATTTCTAAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTGAT
* * * *
1399887 TTTTCATAATTGGG
65 TTTCCACAA-TCGA
* * * * **
1399901 GATACTCAAACCCCGTTATTTTTAAGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCAA
1 GATACTC-AACCCCATTATTTCTAAGGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACTGA
* *
1399965 TTTTCTACCATCGAA
64 TTTTCCACAATCG-A
* * *
1399980 GATACTTCAACCCCATTATTTTTGAGGGGATACTCCAACCCTAGTTTT
1 GATAC-TCAACCCCATTATTTCTAAGGGGATACTCCAACCCTGGTTTT
1400028 GAGAGGATAC
Statistics
Matches: 167, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
77 1 0.01
78 66 0.40
79 98 0.59
80 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (77 bp):
GATACTCAACCCCATTATTTCTAAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTGATT
TTCCACAATCGA
Found at i:1400020 original size:28 final size:26
Alignment explanation
Indices: 1399980--1400044 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
1399970 TACCATCGAA
* * *
1399980 GATACTTCAACCCCATTATTTTTGAGGG
1 GATACTCCAACCCC--TAGTTTTGAGAG
1400008 GATACTCCAA-CCCTAGTTTTGAGAG
1 GATACTCCAACCCCTAGTTTTGAGAG
*
1400033 GATACTCTAACC
1 GATACTCCAACC
1400045 TTAGTTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 19 0.59
26 1 0.03
27 3 0.09
28 9 0.28
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (26 bp):
GATACTCCAACCCCTAGTTTTGAGAG
Found at i:1400035 original size:25 final size:25
Alignment explanation
Indices: 1399999--1400051 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
1399989 ACCCCATTAT
*
1399999 TTTTGAGGGGATACTCCAACCCTAG
1 TTTTGAGAGGATACTCCAACCCTAG
* *
1400024 TTTTGAGAGGATACTCTAACCTTAG
1 TTTTGAGAGGATACTCCAACCCTAG
1400049 TTT
1 TTT
1400052 CTACCATCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (25 bp):
TTTTGAGAGGATACTCCAACCCTAG
Found at i:1400091 original size:176 final size:175
Alignment explanation
Indices: 1399884--1400202 Score: 476
Period size: 176 Copynumber: 1.8 Consensus size: 175
1399874 CCAAAACACT
* * * *
1399884 GATTTTTCATAATTGGGGATACTCAAACCCCGTTATTTTTAAGGGGATACTCCAACCCCGATTTT
1 GATTTTTCACAATCGGGGATACTCAAACCCCGTTATTTTTAAGAGGATACTCCAACCCCAATTTT
* * *
1399949 ATTTCTAAAACACCAATTTTCTACCATCGAAGATACTTCAACCCCATTATTTTTGAGGGGATACT
66 ATTTCTAAAACACCAATTTTCTACAATCG-AGATACTCCAACCCCATTATTTTTGAGAGGATACT
*
1400014 CCAACCCTAGTTTTGAGAGGATACTCTAACCTTAGTTTCTACCATC
130 CCAACCCCAGTTTTGAGAGGATACTCTAACCTTAGTTTCTACCATC
* * *
1400060 GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCGACCCCAATTTT
1 GATTTTTCACAATCGGGGATACTCAAACCCCGTTATTTTTAAGAGGATACTCCAACCCCAATTTT
*** * * *
1400125 ATTTCTAAAACATTGATTTTTTATAATCGAGATACTCCAACCCCGTTATTTTTGAGAGGATACTC
66 ATTTCTAAAACACCAATTTTCTACAATCGAGATACTCCAACCCCATTATTTTTGAGAGGATACTC
1400190 CAACCCCAGTTTT
131 CAACCCCAGTTTT
1400203 ACTTCTAAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
175 45 0.36
176 81 0.64
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (175 bp):
GATTTTTCACAATCGGGGATACTCAAACCCCGTTATTTTTAAGAGGATACTCCAACCCCAATTTT
ATTTCTAAAACACCAATTTTCTACAATCGAGATACTCCAACCCCATTATTTTTGAGAGGATACTC
CAACCCCAGTTTTGAGAGGATACTCTAACCTTAGTTTCTACCATC
Found at i:1400170 original size:78 final size:79
Alignment explanation
Indices: 1400061--1400291 Score: 288
Period size: 78 Copynumber: 2.9 Consensus size: 79
1400051 TCTACCATCG
* * * *
1400061 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCGACCCCAATTTTA
1 ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
* *
1400126 TTTCTAAAACATTG
66 TTTCTAAAACACTA
** *
1400140 ATTTTTTATAATC-GAGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
1 ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
* *
1400204 CTTCTAAAATACTA
66 TTTCTAAAACACTA
* * * *
1400218 ATTTTCCACCATCGGGGATACTCCAACCTCATTATTTTTGA-AGGGATACTCCAACCCCAGTTTT
1 ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGA-GGATACTCCAACCCCAGTTTT
1400282 ACTTT-TAAAA
65 A-TTTCTAAAA
1400292 TATCTAGTTT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 68 0.52
79 62 0.47
80 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
TTTCTAAAACACTA
Found at i:1400268 original size:79 final size:79
Alignment explanation
Indices: 1400061--1400318 Score: 324
Period size: 79 Copynumber: 3.3 Consensus size: 79
1400051 TCTACCATCG
* *
1400061 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCGACCCCAATTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
* * * *
1400126 TTTCTAAAACATTG
66 CTTCTAAAATACTA
* * *
1400140 ATTTTTTATAATC-GAGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
1400204 CTTCTAAAATACTA
66 CTTCTAAAATACTA
* * * *
1400218 ATTTTCCACCATCGGGGATACTCCAACCTCATTATTTTTGA-AGGGATACTCCAACCCCAGTTTT
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGA-GGATACTCCAACCCCAGTTTT
*
1400282 ACTTTTAAAATATCT-
65 ACTTCTAAAATA-CTA
* * *
1400297 AGTTTTCACCATTGGGGATACT
1 ATTTTTCACAATCGGGGATACT
1400319 TTAACCCTAT
Statistics
Matches: 156, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
78 68 0.44
79 86 0.55
80 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCAGTTTTA
CTTCTAAAATACTA
Found at i:1400397 original size:26 final size:26
Alignment explanation
Indices: 1400367--1400428 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
1400357 CCGAGAGATG
* *
1400367 TACTCTAACCTCGTACCCCGAGGGAA
1 TACTCTAACCTCATACACCGAGGGAA
*
1400393 TACTCTAACCTTATACACCGAGGGAA
1 TACTCTAACCTCATACACCGAGGGAA
1400419 TACTCTAACC
1 TACTCTAACC
1400429 CTGTTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.23
Consensus pattern (26 bp):
TACTCTAACCTCATACACCGAGGGAA
Found at i:1402411 original size:4 final size:4
Alignment explanation
Indices: 1402402--1402431 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1402392 ATTGAGGTGC
*
1402402 TTAT TTAT TTAT TTAT TCAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1402432 TGTTTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:1407306 original size:50 final size:50
Alignment explanation
Indices: 1407217--1407346 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 50
1407207 CACAAATTTT
* * * * *
1407217 TATCAATACATTCTTCATTGTATCTATACACTCTAGGTTTTACCTAGATG
1 TATCGATACATTTTTCATTGTATCGATACAATCTAGGTTTTACCCAGATG
* *
1407267 TATCGATACATTTTTCATTATATCGATACAATCTGGGTTTTACCCAGATG
1 TATCGATACATTTTTCATTGTATCGATACAATCTAGGTTTTACCCAGATG
* *
1407317 TATCGATACATTTCTCAATGTATCGATACA
1 TATCGATACATTTTTCATTGTATCGATACA
1407347 TTCAAGCATT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (50 bp):
TATCGATACATTTTTCATTGTATCGATACAATCTAGGTTTTACCCAGATG
Found at i:1409837 original size:78 final size:79
Alignment explanation
Indices: 1409620--1409865 Score: 227
Period size: 79 Copynumber: 3.1 Consensus size: 79
1409610 TTTCATCTTG
* * * * * *
1409620 GGGATACTCCAACCCTAGTTTTATTT-CTAAAACATCGA-TTTTC-CGTAATCAGGGATACTCTA
1 GGGATACTCCAACCCCA-ATTTATTTACTAAAACAACAATTTTTCACG--ATCGGGGATACTCCA
* *
1409682 ACCCCGTTATTTCTGAG
63 ACCCCGTTATTTTTGAA
* * *
1409699 GGGATACTCCAACCCCAATTTATTTACTAAAACAACAATTTTTCATGATCGAGGATACTCCAATC
1 GGGATACTCCAACCCCAATTTATTTACTAAAACAACAATTTTTCACGATCGGGGATACTCCAACC
*
1409764 TCGTTATTTTTGAA
66 CCGTTATTTTTGAA
* * * *
1409778 GGGATACTCCAACCCCGATTTTATTT-C-CAAACACCAATTTTTCACCG-TTGGGGATACTCCAA
1 GGGATACTCCAACCCC-AATTTATTTACTAAAACAACAATTTTTCA-CGATCGGGGATACTCCAA
* *
1409840 CCCCATTATTTTCG-A
64 CCCCGTTATTTTTGAA
1409855 GGGAATACTCC
1 GGG-ATACTCC
1409866 GAGAGAATAT
Statistics
Matches: 139, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
77 4 0.03
78 52 0.37
79 69 0.50
80 13 0.09
81 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCAATTTATTTACTAAAACAACAATTTTTCACGATCGGGGATACTCCAACC
CCGTTATTTTTGAA
Found at i:1412132 original size:22 final size:22
Alignment explanation
Indices: 1412107--1412164 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1412097 GTCCATCAGG
* *
1412107 GTCATTCATTATCGTATACATT
1 GTCATCCATTATCATATACATT
*
1412129 GTCATCCGTTATCATATACATT
1 GTCATCCATTATCATATACATT
1412151 GTCAT-C-TTATCATA
1 GTCATCCATTATCATA
1412165 AACTTATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 8 0.24
21 1 0.03
22 24 0.73
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (22 bp):
GTCATCCATTATCATATACATT
Found at i:1412162 original size:20 final size:22
Alignment explanation
Indices: 1412115--1412164 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1412105 GGGTCATTCA
*
1412115 TTATCGTATACATTGTCATCCG
1 TTATCATATACATTGTCATCCG
1412137 TTATCATATACATTGTCAT-C-
1 TTATCATATACATTGTCATCCG
1412157 TTATCATA
1 TTATCATA
1412165 AACTTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 18 0.67
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (22 bp):
TTATCATATACATTGTCATCCG
Found at i:1416171 original size:62 final size:61
Alignment explanation
Indices: 1416011--1417082 Score: 926
Period size: 62 Copynumber: 17.3 Consensus size: 61
1416001 TTTTTAGCCT
* ** ** * ** *
1416011 TTTTAGTCCTCAAAGAGCAGGACACCTTTTT-TTACAAAGCCTACATAAGTTGGTGGCATC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * *
1416071 TTTTATTCCTCAAAGAGTAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCA-CC
* * * * ** * *
1416134 TTCTAGTCTTCAAAGAGCAAGATGCCTTTTTCATTCAAAGCTTACACAAGCTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * *
1416195 TTTTTAGTCCTCAAAGAGTAGGATGCCTTTTT-TTTAAAAGCCCACACGAGTTGGTGGCACC
1 -TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * ** * *
1416256 TTCTAGTCTTCAAAGAGCATGATATC-TTTCCTTTTAAAGCCCACATGAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* *
1416316 TTTTAGTCCTCAAAGAACAGGATGCTTTTCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-
1 TTTTAGTCCTCAAAGAGCAAGATGC----CTTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCAC
1416380 C
61 C
* ** * * * *
1416381 TTTCTAGTCCTCAAAGAG-TAGAACACCTTTTCCTTTTGAAGCCCACAGGAGTTGGTGGCACA
1 TTT-TAGTCCTCAAAGAGCAAG-ATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * ** *
1416443 TTTTAGTCCTCAAAGAGCAAGGTGCCTTTTTCTTTTAAAGTCCATATAAGCTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * *
1416504 TTTTTAGTCCTTAAAGAGCAAGATGCC-TGTT-TTTTAAAGCCAACACGAGTTGGTAGCACC
1 -TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * * * ** *
1416564 TTCTAGTCCTTAAAGAGCAAGACGCC-TTTCCTTTTGAAGCGTACATGAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* *
1416624 TTTTAGTCCTCAAAGAGTAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-
1 TTTTAGTCCTCAAAGAGCAAGA----TGCCTTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCAC
1416688 C
61 C
* * *
1416689 TTTCTAGTCCTCAAAGAGCAGGATGCCATTCTTT-TTTGAAAGCCCACACAAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAAGATGCC-TT-TTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * * * * *
1416752 TTTTTAGCCCTCAAAGAGTAGGATCCCTTTTTTTTTTAAAGCCCACACAAGTTGGTCGCACC
1 -TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* * * * * * **
1416814 CTCTAGTCCTCGAAGAGTAGGATGCC-TTTCCTTTTAAAGCCCACACGAGTTGGTGGTGCC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
* ** * * * **
1416874 TTTTAGTCCTCAAGGAGTAGGACACTTTCCTTTTTCCTTTTAAATCCTACACGAGTTGGTGG-TG
1 TTTTAGTCCTCAA--AG-AGCA-AGATGCCTTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCAC
1416938 C
61 C
* * * ** *
1416939 TTTCTAGTCCTCAAAGAGTAGGATGCCTTTCTCTTTTTAAAGCTTACACTAGTTGGTGGCACC
1 TTT-TAGTCCTCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACC
* * ** *
1417002 TTTTAATCCTTAAAGAGCAAGATGTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACC
1 TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACC
*
1417064 TTTTAGTCCTCAAGGAGCA
1 TTTTAGTCCTCAAAGAGCA
1417083 GGACACTTTC
Statistics
Matches: 815, Mismatches: 159, Indels: 74
0.78 0.15 0.07
Matches are distributed among these distances:
59 29 0.04
60 195 0.24
61 124 0.15
62 252 0.31
63 62 0.08
64 14 0.02
65 22 0.03
66 117 0.14
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (61 bp):
TTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACC
Found at i:1416625 original size:308 final size:306
Alignment explanation
Indices: 1416058--1417082 Score: 1032
Period size: 308 Copynumber: 3.3 Consensus size: 306
1416048 AGCCTACATA
* * *
1416058 AGTTGGTGGCATCTTT-TATTCCTCAAAGAGTAGGATGCTTTTTTCTTTTCAAAGCCCACACGAG
1 AGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGTAGGATGC-CTTTTCTTTT-GAAGCCCACACGAG
* * * * * * *
1416122 TTGGTGGCACCCTTCTAGTCTTCAAAGAGCAAGATGCCTTTTTCATTCAAAGCTTACACAAGCTG
63 TTGGTGGCACCATTTTAGTCCTCAAAGAGCAAGGTGCCTTTTTCTTTTAAAGC-CACACAAGCTG
*
1416187 GTGGCACCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTTTTAAAAGCCCACACGAGTTGGTGG
127 GTGGCACCTTTTTAGTCCTCAAAGAGTAGGATGCC-TTTTTTT-AAAGCCCACACGAGTTGGTAG
* * *
1416252 CACCTTCTAGTCTTCAAAGAGCATGATATCTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCT
190 CACCTTCTAGTCTTCAAAGAGCAAGACACCTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCT
* * *
1416317 TTTAGTCCTCAAAGAACAGGATGCTTTTCTTTTTCCTTTTAAAGCCCACACG
255 TTTAGTCCTCAAAGAACAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACG
* ** *
1416369 AGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGAACACCTTTTCCTTTTGAAGCCCACAGGAGTT
1 AGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGATGCCTTTT-CTTTTGAAGCCCACACGAGTT
* *
1416434 GGTGGCA-CATTTTAGTCCTCAAAGAGCAAGGTGCCTTTTTCTTTTAAAGTCCATATAAGCTGGT
65 GGTGGCACCATTTTAGTCCTCAAAGAGCAAGGTGCCTTTTTCTTTTAAAG-CCACACAAGCTGGT
* * * *
1416498 GGCACCTTTTTAGTCCTTAAAGAGCAAGATGCCTGTTTTTTAAAGCCAACACGAGTTGGTAGCAC
129 GGCACCTTTTTAGTCCTCAAAGAGTAGGATGCCT-TTTTTTAAAGCCCACACGAGTTGGTAGCAC
* * **
1416563 CTTCTAGTCCTT-AAAGAGCAAGACGCCTTTCCTTTTGAAGCGTACATGAGTTGGTGGCACCTTT
193 CTTCTAGT-CTTCAAAGAGCAAGACACCTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTT
**
1416627 TAGTCCTCAAAGAGTAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACG
257 TAGTCCTCAAAGAACAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACG
* *
1416677 AGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGATGCCATTCTT-TTTTGAAAGCCCACACAAG
1 AGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGATGCC-TT-TTCTTTTG-AAGCCCACACGAG
* * * * * *
1416741 TTGGTGGCACCTTTTTAGCCCTCAAAGAG-TAGGATCCCTTTTTTTTTTAAAGCCCACACAAGTT
63 TTGGTGGCACCATTTTAGTCCTCAAAGAGCAAGG-TGCCTTTTTCTTTTAAAG-CCACACAAGCT
* * * * *
1416805 GGTCGCACC-CTCTAGTCCTCGAAGAGTAGGATGCCTTTCCTTTTAAAGCCCACACGAGTTGGTG
126 GGTGGCACCTTTTTAGTCCTCAAAGAGTAGGATGCCTTT--TTTTAAAGCCCACACGAGTTGGTA
** * * * * * * * *
1416869 GTGCCTTTTAGTCCTCAAGGAGTAGGACACTTTCCTTTTTCCTTTTAAATCCTACACGAGTTGGT
189 GCACCTTCTAGTCTTCAAAGAGCAAGACA----CC--TTTCCTTTTAAAGCCCACATGAGTTGGT
** ** * * * * ** *
1416934 GG-TGCTTTCTAGTCCTCAAAG-AGTAG--G-ATGCCTTTCTCTTTTTAAAGCTTACACT
248 GGCACCTTT-TAGTCCTCAAAGAACAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACG
* * * * ** *
1416989 AGTTGGTGGCACCTTT-TAATCCTTAAAGAGCAAGATGTTTTTTTCTTTTTAAAGCCCACACGAG
1 AGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGTAGGATG-CCTTTTC-TTTTGAAGCCCACACGAG
* *
1417053 TTAGTGGCACC-TTTTAGTCCTCAAGGAGCA
63 TTGGTGGCACCATTTTAGTCCTCAAAGAGCA
1417083 GGACACTTTC
Statistics
Matches: 597, Mismatches: 92, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
308 163 0.27
309 133 0.22
310 121 0.20
311 51 0.09
312 74 0.12
313 9 0.02
314 2 0.00
315 6 0.01
316 38 0.06
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (306 bp):
AGTTGGTGGCACTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTGAAGCCCACACGAGTTG
GTGGCACCATTTTAGTCCTCAAAGAGCAAGGTGCCTTTTTCTTTTAAAGCCACACAAGCTGGTGG
CACCTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTTTAAAGCCCACACGAGTTGGTAGCACCTT
CTAGTCTTCAAAGAGCAAGACACCTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGT
CCTCAAAGAACAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACG
Found at i:1416867 original size:250 final size:245
Alignment explanation
Indices: 1416008--1417085 Score: 1061
Period size: 250 Copynumber: 4.3 Consensus size: 245
1415998 CCCTTTTTAG
* ** * ** *
1416008 CCTTTTTAGTCCTCAAAGAGCAGGA-CACCTTTTTTTACAAAGCCTACATAAGTTGGTGGCATCT
1 CCTTTTTAGTCCTCAAAGAGCAAGATC-CCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *
1416072 TTTATTCCTCAAAGAGTAGGATGCTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTC
65 TTTAGTCCTCAAAGAGCAGGATGCTCTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCA-CCTTT
* * * * * ** * * *
1416137 TAGTCTTCAAAGAGCAAG-A-TGCCTTTTT-CATTCAAAGCTTACACAAGCTGGTGGCACCTTTT
128 TAGTCCTCAAAGAGTAAGAACTTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-CTTTC
* *
1416199 TAGTCCTCAAAGAGTAGGATGCCTTTTTTTTAAAAGCCCACACGAGTTGGTGGCA
192 TAGTCCTCAAAGAGCAGGATGCCTTTTTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * ** ** *
1416254 CC-TTCTAGTCTTCAAAGAGCATGATATCTTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTT
1 CCTTTTTAGTCCTCAAAGAGCAAGATCCCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTT
*
1416318 TTAGTCCTCAAAGAACAGGATGCTTTTCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-CT
66 TTAGTCCTCAAAGAGCAGGATGC---TC--TTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * *
1416382 TTCTAGTCCTCAAAGAGT-AGAAC-ACC-TTTTCCTTTTGAAGCCCACAGGAGTTGGTGGCACAT
126 TT-TAGTCCTCAAAGAGTAAGAACTTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCAC-T
* * * *
1416444 TT-TAGTCCTCAAAGAGCAAGG-TGCCTTTTTCTTTTAAAGTCCATATAAGCTGGTGGCA
189 TTCTAGTCCTCAAAGAGC-AGGATGCC-TTTT-TTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1416502 CCTTTTTAGTCCTTAAAGAGCAAGATGCC-TGTTTTTTAAAGCCAACACGAGTTGGTAGCACCTT
1 CCTTTTTAGTCCTCAAAGAGCAAGATCCCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTT
* * * * * ** *
1416566 CTAGTCCTTAAAGAGCAAGACGC-CTTTCCTTTTGAAGCGTACATGAGTTGGTGGCACCTTTTAG
66 TTAGTCCTCAAAGAGCAGGATGCTCTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAG
*
1416630 TCCTCAAAGAGTAAGACGCTTTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTCTA
131 TCCTCAAAGAGTAAGA-AC-TTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTCTA
1416695 GTCCTCAAAGAGCAGGATGCCATTCTTTTTTGAAAGCCCACACAAGTTGGTGGCA
194 GTCCTCAAAGAGCAGGATGCC-TT-TTTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * * *
1416750 CCTTTTTAGCCCTCAAAGAGTAGGATCCCTTTTTTTTTTAAAGCCCACACAAGTTGGTCGCACCC
1 CCTTTTTAGTCCTCAAAGAGCAAGATCCC-TTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * **
1416815 TCTAGTCCTCGAAGAGTAGGATGC-CTTTCCTTTTAAAGCCCACACGAGTTGGTGGTGCCTTTTA
65 TTTAGTCCTCAAAGAGCAGGATGCTCTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTA
* * * * **
1416879 GTCCTCAAGGAGTAGGACACTTTCCTTTTTCCTTTTAAATCCTACACGAGTTGGTGGTGCTTTCT
130 GTCCTCAAAGAGTAAGA-AC-TTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTCT
* ** *
1416944 AGTCCTCAAAGAGTAGGATGCCTTTCTCTTTTTAAAGCTTACACTAGTTGGTGGCA
193 AGTCCTCAAAGAGCAGGATGCC-TT-T-TTTTTAAAGCCCACACAAGTTGGTGGCA
* * *** *
1417000 CC-TTTTAATCCTTAAAGAGCAAGATGTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACC
1 CCTTTTTAGTCCTCAAAGAGCAAGAT-CCCTTTT-TTTTTAAAGCCCACACGAGTTGGTGGCACC
*
1417064 TTTTAGTCCTCAAGGAGCAGGA
64 TTTTAGTCCTCAAAGAGCAGGA
1417086 CACTTTCTTC
Statistics
Matches: 688, Mismatches: 114, Indels: 56
0.80 0.13 0.07
Matches are distributed among these distances:
242 43 0.06
243 7 0.01
244 2 0.00
245 69 0.10
246 10 0.01
247 85 0.12
248 159 0.23
249 69 0.10
250 239 0.35
251 5 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (245 bp):
CCTTTTTAGTCCTCAAAGAGCAAGATCCCTTTTTTTTTAAAGCCCACACGAGTTGGTGGCACCTT
TTAGTCCTCAAAGAGCAGGATGCTCTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAG
TCCTCAAAGAGTAAGAACTTCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTCTAGT
CCTCAAAGAGCAGGATGCCTTTTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1417232 original size:44 final size:44
Alignment explanation
Indices: 1417092--1417232 Score: 151
Period size: 45 Copynumber: 3.2 Consensus size: 44
1417082 AGGACACTTT
* * * * *
1417092 CTTCATATCCTT-TTTT-CCTTCATCCTTAAAGAGCATGATGCA
1 CTTCATTTCCTTCTTTTCCCTTTATCCTCAAAGAGTAGGATGCA
* * ***
1417134 CTTCATTTCCTTCTTTTCACTTTTTTCCTCAAAGAGTAGGGCACA
1 CTTCATTTCCTTCTTTTC-CCTTTATCCTCAAAGAGTAGGATGCA
* *
1417179 CCTCTTTTCCTTCTTTTCCCTTTATCCTCAAAGAGTAGGATGCA
1 CTTCATTTCCTTCTTTTCCCTTTATCCTCAAAGAGTAGGATGCA
1417223 CTTCATTTCC
1 CTTCATTTCC
1417233 ATTTTTCTTA
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 11 0.14
43 4 0.05
44 29 0.38
45 33 0.43
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.42
Consensus pattern (44 bp):
CTTCATTTCCTTCTTTTCCCTTTATCCTCAAAGAGTAGGATGCA
Found at i:1417284 original size:77 final size:75
Alignment explanation
Indices: 1417191--1417368 Score: 189
Period size: 77 Copynumber: 2.4 Consensus size: 75
1417181 TCTTTTCCTT
* * ** *
1417191 CTTTTCCCTTTATCCTCAAAGAGTAGGATGCACTTCATTTC-CATTTTTCTTATGTCCCCGAAAA
1 CTTTTTCCTTTATCCTCAAAGAGCAGGACCCACTTCA-TTCGC-TTTTCCTT-TGTCCCCGAAAA
*
1417255 GTAGAACGTACTC
63 GTAGAACATACTC
* * * * * * *
1417268 CTTTTTCCTTTGTCCTCAAGGAACCGGACCCATTTCATTCGCTTTTCCTTTGTCCTCGAAGAGTA
1 CTTTTTCCTTTATCCTCAAAGAGCAGGACCCACTTCATTCGCTTTTCCTTTGTCCCCGAAAAGTA
*
1417333 GGACATACTC
66 GAACATACTC
1417343 C-TTTTCCTTTATCCTCAAAGAGCAGG
1 CTTTTTCCTTTATCCTCAAAGAGCAGG
1417369 GCATCCATTC
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
74 21 0.26
75 22 0.27
76 10 0.12
77 29 0.35
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.36
Consensus pattern (75 bp):
CTTTTTCCTTTATCCTCAAAGAGCAGGACCCACTTCATTCGCTTTTCCTTTGTCCCCGAAAAGTA
GAACATACTC
Found at i:1418565 original size:51 final size:51
Alignment explanation
Indices: 1418471--1418587 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
1418461 CGAGGTACGC
* *
1418471 GGTTAGAGTATCCCCGATTGTGAAAAATCGATGTTCTGAAAATAAAATCGG
1 GGTTAGAGTATCCCCGATTGTGAAAAATAGAGGTTCTGAAAATAAAATCGG
* *
1418522 GGTT-GAAGTATCCCCGATTGTGAAAAATTAG-GGTTTTGGAAATAAAATCGG
1 GGTTAG-AGTATCCCCGATTGTGAAAAA-TAGAGGTTCTGAAAATAAAATCGG
1418573 GGTTAGAGTATCCCC
1 GGTTAGAGTATCCCC
1418588 TTAGAAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
50 1 0.02
51 55 0.93
52 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATTGTGAAAAATAGAGGTTCTGAAAATAAAATCGG
Found at i:1419149 original size:79 final size:77
Alignment explanation
Indices: 1418522--1419164 Score: 496
Period size: 79 Copynumber: 8.1 Consensus size: 77
1418512 ATAAAATCGG
* * *
1418522 GGTTGAAGTATCCCCGATTGTGAAAAATTAGGGTTTTGGAAATAAAATCGGGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATC-GGGTTAGAGTATCCC
*
1418587 -CTTAGAAATAACGA
65 TC-GA-AAATAACGA
* * * *
1418601 GGTTGAAGTATCCCTGATTATGAAAAATTAGTGTTTTGGAAATAAAA-CTGGGATTGGGGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATC-GGG-TTAGAGTATCC
*
1418665 TCTTGAAAATAACG-
64 -CTCGAAAATAACGA
* ** * * * ** **
1418679 GGACTAAAGTATCCCCGATTATGGAACA-TCGATACTTTATAAATAAAATCGAGGTTAGAGTATC
1 GG-TTGGAGTATCCCCGATTATGAAAAATTAG-TGTTTTGGAAATAAAATCG-GGTTAGAGTATC
**
1418743 CCTTAAAAAATAAC-A
63 CC-TCGAAAATAACGA
* * * * *
1418758 GGGTTGGAGTATCCCCGATTGTGAAAAACT-GATGTTTTGGAAATCAAACCGGGGTTGGAGTATC
1 -GGTTGGAGTATCCCCGATTATGAAAAATTAG-TGTTTTGGAAATAAAATC-GGGTTAGAGTATC
*
1418822 CTCTCGAAAATAATG-
63 C-CTCGAAAATAACGA
* * * * *
1418837 GGATTGGAGTATTCCCGATTGTGAAAAAATAGTATTTTGGAAATAAAATCAGGGTTGGAGTATCC
1 GG-TTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATC-GGGTTAGAGTATCC
* * *
1418902 ATGCAAAAATAGCGA
64 CT-CGAAAATAACGA
** *** * *
1418917 GGTCAGAGTATCATTGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGATTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGGG-TTAGAGTATCCC
1418982 TTC-AGAAATAACGA
65 -TCGA-AAATAACGA
* * * * *
1418996 GGCTGGGGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCGAGGTTAAAGTATCTC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCG-GGTTAGAGTATC-C
1419061 CTC-AGAAATAACGA
64 CTCGA-AAATAACGA
* * * * *
1419075 GATTGGAGTATCCCCGATAATGAAAAATT-GATGTTTTAGAAATAAAATCAGGGTTGGAGTTTTC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAG-TGTTTTGGAAATAAAATC-GGGTTAGAG-TATC
* *
1419139 CCTCGAAAATAATGG
63 CCTCGAAAATAACGA
1419154 GGTTGGAGTAT
1 GGTTGGAGTAT
1419165 TCCCATGGAA
Statistics
Matches: 454, Mismatches: 83, Indels: 54
0.77 0.14 0.09
Matches are distributed among these distances:
78 17 0.04
79 414 0.91
80 23 0.05
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (77 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGGGTTAGAGTATCCCT
CGAAAATAACGA
Found at i:1419149 original size:158 final size:157
Alignment explanation
Indices: 1418528--1419164 Score: 601
Period size: 158 Copynumber: 4.0 Consensus size: 157
1418518 TCGGGGTTGA
* ** * * * *
1418528 AGTATCCCCGATTGTGAAAAATTAGGGTTTTGGAAATAAAATCGGGGTTAGAGTATCCCCTTAGA
1 AGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGAGGTTAGAGTAT-CCCTCAAA
* *
1418593 AATAACGAGGTTGAAGTATCCCTGATTATGAAAAATT-AGTGTTTTGGAAATAAAA-CTGGGATT
65 AATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTGGAAATAAAATC-GGGATT
* * **
1418656 GGGGTATCCTCTTGAAAATAACGGGACTAA
128 GGAGTATCCTCTCGAAAATAACGGGACTGG
* * * * * *
1418686 AGTATCCCCGATTATGGAACA-TCGATACTTTATAAATAAAATCGAGGTTAGAGTATCCCTTAAA
1 AGTATCCCCGATTATGAAAAATTAG-TATTTTAGAAATAAAATCGAGGTTAGAGTATCCC-TCAA
* * * * *
1418750 AAATAAC-AGGGTTGGAGTATCCCCGATTGTGAAAAACTGATGTTTTGGAAATCAAACCGGGGTT
64 AAATAACGA-GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGATT
* *
1418814 GGAGTATCCTCTCGAAAATAATGGGATTGG
128 GGAGTATCCTCTCGAAAATAACGGGACTGG
* * * * * *
1418844 AGTATTCCCGATTGTGAAAAAATAGTATTTTGGAAATAAAATC-AGGGTTGGAGTATCCATGCAA
1 AGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGA-GGTTAGAGTATCCCT-CAA
* ** *** * * *
1418908 AAATAGCGAGGTCAGAGTATCATTGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGGATTA
64 AAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGATTG
1418973 GAGTATCC-CTTC-AGAAATAACGAGG-CTGG
129 GAGTATCCTC-TCGA-AAATAACG-GGACTGG
* * * * *
1419002 GGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCGAGGTTAAAGTATCTCCTCAGA
1 AGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGAGGTTAGAGTATC-CCTCAAA
* * *
1419067 AATAACGAGATTGGAGTATCCCCGATAATGAAAAATTGATGTTTTAGAAATAAAATCAGGG-TTG
65 AATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATC-GGGATTG
* * **
1419131 GAGTTTTCC-CTCGAAAATAATGGGGTTGG
129 GAG-TATCCTCTCGAAAATAACGGGACTGG
1419160 AGTAT
1 AGTAT
1419165 TCCCATGGAA
Statistics
Matches: 385, Mismatches: 76, Indels: 36
0.77 0.15 0.07
Matches are distributed among these distances:
157 12 0.03
158 354 0.92
159 19 0.05
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (157 bp):
AGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGAGGTTAGAGTATCCCTCAAAA
ATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGATTGGA
GTATCCTCTCGAAAATAACGGGACTGG
Found at i:1419162 original size:28 final size:28
Alignment explanation
Indices: 1419125--1419196 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
1419115 AATAAAATCA
*
1419125 GGGTTGGAGTTTTCCC-TCGAAAATAATG
1 GGGTTGGAGTATTCCCAT-GAAAATAATG
*
1419153 GGGTTGGAGTATTCCCATGGAAATAATG
1 GGGTTGGAGTATTCCCATGAAAATAATG
*
1419181 GGGTTGGA-TATCCCCA
1 GGGTTGGAGTATTCCCA
1419197 ATTGCGGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.17
28 32 0.80
29 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (28 bp):
GGGTTGGAGTATTCCCATGAAAATAATG
Found at i:1422490 original size:59 final size:58
Alignment explanation
Indices: 1422402--1422880 Score: 539
Period size: 59 Copynumber: 8.0 Consensus size: 58
1422392 GGACTACAAG
* * *
1422402 GTGCCACTAACTTGTGTGGGCTTTCAAAGGAAAGTGTCTTGCTCTTTGAGGACTAGAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCCTGCTCTTTGAGGACT-GAAA
* * * * *
1422461 TTGCCACCAATTTGTGTGGGCTTCGAAAGGAAAGCAG-CCTGCTCTTTGAGGACTAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAG-TGTCCTGCTCTTTGAGGACTGAAA
* * * * *
1422519 GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTCCGGATCTTTGAGGACTAGGAG
1 -GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCCTGCTCTTTGAGGACT-GAAA
* ** * * *
1422579 GTGCCACCAACTTATGTGGGCTTTGAAAGGAAAACGTCTTGCTCTTTGAAGACTGGAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCCTGCTCTTTGAGGACT-GAAA
* ** *
1422638 GTGCCACCAACTTGTGTGGGCTTTGCAAGGAAAACGTCCTGCTCATTGAGGACTGAAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCCTGCTCTTTGAGGACTG-AAA
* *
1422697 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTAAGGACTGAAA
1 GTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AA-GTGTCCTGCTCTTTGAGGACTGAAA
*
1422757 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG-GCATCCTGCTCTTTGAGGACTGAAA
1 -GTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGTG--TCCTGCTCTTTGAGGACTGAAA
* * *
1422818 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAATGGCGTCCTCCTCTTTGAGGACTGAAA
1 -GTGCCACCAACTTGTGTGGGCTTT-GAAAGGAAA--GTGTCCTGCTCTTTGAGGACTGAAA
1422880 G
1 G
1422881 GATAAAAGGT
Statistics
Matches: 366, Mismatches: 40, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
58 5 0.01
59 222 0.61
60 8 0.02
61 101 0.28
62 28 0.08
63 1 0.00
64 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (58 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCCTGCTCTTTGAGGACTGAAA
Found at i:1422600 original size:118 final size:118
Alignment explanation
Indices: 1422376--1422881 Score: 597
Period size: 118 Copynumber: 4.2 Consensus size: 118
1422366 AAATTAAAGC
* * * * * *
1422376 GCGTCCTACTATTTGGGGACT-ACAAGGTGCCACTAACTTGTGTGGGCTTTCAAAGGAAAGTGTC
1 GCGTCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTC
* * * **
1422440 TTGCTCTTTGAGGACT-AGAAATTGCCACCAATTTGTGTGGGCTTCGAAAGGAAA
65 CTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
*
1422494 GCAG-CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTC
1 GC-GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTC
* * * * * *
1422558 CGGATCTTTGAGGACT-AGGAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAA
65 CTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * * * * *
1422612 ACGTCTTGCTCTTTGAAGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGGAAAACGTCC
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTCC
*
1422677 TGCTCATTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
66 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AA
* * * * *
1422731 GGTGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 -GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATG--
*
1422796 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAA
63 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAA
*
1422853 TGGCGTCCTCCTCTTTGAGGACTGAAAGG
1 --GCGTCCTGCTCTTTGAGGACTGAAAGG
1422882 ATAAAAGGTT
Statistics
Matches: 334, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.00
118 197 0.59
119 5 0.01
120 52 0.16
122 47 0.14
123 32 0.10
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (118 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAATGTCC
TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
Found at i:1422703 original size:177 final size:180
Alignment explanation
Indices: 1422399--1422879 Score: 623
Period size: 177 Copynumber: 2.7 Consensus size: 180
1422389 TGGGGACTAC
* * * * **
1422399 AAGGTGCCACTAACTTGTGTGGGCTTTCAAAGGAAAGTGTCTTGCTCTTTGAGGACTAGAAATTG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCGTCTTGCTCTTTGAGGACTGGAAGGTG
* *
1422464 CCACCAATTTGTGTGGGCTTCGAAAGGAAAGCAG-CCTGCTCTTTGAGGACT-AAAAGGTGCCAC
66 CCACCAACTTGTGTGGGCTTTGAAAGGAAAGC-GTCCTGCTCTTTGAGGACTGAAAAGGTGCCAC
* *
1422527 CAACTTGTGTGGGCTTTGAAAGGA-AA-ATGTCCGGATCTTTGAGGACT-A
130 CAACTTGTGTGGGCTTTAAAAGGAGAAGATGTCCGGATCTTTAAGGACTGA
* * * * *
1422575 GGAGGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAACGTCTTGCTCTTTGAAGACTGGAAGGT
1 -AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCGTCTTGCTCTTTGAGGACTGGAAGGT
* * *
1422640 GCCACCAACTTGTGTGGGCTTTGCAAGGAAAACGTCCTGCTCATTGAGGACTGAAAA-GTGCCAC
65 GCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCGTCCTGCTCTTTGAGGACTGAAAAGGTGCCAC
* * *
1422704 CAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTAAGGACTGA
130 CAACTTGTGTGGGCTTTAAAAGGAGAAGATGTCCGGATCTTTAAGGACTGA
* * *
1422755 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTTTGAGGACTGAAAGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AA-GCGTCTTGCTCTTTGAGGACTGGAAGG
* *
1422820 TGCCACCAACTTGTGTGGGCTTTAAAAAGGAAATGGCGTCCTCCTCTTTGAGGACTGAAA
64 TGCCACCAACTTGTGTGGGCTTT-GAAAGGAAA--GCGTCCTGCTCTTTGAGGACTGAAA
1422880 GGATAAAAGG
Statistics
Matches: 261, Mismatches: 33, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
176 1 0.00
177 129 0.49
178 6 0.02
179 48 0.18
180 3 0.01
181 45 0.17
182 7 0.03
184 22 0.08
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (180 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGCGTCTTGCTCTTTGAGGACTGGAAGGTG
CCACCAACTTGTGTGGGCTTTGAAAGGAAAGCGTCCTGCTCTTTGAGGACTGAAAAGGTGCCACC
AACTTGTGTGGGCTTTAAAAGGAGAAGATGTCCGGATCTTTAAGGACTGA
Found at i:1423862 original size:1 final size:1
Alignment explanation
Indices: 1423856--1423912 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
1423846 TTTATTTCTC
* * * * * * *
1423856 TTTTTTTGTTATTTTTTTTTTGTTTTTTGTTCTTTTTTTGTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1423913 GTTTAGAAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:1423867 original size:17 final size:17
Alignment explanation
Indices: 1423833--1423909 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 17
1423823 GTTCTTTTCT
*
1423833 TTTCTCTTTCTTCT-TTA
1 TTTCTCTTT-TTTTGTTA
1423850 TTTCTCTTTTTTTGTTA
1 TTTCTCTTTTTTTGTTA
*
1423867 -TT-T-TTTTTTTGTTT
1 TTTCTCTTTTTTTGTTA
*
1423881 TTTGTTCTTTTTTTGTT-
1 TTT-CTCTTTTTTTGTTA
*
1423898 TTTGT-TTTTTTT
1 TTTCTCTTTTTTT
1423910 TTTGTTTAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
14 10 0.19
15 10 0.19
16 6 0.12
17 16 0.31
18 10 0.19
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTCTCTTTTTTTGTTA
Found at i:1423870 original size:11 final size:10
Alignment explanation
Indices: 1423856--1423916 Score: 65
Period size: 11 Copynumber: 6.1 Consensus size: 10
1423846 TTTATTTCTC
1423856 TTTTTTTGTT
1 TTTTTTTGTT
1423866 ATTTTTTT-TT
1 -TTTTTTTGTT
1423876 TGTTTTTTGTT
1 T-TTTTTTGTT
1423887 CTTTTTTTG-T
1 -TTTTTTTGTT
*
1423897 TTTTGTT-TT
1 TTTTTTTGTT
1423906 TTTTTTTGTT
1 TTTTTTTGTT
1423916 T
1 T
1423917 AGAAAAAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
9 14 0.33
10 12 0.28
11 16 0.37
12 1 0.02
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:1423893 original size:18 final size:19
Alignment explanation
Indices: 1423870--1423916 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1423860 TTTGTTATTT
1423870 TTTTTTTGTTTTTTG-TTC
1 TTTTTTTGTTTTTTGTTTC
*
1423888 TTTTTTTG-TTTTTGTTTT
1 TTTTTTTGTTTTTTGTTTC
1423906 TTTTTTTGTTT
1 TTTTTTTGTTT
1423917 AGAAAAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 18 0.69
19 2 0.08
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (19 bp):
TTTTTTTGTTTTTTGTTTC
Found at i:1423895 original size:32 final size:30
Alignment explanation
Indices: 1423854--1423912 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
1423844 TCTTTATTTC
*
1423854 TCTTTTTTTGTTATTTTTTTTTTGTTTTTTGT
1 TCTTTTTTTGTT-TTTGTTTTTT-TTTTTTGT
1423886 TCTTTTTTTGTTTTTGTTTTTTTTTTT
1 TCTTTTTTTGTTTTTGTTTTTTTTTTT
1423913 GTTTAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 9 0.35
32 12 0.46
ACGTcount: A:0.02, C:0.03, G:0.08, T:0.86
Consensus pattern (30 bp):
TCTTTTTTTGTTTTTGTTTTTTTTTTTTGT
Found at i:1423905 original size:29 final size:30
Alignment explanation
Indices: 1423858--1423915 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
1423848 TATTTCTCTT
*
1423858 TTTTTGTTATTTTTTTTTTGTTTTTTGTTC
1 TTTTTGTTATTTTTGTTTTGTTTTTTGTTC
* *
1423888 TTTTT-TTGTTTTTGTTTTTTTTTTTGTT
1 TTTTTGTTATTTTTGTTTTGTTTTTTGTT
1423916 TAGAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (30 bp):
TTTTTGTTATTTTTGTTTTGTTTTTTGTTC
Found at i:1434832 original size:79 final size:79
Alignment explanation
Indices: 1434711--1435413 Score: 727
Period size: 79 Copynumber: 8.9 Consensus size: 79
1434701 ATACTCGTTC
* * * * *** * * *
1434711 ATGAAAAATTTAATATTTTGGAGATAAAGA-CGGGGTTGGAGTATCTTTTCAAAAATAACGGGGC
1 ATGAAAAA-TTAGTGTTTTGGAAATAAA-ACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGT
*
1434775 TAGAGTATCCCCGATT
64 TGGAGTATCCCCGATT
* * ** *
1434791 GTGAAAAATTGGTGTTTTGGAAATAAAACCAAGGTTAGAGTATCCCCTCAGAAATAATGAGGTTG
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTG
1434856 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* * * *
1434870 ATGAAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAAAGAGATT
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAG-AAATAACGAGGTT
*
1434934 GGAGTATCCCTGATT
65 GGAGTATCCCCGATT
* * * ** * ** * * * *
1434949 GTGGAACATCGGTATTTTAAAAATAAAATCAGGGTTAGAGTATCCTCTCAGAAATAACGGGGTTG
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTG
*
1435014 GAGTATCCCTGATT
66 GAGTATCCCCGATT
* * * * * * * *
1435028 GTGAAAAATT-GATGTTCTAGAAATATAACCGGGATTGGAGTATCCCCTCAGAAATAATGGGGTT
1 ATGAAAAATTAG-TGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTT
*
1435092 GGAGTATCCTCGATT
65 GGAGTATCCCCGATT
* * * * * *
1435107 ATGATAAATTATTATTTTGGAAATAAAACTGGGGTTGGAGTATCCCTTC-GAAAATAACGAGGTT
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAG-AAATAACGAGGTT
1435171 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
* * * *
1435186 GTGAAAAATTAGTGTTTTGAAAAT-AAACCGAGGTTAGAGTATCCCCTCAGAAATAACGAGTTTG
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTG
*
1435250 GGGTATCCCCGATT
66 GAGTATCCCCGATT
* * * *
1435264 ATGAAAAATTAGTGTTTTGGAAATAAAACTGGGGTTTGAGTATTCTCTCAGAAATAACG-GGATT
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGG-TT
1435328 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
* * * * * *
1435343 ATGAAAAATTGGTGTTTTGGAAATAAAATCGAGGTTAGAGT-TTCCCTAAAAAATAACGAGGTTG
1 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTG
1435407 GAGTATC
66 GAGTATC
1435414 TTCGCGGAAA
Statistics
Matches: 518, Mismatches: 95, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
78 97 0.19
79 413 0.80
80 8 0.02
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (79 bp):
ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTG
GAGTATCCCCGATT
Found at i:1435175 original size:237 final size:233
Alignment explanation
Indices: 1434743--1435413 Score: 833
Period size: 237 Copynumber: 2.8 Consensus size: 233
1434733 GATAAAGACG
* * * * * * *
1434743 GGGTTGGAGTATCTTTTCAAAAATAACGGGGCTAGAGTATCCCCGATTGTGAAAAATTGGTGTTT
1 GGGTTAGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTT
* *
1434808 TGGAAATAAAACCAAGGTTAGAGTATCCCCTCAGAAATAATGAGGTTGGAGTATCCCCGATTATG
66 TGGAAATAAAACC-GGGTTAGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTATG
* *
1434873 AAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAAGAGATTGGAG
130 AAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTAT-CCCTCGAAAATAACGAGGTTGGAG
* * * *
1434938 TATCCCTGATTGTGGAACATCGGTATTTTAAAAATAAAATCA
194 TATCCCCGATTGTGAAAAATCAGTATTTTAAAAAT-AAA-CA
* *
1434980 GGGTTAGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTC
1 GGGTTAGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTT
* * * *
1435045 TAGAAATATAACCGGGATTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCTCGATTATG
66 TGGAAATAAAACCGGG-TTAGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTATG
* * *
1435110 ATAAATTATTATTTTGGAAATAAAA-CTGGGGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGA
130 AAAAATTAGTGTTTTGGAAATAAAATC-GGGGTTGGAGTATCCC-TCGAAAATAACGAGGTTGGA
* * * *
1435174 GTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAACC
193 GTATCCCCGATTGTGAAAAATCAGTATTTTAAAAATAAACA
* * * * *
1435215 GAGGTTAGAGTATCCCCTCAGAAATAACGAGTTTGGGGTATCCCCGATTATGAAAAATT-AGTGT
1 G-GGTTAGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA-TGT
* * * * * *
1435279 TTTGGAAATAAAACTGGGGTTTGAGTATTCTCTCAGAAATAACGGGATTGGAGTATCCCCGATTA
64 TTTGGAAATAAAAC-CGGGTTAGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTA
* * * * **
1435344 TGAAAAATTGGTGTTTTGGAAATAAAATCGAGGTTAGAGTTTCCCTAAAAAATAACGAGGTTGGA
128 TGAAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCTCGAAAATAACGAGGTTGGA
1435409 GTATC
193 GTATC
1435414 TTCGCGGAAA
Statistics
Matches: 374, Mismatches: 53, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
235 26 0.07
236 150 0.40
237 198 0.53
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (233 bp):
GGGTTAGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTT
TGGAAATAAAACCGGGTTAGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTATGA
AAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCTCGAAAATAACGAGGTTGGAGTA
TCCCCGATTGTGAAAAATCAGTATTTTAAAAATAAACA
Found at i:1438058 original size:19 final size:19
Alignment explanation
Indices: 1438015--1438119 Score: 64
Period size: 20 Copynumber: 5.7 Consensus size: 19
1438005 AGATGCCTGG
1438015 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATT-AAAA
*
1438035 ATGTATCGATACATCT-AGA
1 ATGTATCGATACAT-TAAAA
*
1438054 ATGTATTGATAC------A
1 ATGTATCGATACATTAAAA
* *
1438067 ATGTATCGATACAATGAATA
1 ATGTATCGATAC-ATTAAAA
* *
1438087 ATGTATTGAT-CAATAAACA
1 ATGTATCGATACATTAAA-A
1438106 ATGTATCGATACAT
1 ATGTATCGATACAT
1438120 CTGGGTAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
13 12 0.18
18 3 0.05
19 24 0.36
20 26 0.39
21 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATTAAAA
Found at i:1438071 original size:13 final size:13
Alignment explanation
Indices: 1438053--1438082 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1438043 ATACATCTAG
*
1438053 AATGTATTGATAC
1 AATGTATCGATAC
1438066 AATGTATCGATAC
1 AATGTATCGATAC
1438079 AATG
1 AATG
1438083 AATAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1438109 original size:52 final size:52
Alignment explanation
Indices: 1438015--1438118 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
1438005 AGATGCCTGG
* ** * *
1438015 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGAATGTATTGATACA
1 ATGTATCGATACAATGAAAAATGTATCGATACATAAACAATGTATCGATACA
* *
1438067 ATGTATCGATACAATGAATAATGTATTGAT-CAATAAACAATGTATCGATACA
1 ATGTATCGATACAATGAAAAATGTATCGATAC-ATAAACAATGTATCGATACA
1438119 TCTGGGTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATAAACAATGTATCGATACA
Found at i:1438928 original size:19 final size:19
Alignment explanation
Indices: 1438857--1438924 Score: 100
Period size: 19 Copynumber: 3.5 Consensus size: 19
1438847 TTTTACAAAG
*
1438857 ATGTATCGATACATTCTTTA
1 ATGTATCGATACA-TCTTCA
1438877 ATGTATCGATACATCTTCA
1 ATGTATCGATACATCTTCA
*
1438896 ATGTATCGATGCATCTTCA
1 ATGTATCGATACATCTTCA
*
1438915 ATGCATCGAT
1 ATGTATCGAT
1438925 GCATTCTGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.71
20 13 0.29
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATCTTCA
Found at i:1441394 original size:79 final size:79
Alignment explanation
Indices: 1441263--1441641 Score: 347
Period size: 79 Copynumber: 4.8 Consensus size: 79
1441253 TTTTCATCTC
* * * * * * ** *
1441263 GGGGATACTCCAATCCTGGTTTTATTTCTAAATCACCAATTTTTCATTATCGGGGATACTCTAAC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
*
1441328 CTCGTTATTTTCGA
66 CTCATTATTTTCGA
* * *
1441342 GGGGATACTCAAACCCCGATTTTATTT-TCAAAACACCAATTTGCCACCATCGGAGATACTCCAA
1 GGGGATACTCTAACCCCGATTTTATTTCT-AAAACACCAATTTTCCACCATCGGGGATACTCCAA
*
1441406 -CTCCATTATTTTTGA
65 CCT-CATTATTTTCGA
* * * * *
1441421 -GGGATACTCTAA-CCCTATTTTTATTCCTAAAACACCAATTTTTCATCATCGGGGATACTCGAA
1 GGGGATACTCTAACCCCGA-TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAA
* *
1441484 CCCCGTTA-TTTCTGA
65 CCTCATTATTTTC-GA
* * *** * *
1441499 GAGGATACTCTAACCCCGGTTTTATTTCTAAAACATTGATTTTCCACAATCAGGGATACTCCAAC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
*
1441564 C-CTATTATTTACGA
66 CTC-ATTATTTTCGA
* * ** ** *
1441578 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCATGATCAGGGATACTCCAA
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAA
1441642 TCTCGATTTT
Statistics
Matches: 245, Mismatches: 45, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
77 7 0.03
78 58 0.24
79 174 0.71
80 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCTAACCCCGATTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
CTCATTATTTTCGA
Found at i:1441557 original size:157 final size:157
Alignment explanation
Indices: 1441263--1441638 Score: 438
Period size: 157 Copynumber: 2.4 Consensus size: 157
1441253 TTTTCATCTC
* * * * *
1441263 GGGGATACTCCAATCCTGGTTTTATTTCTAAATCACCAATTTTTCATTATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCT-ATTTTATTTCTAAAACACCAATTTTTCATCATCGGGGATACTCGAAC
* * *
1441328 CTCGTTATTTTCGAGGGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTGCCACCATC
65 CCCGTTATTTTCGAGAGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTGCCACAATC
**
1441393 GGAGATACTCCAACTCC-ATTATTTTTGA
130 GGAGATACTCCAAC-CCTATTATTTACGA
* *
1441421 -GGGATACTCTAACCCTATTTTTATTCCTAAAACACCAATTTTTCATCATCGGGGATACTCGAAC
1 GGGGATACTCCAACCCTA-TTTTATTTCTAAAACACCAATTTTTCATCATCGGGGATACTCGAAC
* * *** *
1441485 CCCGTTA-TTTCTGAGAGGATACTCTAACCCCGGTTTTA-TTTCTAAAACATTGATTTTCCACAA
65 CCCGTTATTTTC-GAGAGGATACTCAAACCCCGATTTTATTTTC-AAAACACCAATTTGCCACAA
1441548 TCAGG-GATACTCCAACCCTATTATTTACGA
128 TC-GGAGATACTCCAACCCTATTATTTACGA
* ** * * *
1441578 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCATGATCAGGGATACTC
1 GGGGATACTCCAACC-CTATTTTATTTCTAAAACACCAATTTTTCATCATCGGGGATACTC
1441639 CAATCTCGAT
Statistics
Matches: 185, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
156 10 0.05
157 122 0.66
158 51 0.28
159 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (157 bp):
GGGGATACTCCAACCCTATTTTATTTCTAAAACACCAATTTTTCATCATCGGGGATACTCGAACC
CCGTTATTTTCGAGAGGATACTCAAACCCCGATTTTATTTTCAAAACACCAATTTGCCACAATCG
GAGATACTCCAACCCTATTATTTACGA
Found at i:1441684 original size:50 final size:51
Alignment explanation
Indices: 1441578--1441694 Score: 157
Period size: 50 Copynumber: 2.3 Consensus size: 51
1441568 TTATTTACGA
**
1441578 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCATGATC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCACCATC
* * * *
1441629 AGGGATACTCCAATCTCGATTTTATTTC-CAAACA-TCGATTTTCCACCATT
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACACT-GATTTTCCACCATC
1441679 GGGGATACTCCAACCT
1 GGGGATACTCCAACCT
1441695 TGTTATTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 30 0.53
51 26 0.46
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCACCATC
Found at i:1449471 original size:61 final size:60
Alignment explanation
Indices: 1449369--1449746 Score: 316
Period size: 61 Copynumber: 6.2 Consensus size: 60
1449359 CCTTTTTCAA
*
1449369 TCCTCAAAGAGTAGGGCATCTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGTAGGGCA-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
** * *
1449430 TTTTCAAAGAGTAAGGTGC-CTTTTCTTTTTAAAGCCAACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGT-AGG-GCACTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* * * * * *
1449491 TCCTCAAAGAG-CGGGACATCTTTTCCTTTTAATGCCCACATAAGTTGGTGGCACCTTACAA
1 TCCTCAAAGAGTAGGG-CA-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* * * * *
1449552 TCCTCAAAGAGTAAGGCGC-TTTC-TTTCAAAGCCCACATAAATTGGTGGCACCTTCCAG
1 TCCTCAAAGAGTAGGGCACTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* * * * * ** * *
1449610 TCTTCAAAGAGCAGGACGCTTTCTCCTTGCAAAGCCCACATAAGTTGGTGGCACCTTCTAG
1 TCCTCAAAGAGTAGGGCACTTT-TCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* * ** * * *
1449671 TCCCCAAAGAGCAGGATACTTTT-TTTTTAAAAAAAAAACCCACACAAGCTGGTGGCACCTTCTA
1 TCCTCAAAGAGTAGGGCACTTTTCTTTTT------AAAGCCCACACAAGTTGGTGGCACCTTCCA
1449735 G
60 G
*
1449736 TCCTTAAAGAG
1 TCCTCAAAGAG
1449747 CAAAACGCCT
Statistics
Matches: 262, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
58 46 0.18
59 11 0.04
60 4 0.02
61 157 0.60
62 5 0.02
63 2 0.01
65 37 0.14
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (60 bp):
TCCTCAAAGAGTAGGGCACTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
Found at i:1449521 original size:122 final size:119
Alignment explanation
Indices: 1449363--1449681 Score: 363
Period size: 119 Copynumber: 2.7 Consensus size: 119
1449353 TTTTATCCTT
* * * * *
1449363 TTTCAATCCTCAAAGAGTAGGG-CATCTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTC
1 TTTCAGTCCTCAAAGAG-CGGGACATCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTC
* ** * * *
1449427 CAGTTTTCAAAGAGTAAGGTGCCTTTTCTTTTTAAAGCCAACACAAGTTGGTGGCACC
65 CAATCCTCAAAGAGTAAGGCG-C-TTTC-TTTCAAAGCCAACACAAATTGGTGGCACC
* *
1449485 TTTCAGTCCTCAAAGAGCGGGACATCTTTTCCTTTTAATGCCCACATAAGTTGGTGGCACCTTAC
1 TTTCAGTCCTCAAAGAGCGGGACATCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCC
* *
1449550 AATCCTCAAAGAGTAAGGCGCTTTCTTTCAAAGCCCACATAAATTGGTGGCACC
66 AATCCTCAAAGAGTAAGGCGCTTTCTTTCAAAGCCAACACAAATTGGTGGCACC
* * * * **
1449604 TTCCAGTCTTCAAAGAGCAGGAC-GCTTTCTCCTTGCAAAGCCCACATAAGTTGGTGGCACCTTC
1 TTTCAGTCCTCAAAGAGCGGGACATCTTT-TCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTC
* * *
1449668 TAGTCCCCAAAGAG
65 CAATCCTCAAAGAG
1449682 CAGGATACTT
Statistics
Matches: 169, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
118 4 0.02
119 87 0.51
120 4 0.02
121 4 0.02
122 70 0.41
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (119 bp):
TTTCAGTCCTCAAAGAGCGGGACATCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCC
AATCCTCAAAGAGTAAGGCGCTTTCTTTCAAAGCCAACACAAATTGGTGGCACC
Found at i:1452935 original size:107 final size:107
Alignment explanation
Indices: 1452749--1452977 Score: 323
Period size: 107 Copynumber: 2.1 Consensus size: 107
1452739 CCACCATCGG
* *
1452749 GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAA
1 GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
** * * * *
1452814 TTTTCCGTAATCGGGGATACTCTAAGCCTATTATTTTTTAGA
66 TTTTCCACAATCGGGGATACTCCAACCCTATTATTTCTGAGA
* * * *
1452856 GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCGA
1 GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* *
1452921 TTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGG
66 TTTTCCACAATCGGGGATACTCCAACCCTATTATTTCTGAGA
*
1452963 GGATACTGCAACCCC
1 GGATACTCCAACCCC
1452978 AGTTTTATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (107 bp):
GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
TTTTCCACAATCGGGGATACTCCAACCCTATTATTTCTGAGA
Found at i:1452939 original size:79 final size:78
Alignment explanation
Indices: 1452856--1453499 Score: 539
Period size: 79 Copynumber: 8.2 Consensus size: 78
1452846 ATTTTTTAGA
* * *
1452856 GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCGA
1 GGATACTCCAACC-CGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA
*
1452921 TTTTCCACAATCGG
65 TTTTTCACAATCGG
* *
1452935 GGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTGCAACCCC-AGTTTTATTTCTAAAACA-T
1 GGATACTCCAACCC-GTTATTTTC-GAGGGGATACTCCAACCCCGA-TTTTATTTCTAAAACACC
**
1452997 AATTTTTCACAATCAA
63 AATTTTTCACAATCGG
* * * * *
1453013 GGATACTCCAACCCTATTATTTTCAAGAGGATACTCCAACCCTGATTTTATTTCTAAAACACTAA
1 GGATACTCCAACCC-GTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA
* *
1453078 TTTTTCACCATTGG
65 TTTTTCACAATCGG
* * * ** *
1453092 GGATATTCCAACCTCGTTATTTTCGAAGGGATACGCCAACCCTAATTTTATTT-TCAAAACATCA
1 GGATACTCCAACC-CGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCA
*
1453156 ATTTTTCACAATTGG
64 ATTTTTCACAATCGG
* * ** *
1453171 GGATACTCTAATCCCGTTATTTAT-GAGGGGATACTCCAACACTAATTTTATTTTTAAAACACCA
1 GGATACTCCAA-CCCGTTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
*
1453235 ATTTTTCATAATCGG
64 ATTTTTCACAATCGG
* * * * ** * * * *
1453250 GGATACACTAATCCCGTTATTTTCAAGGGAATACTTTAACCTCGATTTTATCTCCAAAACACCTA
1 GGATACTCCAA-CCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA
* *
1453315 TTGTCTGC-CACT-GG
65 TT-T-TTCACAATCGG
* * ** * * * * *
1453329 GGATACTCCACCCCATTATTTTTTAGGGGATACTCCAACCCCTATTTTACTTCTAAAATATCGAT
1 GGATACTCCAACCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAAT
* *
1453394 TTTCCACCATCGG
66 TTTTCACAATCGG
* * * * * ** * * *
1453407 GGACACTCTAACCCCGTTATTTTCAATGGGATACTCTAACCCTTATTTTATTTCTAAAATATCGA
1 GGATACTCCAA-CCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA
* *
1453472 CTTTTCACCAGT-GG
65 TTTTTCA-CAATCGG
1453486 GGATACTCCAACCC
1 GGATACTCCAACCC
1453500 CATTTTTATC
Statistics
Matches: 460, Mismatches: 87, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
76 2 0.00
77 3 0.01
78 123 0.27
79 320 0.70
80 10 0.02
81 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAAT
TTTTCACAATCGG
Found at i:1453034 original size:157 final size:156
Alignment explanation
Indices: 1452854--1453499 Score: 501
Period size: 157 Copynumber: 4.1 Consensus size: 156
1452844 TTATTTTTTA
* * *
1452854 GAGGATACTCCAA-CCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATAC
1 GAGGATACTCCAACCCT-ATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
*
1452918 CGATTTTCCACAATCGGGGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTGCAACCCCAGTT
65 CAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTC-GAGGGGATACTGCAACCCCAGTT
1452982 TTATTTCTAAAACATAATTTTTCACAAT
129 TTATTTCTAAAACATAATTTTTCACAAT
* * * *
1453010 CAAGGATACTCCAACCCTATTATTTTCAAGAGGATACTCCAACCCTGATTTTATTTCTAAAACAC
1 -GAGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * * * * *
1453075 TAATTTTTCACCATTGGGGATATTCCAA-CCTCGTTATTTTCGAAGGGATAC-GCCAACCCTAAT
65 CAATTTTCCACAATCGGGGATACTCCAACCCT-GTTATTTTCGAGGGGATACTG-CAACCCCAGT
1453138 TTTATTT-TCAAAACATCAATTTTTCACAATT
128 TTTATTTCT-AAAACAT-AATTTTTCACAA-T
* * * * ** *
1453169 GGGGATACTCTAATCCC-GTTATTTAT-GAGGGGATACTCCAACACTAATTTTATTTTTAAAACA
1 GAGGATACTCCAA-CCCTATTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA
* * * * * * ** *
1453232 CCAATTTTTCATAATCGGGGATACACTAATCCC-GTTATTTTCAAGGGAATACTTTAACCTC-GA
64 CCAATTTTCCACAATCGGGGATACTCCAA-CCCTGTTATTTTCGAGGGGATACTGCAACCCCAG-
* * * *
1453295 TTTTATCTCCAAAACACCT-ATTGTCTGC-CACT
127 TTTTATTTCTAAAACA--TAATT-T-TTCACAAT
* * ** * * * *
1453327 GGGGATACTCC-ACCCCATTATTTTTTAGGGGATACTCCAACCCCTATTTTACTTCTAAAATATC
1 GAGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
* * * * * * * *
1453391 GATTTTCCACCATCGGGGACACTCTAACCCCGTTATTTTCAATGGGATACT-CTAACCCTTA-TT
66 AATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTGC-AACCC-CAGTT
* * * *
1453454 TTATTTCTAAAATATCGACTTTTCACCAGT
129 TTATTTCTAAAACAT-AATTTTTCA-CAAT
*
1453484 GGGGATACTCCAACCC
1 GAGGATACTCCAACCC
1453500 CATTTTTATC
Statistics
Matches: 389, Mismatches: 71, Indels: 57
0.75 0.14 0.11
Matches are distributed among these distances:
155 3 0.01
156 13 0.03
157 220 0.57
158 140 0.36
159 8 0.02
160 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (156 bp):
GAGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
AATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTGCAACCCCAGTTTT
ATTTCTAAAACATAATTTTTCACAAT
Found at i:1453490 original size:236 final size:235
Alignment explanation
Indices: 1452856--1453499 Score: 662
Period size: 236 Copynumber: 2.7 Consensus size: 235
1452846 ATTTTTTAGA
* * *
1452856 GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCGA
1 GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCTATTTTA-TTCTAAAATATCGA
* * * *
1452921 TTTTCCACAATCGGGGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTGCAACCCCAGTTTTA
65 TTTTCCACAATCGGGGATACTCTAACCCCGTTATTTTC-GAGGGGATACT-CAACCCTAATTTTA
** *
1452985 TTTCTAAAACAT-AATTTTTCACAATCAAGGATACTCCAACCCTATTATTTTCAAGAGGATACTC
128 TTTCTAAAACATCAATTTTTCACAATCGGGGATACACCAACCCTATTATTTTCAAGAGGATACTC
* * * *
1453049 CAACCCTGATTTTATTTCTAAAACACTAATTTTTCACCATTGG
193 CAACCCTGATTTTATCTCCAAAACACTAATTTCTCACCACTGG
* * * * * *
1453092 GGATATTCCAACCTCGTTATTTTCGAAGGGATACGCCAA-CCCTAATTTTATTTTCAAAACATCA
1 GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCT-ATTTTATTCT-AAAATATCG
* * * *
1453156 ATTTTTCACAATTGGGGATACTCTAATCCCGTTATTTAT-GAGGGGATACTCCAACACTAATTTT
64 ATTTTCCACAATCGGGGATACTCTAACCCCGTTATTT-TCGAGGGGATACT-CAACCCTAATTTT
* * * * *
1453220 ATTTTTAAAACACCAATTTTTCATAATCGGGGATACACTAATCCC-GTTATTTTCAAG-GGAATA
127 ATTTCTAAAACATCAATTTTTCACAATCGGGGATACACCAA-CCCTATTATTTTCAAGAGG-ATA
** *
1453283 CTTTAA-CCTCGATTTTATCTCCAAAACACCT-ATTGTCT-GCCACTGG
190 CTCCAACCCT-GATTTTATCTCCAAAACA-CTAATT-TCTCACCACTGG
* * **
1453329 GGATACTCC-ACCCCATTATTTTTTAGGGGATACTCCAACCCCTATTTTACTTCTAAAATATCGA
1 GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCTATTTTA-TTCTAAAATATCGA
* * * * *
1453393 TTTTCCACCATCGGGGACACTCTAACCCCGTTATTTTCAATGGGATACTCTAACCCTTATTTTAT
65 TTTTCCACAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTC-AACCCTAATTTTAT
* * * * *
1453458 TTCTAAAATATCGACTTTTCACCAGT-GGGGATACTCCAACCC
129 TTCTAAAACATCAATTTTTCA-CAATCGGGGATACACCAACCC
1453500 CATTTTTATC
Statistics
Matches: 332, Mismatches: 61, Indels: 31
0.78 0.14 0.07
Matches are distributed among these distances:
235 10 0.03
236 230 0.69
237 84 0.25
238 8 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (235 bp):
GGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCTATTTTATTCTAAAATATCGAT
TTTCCACAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCAACCCTAATTTTATTT
CTAAAACATCAATTTTTCACAATCGGGGATACACCAACCCTATTATTTTCAAGAGGATACTCCAA
CCCTGATTTTATCTCCAAAACACTAATTTCTCACCACTGG
Found at i:1455492 original size:21 final size:22
Alignment explanation
Indices: 1455450--1455493 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1455440 TAATAGTAAA
* *
1455450 ATATTATTTTATAGTGATATTT
1 ATATTATTTTATAATGAAATTT
*
1455472 ATATT-TTTTATAATTAAATTT
1 ATATTATTTTATAATGAAATTT
1455493 A
1 A
1455494 AATAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
ATATTATTTTATAATGAAATTT
Found at i:1457519 original size:19 final size:20
Alignment explanation
Indices: 1457491--1457545 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
1457481 GTATCGATGT
* **
1457491 ATTGTTTCGATACATGTTC-
1 ATTGTATCGATACATGCACA
* *
1457510 ATTGTATCGATGCATACACA
1 ATTGTATCGATACATGCACA
1457530 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1457546 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:1457593 original size:13 final size:13
Alignment explanation
Indices: 1457575--1457599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1457565 TACCATTGTT
1457575 TGTATCGATACAA
1 TGTATCGATACAA
1457588 TGTATCGATACA
1 TGTATCGATACA
1457600 TGAATAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1467337 original size:42 final size:42
Alignment explanation
Indices: 1467278--1467359 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
1467268 AAAGAAAAAT
*
1467278 TAGCTTTTAAATACCTTTTTTATAATGCATTTTTAGGGTTTG
1 TAGCTTTTAAATACCTTTTTTATAATGCATTTTCAGGGTTTG
* **
1467320 TAGCTTTTAAATGCCTTTTTTATGGTGCATTTTCAGGGTT
1 TAGCTTTTAAATACCTTTTTTATAATGCATTTTCAGGGTT
1467360 CAAAAAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (42 bp):
TAGCTTTTAAATACCTTTTTTATAATGCATTTTCAGGGTTTG
Found at i:1467543 original size:16 final size:16
Alignment explanation
Indices: 1467522--1467554 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1467512 ATTTTGTGAG
*
1467522 TTTACCATTGTATATT
1 TTTACCATTGTACATT
1467538 TTTACCATTGTACATT
1 TTTACCATTGTACATT
1467554 T
1 T
1467555 GTCACCATGT
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:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTACCATTGTACATT
Found at i:1470954 original size:9 final size:9
Alignment explanation
Indices: 1470942--1470990 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
1470932 TTTTTCTCTT
1470942 TTTTTGTTG
1 TTTTTGTTG
*
1470951 TTTTTTTTG
1 TTTTTGTTG
1470960 TTTTTTGTTG
1 -TTTTTGTTG
1470970 TTTTT-TTG
1 TTTTTGTTG
1470978 TTTTTGTTG
1 TTTTTGTTG
1470987 TTTT
1 TTTT
1470991 CTTTTGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 8 0.22
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTTTGTTG
Found at i:1470963 original size:19 final size:19
Alignment explanation
Indices: 1470941--1470999 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
1470931 TTTTTTCTCT
1470941 TTTTTTGTTGTTTTTTTTG
1 TTTTTTGTTGTTTTTTTTG
1470960 TTTTTTGTTG-TTTTTTTG
1 TTTTTTGTTGTTTTTTTTG
1470978 -TTTTTGTTGTTTTCTTTTG
1 TTTTTTGTTGTTTT-TTTTG
1470997 TTT
1 TTT
1471000 AGAAAAACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.24
18 11 0.30
19 15 0.41
20 2 0.05
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (19 bp):
TTTTTTGTTGTTTTTTTTG
Found at i:1470973 original size:27 final size:27
Alignment explanation
Indices: 1470933--1470999 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
1470923 CTTTCTTCTT
*
1470933 TTTTCTCTTT-TTTTGTTGTTTTTTTTG
1 TTTTCT-TTTGTTTTGTTGTTTTTGTTG
*
1470960 TTTT-TTGTTGTTTTTTTGTTTTTGTTG
1 TTTTCTT-TTGTTTTGTTGTTTTTGTTG
1470987 TTTTCTTTTGTTT
1 TTTTCTTTTGTTT
1471000 AGAAAAACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 29 0.83
28 2 0.06
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.82
Consensus pattern (27 bp):
TTTTCTTTTGTTTTGTTGTTTTTGTTG
Found at i:1470996 original size:30 final size:30
Alignment explanation
Indices: 1470940--1470998 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1470930 CTTTTTTCTC
*
1470940 TTTTTTTGTTGTTTTTTTTGTTTTTTGTTG
1 TTTTTTTGTTGTTTTTTTTGTCTTTTGTTG
1470970 TTTTTTTGTT-TTTGTTGTTT-TCTTTTGTT
1 TTTTTTTGTTGTTT-TT-TTTGTCTTTTGTT
1470999 TAGAAAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 20 0.77
31 3 0.12
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (30 bp):
TTTTTTTGTTGTTTTTTTTGTCTTTTGTTG
Found at i:1483522 original size:79 final size:79
Alignment explanation
Indices: 1483377--1484047 Score: 656
Period size: 79 Copynumber: 8.5 Consensus size: 79
1483367 GATAAAGATG
* ** * * * * * *
1483377 GGGTTGGAGTATCCTTTCAAAAATAACG-GGCTAGAGTATCCCTGATTGTGAAAATTTGGTGTTT
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
1483441 TGGAAATAAAACCA
66 TGGAAATAAAACCA
*
1483455 GGGTTAGAGGATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
*
1483520 TGGAAATAAAACCG
66 TGGAAATAAAACCA
* * * * ** * * * *
1483534 GGGTTGGAGTATCCCCTCGAAAATAAAGAGATTGGAGTATCATCGATTGTGGAACA-TAGATATT
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAG-TGTT
** *
1483598 TTAAAAATAAAATCA
65 TTGGAAATAAAACCA
* * *
1483613 GGGTTAGAGTATCCTCTCAGAAATAAC-AGGGTTGGAGTATCCCTGATTATGAAAAATT-GATGT
1 GGGTTAGAGTATCCCCTCAAAAATAACGA-GGTTGGAGTATCCCCGATTATGAAAAATTAG-TGT
* * * *
1483676 TTCGAAAATATAACCG
64 TTTGGAAATAAAACCA
* ** * * * * * * *
1483692 GGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCTCGATTGTGATAAATTATTATTT
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
*
1483757 TGGAAATAAAACTA
66 TGGAAATAAAACCA
* * * *
1483771 GGGTTGGAGTATCCCTTCGAAAATAACG-GGTTGGAGTATCCCCGACTATGAAAAATTAGTGTTT
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
* *
1483835 TGAAAAT-AAACCG
66 TGGAAATAAAACCA
* * * * *
1483848 GGGTTAGAGTATCCCCTTAGAAATAAGGAGGTTGGGGTATCCCCGATTATGAAAAATTGGTGTTT
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
1483913 TGGAAATAAAACC-
66 TGGAAATAAAACCA
* * * * *
1483926 GAGGTTTGAGTATTCCCTCAGAAATAACG-GGATTGGAGTATCCCTGATTATGAAAAATTGGTGT
1 G-GGTTAGAGTATCCCCTCAAAAATAACGAGG-TTGGAGTATCCCCGATTATGAAAAATTAGTGT
* *
1483990 TTTGGAAACAAAATCA
64 TTTGGAAATAAAACCA
* *** *
1484006 GGGTTAGAGTTTTTTCTAAAAAATAACGAGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCC
1484048 TTGCGGAAAT
Statistics
Matches: 485, Mismatches: 96, Indels: 23
0.80 0.16 0.04
Matches are distributed among these distances:
77 26 0.05
78 106 0.22
79 349 0.72
80 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
GGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTT
TGGAAATAAAACCA
Found at i:1486674 original size:20 final size:20
Alignment explanation
Indices: 1486649--1486719 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
1486639 AAATGCCTGG
*
1486649 ATGTATCGATACATTGAAAA
1 ATGTATCGATACAATGAAAA
*
1486669 ATGTATCGATACAATGAATA
1 ATGTATCGATACAATGAAAA
* *
1486689 ATGTATTGATACAATGAACA
1 ATGTATCGATACAATGAAAA
*
1486709 ATGTATTGATA
1 ATGTATCGATA
1486720 TATCTGGGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAA
Found at i:1487487 original size:50 final size:47
Alignment explanation
Indices: 1487411--1487579 Score: 144
Period size: 50 Copynumber: 3.7 Consensus size: 47
1487401 TTTCACAATT
* * *
1487411 TGTATCGATACATTCTTCATTATATCGATACATTCTAGGTTTTACAAAGA
1 TGTATCGATACATTCTTTAATGTATCGATACATTCT-GGTTTTAC--AGA
1487461 TGTATCGATACATTCTTTAATGTATCGATACA-TC----TTT--A-A
1 TGTATCGATACATTCTTTAATGTATCGATACATTCTGGTTTTACAGA
*
1487500 TGTATCGATACA-TCTTTAATGTATCGATGCATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTCTTTAATGTATCGATACATTCT-GGTTTTA-C-AGA
*
1487549 TGTATTC-AAACATT-TCTTAATGTATCGATAC
1 TGTA-TCGATACATTCT-TTAATGTATCGATAC
1487580 TTTCAGGCAT
Statistics
Matches: 99, Mismatches: 6, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
38 18 0.18
39 15 0.15
40 1 0.01
44 6 0.06
48 1 0.01
49 12 0.12
50 46 0.46
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (47 bp):
TGTATCGATACATTCTTTAATGTATCGATACATTCTGGTTTTACAGA
Found at i:1487498 original size:19 final size:19
Alignment explanation
Indices: 1487460--1487527 Score: 127
Period size: 19 Copynumber: 3.5 Consensus size: 19
1487450 TTTTACAAAG
1487460 ATGTATCGATACATTCTTTA
1 ATGTATCGATACA-TCTTTA
1487480 ATGTATCGATACATCTTTA
1 ATGTATCGATACATCTTTA
1487499 ATGTATCGATACATCTTTA
1 ATGTATCGATACATCTTTA
1487518 ATGTATCGAT
1 ATGTATCGAT
1487528 GCATTCTGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 35 0.73
20 13 0.27
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATCTTTA
Found at i:1487534 original size:88 final size:89
Alignment explanation
Indices: 1487411--1487579 Score: 227
Period size: 88 Copynumber: 1.9 Consensus size: 89
1487401 TTTCACAATT
* *
1487411 TGTATCGATACATTCTTCATTATATCGATACATTCTAGGTTTTACAAAGATGTA-TCGATACA-T
1 TGTATCGATACATTCTTCAATATATCGATACATTCTAGGTTTTACAAAGATGTATTC-AAACATT
1487474 TCTTTAATGTATCGATACATCTTTAA
65 TC-TTAATGTATCGATACATCTTTAA
* * * * **
1487500 TGTATCGATACA-TCTTTAATGTATCGATGCATTCTGGGTTTTACCTAGATGTATTCAAACATTT
1 TGTATCGATACATTCTTCAATATATCGATACATTCTAGGTTTTACAAAGATGTATTCAAACATTT
1487564 CTTAATGTATCGATAC
66 CTTAATGTATCGATAC
1487580 TTTCAGGCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 53 0.76
89 17 0.24
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (89 bp):
TGTATCGATACATTCTTCAATATATCGATACATTCTAGGTTTTACAAAGATGTATTCAAACATTT
CTTAATGTATCGATACATCTTTAA
Found at i:1490009 original size:79 final size:78
Alignment explanation
Indices: 1489876--1490122 Score: 293
Period size: 79 Copynumber: 3.2 Consensus size: 78
1489866 CACCATCGGA
* ** * *
1489876 GATACGCCAACCCCATTATTTT-TTAGGATACTCTAACCCTGATTTTATTCCTAAAACACCGATT
1 GATACTCCAACCCCATTATTTTCGAAGGATACTCTAACCTTGATTTTATTTCTAAAACACCGATT
* **
1489940 TTTCATCATTGGG
66 TTCCATCATCAGG
* * *
1489953 GATACTCCAACCCCGTTA-TTTCTGAGAGGATACTCTAACCTTGGTTTTATTTCTAAAACATCGA
1 GATACTCCAACCCCATTATTTTC-GA-AGGATACTCTAACCTTGATTTTATTTCTAAAACACCGA
1490017 TTTTCCA-CAATCAGG
64 TTTTCCATC-ATCAGG
* * * *
1490032 GATACTCCAACCCTATTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGAT
1 GATACTCCAACCCCATTATTTTCGAA-GGATACTCTAACCTTGATTTTATTTCTAAAACACCGAT
*
1490097 TTTCCATGATCAGG
65 TTTCCATCATCAGG
1490111 GATACTCCAACC
1 GATACTCCAACC
1490123 TCGATTTTAT
Statistics
Matches: 144, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
76 3 0.02
77 16 0.11
78 2 0.01
79 119 0.83
80 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCCCATTATTTTCGAAGGATACTCTAACCTTGATTTTATTTCTAAAACACCGATT
TTCCATCATCAGG
Found at i:1490163 original size:50 final size:51
Alignment explanation
Indices: 1490057--1490172 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 51
1490047 TTATTTTCGA
**
1490057 AGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCATGATC
1 AGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCACCATC
* * *
1490108 AGGGATACTCCAACCTCGATTTTATTTC-CAAACA-TCGATTTTTCACCATT
1 AGGGATACTCCAACCTCGATTTTATTTCTAAAACACT-GATTTTCCACCATC
* *
1490158 GGGGATACTTCAACC
1 AGGGATACTCCAACC
1490173 CTGTTATTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 28 0.49
51 28 0.49
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (51 bp):
AGGGATACTCCAACCTCGATTTTATTTCTAAAACACTGATTTTCCACCATC
Found at i:1495655 original size:13 final size:13
Alignment explanation
Indices: 1495637--1495662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1495627 TACAGCAAGT
1495637 ATGTATCGATACA
1 ATGTATCGATACA
1495650 ATGTATCGATACA
1 ATGTATCGATACA
1495663 TTGGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1499728 original size:15 final size:15
Alignment explanation
Indices: 1499708--1499738 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1499698 TAAAAATGTC
*
1499708 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1499723 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1499738 C
1 C
1499739 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1501987 original size:21 final size:21
Alignment explanation
Indices: 1501963--1502009 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1501953 AAATCTTTTG
1501963 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
1501984 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
1502004 CAAAAT
1 CAAAAT
1502010 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:1502006 original size:20 final size:19
Alignment explanation
Indices: 1501965--1502007 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1501955 ATCTTTTGCA
1501965 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1501985 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1502005 AAA
1 AAA
1502008 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1504402 original size:13 final size:13
Alignment explanation
Indices: 1504384--1504409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1504374 TACAGCAAGT
1504384 ATGTATCGATACA
1 ATGTATCGATACA
1504397 ATGTATCGATACA
1 ATGTATCGATACA
1504410 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1507861 original size:61 final size:60
Alignment explanation
Indices: 1507759--1508076 Score: 370
Period size: 61 Copynumber: 5.3 Consensus size: 60
1507749 TCTTTTTCAA
*
1507759 TCCTCAAAGAGTAGGACGTCTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGTAGGACG-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* * ** *
1507820 TCTTTAAAGAGTAGGGTGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGTAGGACG-CTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
** * * * *
1507881 TCCTCAAAGAGCGGGACATCTTTTCCTTTTAATGCCCACACAAGTTGGTGGCACCTTACAG
1 TCCTCAAAGAGTAGGAC-GCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
** * *
1507942 TCCTCAAAGAGTAAAACGC-TTTC-TTTCAAAGCCCACACAAATTGGTGGCACCTTCCAG
1 TCCTCAAAGAGTAGGACGCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* * ** * *
1508000 TCTTCAAAGAGCAGGACGCTTTCTCTTTGCAAAGCCCACATAAGTTGGTGGCACCTTCTAG
1 TCCTCAAAGAGTAGGACGCTTT-TCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
* *
1508061 TCCCCAAAGAGCAGGA
1 TCCTCAAAGAGTAGGA
1508077 TACTTTTTTT
Statistics
Matches: 217, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
58 46 0.21
59 6 0.03
60 3 0.01
61 162 0.75
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TCCTCAAAGAGTAGGACGCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAG
Found at i:1508037 original size:119 final size:119
Alignment explanation
Indices: 1507759--1508071 Score: 362
Period size: 119 Copynumber: 2.6 Consensus size: 119
1507749 TCTTTTTCAA
* * *
1507759 TCCTCAAAGAGTAGGACGTCTTTTCTTTTTAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCTT
1 TCCTCAAAGAGCAGGACG-CTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCT
* **** * * *
1507824 TAAAGAGTAGGGTGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
63 CAAAGAGTAAAACGCCTTTTCTTTTCAAAGCCCACACAAATTGGTGGCACCTTCCAG
* * *
1507881 TCCTCAAAGAGCGGGACATCTTTTCCTTTTAATGCCCACACAAGTTGGTGGCACCTTACAGTCCT
1 TCCTCAAAGAGCAGGAC-GCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCT
1507946 CAAAGAGTAAAACG-C-TTTC-TTTCAAAGCCCACACAAATTGGTGGCACCTTCCAG
63 CAAAGAGTAAAACGCCTTTTCTTTTCAAAGCCCACACAAATTGGTGGCACCTTCCAG
* * * *
1508000 TCTTCAAAGAGCAGGACGCTTTCTCTTTGCAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCC
1 TCCTCAAAGAGCAGGACGCTTT-TCTTT-TAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCT
1508065 CAAAGAG
63 CAAAGAG
1508072 CAGGATACTT
Statistics
Matches: 164, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
118 9 0.05
119 85 0.52
120 4 0.02
121 1 0.01
122 64 0.39
123 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (119 bp):
TCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
AGAGTAAAACGCCTTTTCTTTTCAAAGCCCACACAAATTGGTGGCACCTTCCAG
Found at i:1508764 original size:50 final size:50
Alignment explanation
Indices: 1508673--1508783 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
1508663 TTTCACAATT
* * * *
1508673 TGTATCGATGCATTCTAGGTTTTACCTAGATGTATCGATACATTGAAT-AA
1 TGTATCGATACATTCTAGGTTTTACCCAAATCTATCGATACATT-AATCAA
* **
1508723 TGTATCGATACATTCTGGGTTTTACCCAAATCTATTC-ATACATTTCTCAA
1 TGTATCGATACATTCTAGGTTTTACCCAAATCTA-TCGATACATTAATCAA
1508773 TGTATCGATAC
1 TGTATCGATAC
1508784 TTTCACACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.02
50 49 0.94
51 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (50 bp):
TGTATCGATACATTCTAGGTTTTACCCAAATCTATCGATACATTAATCAA
Found at i:1511237 original size:107 final size:107
Alignment explanation
Indices: 1511107--1511334 Score: 323
Period size: 107 Copynumber: 2.1 Consensus size: 107
1511097 TCACTATCAG
* * *
1511107 GGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTTCAACACATCAA
1 GGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* * *
1511172 TTTCCCATAATCGGGGATACTCTAACCCTATTATTTTTGAGA
66 TTTCCCACAATCGGGGATACTCCAACCCTATTATTTCTGAGA
* * * *
1511214 GGATACTCCAA-TCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCG
1 GGATACTCCAACCCT-GTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
* * *
1511278 ATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGG
65 ATTTCCCACAATCGGGGATACTCCAACCCTATTATTTCTGAGA
1511321 GGATACTCCAACCC
1 GGATACTCCAACCC
1511335 CGGTTTTATT
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
106 2 0.02
107 102 0.97
108 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (107 bp):
GGATACTCCAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
TTTCCCACAATCGGGGATACTCCAACCCTATTATTTCTGAGA
Found at i:1511261 original size:26 final size:27
Alignment explanation
Indices: 1511203--1511262 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
1511193 CTAACCCTAT
* * *
1511203 TATTTTTGAGAGGATACTCCAATCTCG
1 TATTTTCGAGAGGATACTCCAACCCCG
*
1511230 TTATTTTCGAGGGGATACTCCAACCCCG
1 -TATTTTCGAGAGGATACTCCAACCCCG
1511258 -ATTTT
1 TATTTT
1511263 ATTTCCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.18
28 23 0.82
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (27 bp):
TATTTTCGAGAGGATACTCCAACCCCG
Found at i:1511297 original size:79 final size:78
Alignment explanation
Indices: 1511214--1511613 Score: 455
Period size: 79 Copynumber: 5.1 Consensus size: 78
1511204 ATTTTTGAGA
* *
1511214 GGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCGA
1 GGATACTCCAA-CTCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCGA
*
1511279 TTTTCCACAATCGG
65 TTTTTCACAATCGG
* * * **
1511293 GGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACA-TA
1 GGATACTCCAACTC-GTTATTTTC-GAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCG
**
1511356 ATTTTTCACAATCAA
64 ATTTTTCACAATCGG
* * * * *
1511371 GGATACTCCAACCCTGTTATTTTCAAAGGGATACTCCAACCCTGATTTTATTTCTAAAACATCGA
1 GGATACTCCAACTC-GTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCGA
* *
1511436 TTTTTCACCATTGG
65 TTTTTCACAATCGG
* * * * * *
1511450 GGATATTCCAACCTCGTTATTTTTGAAGGGATACACCAACCCTGATTTTATTTTCAAAACATCGA
1 GGATACTCCAA-CTCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCGA
*
1511515 TTTTTCACAATTGG
65 TTTTTCACAATCGG
* *
1511529 GGATACTCCAATCTCGTTA-TTTCTGAGGGGATACTCCAACCCTAATTTTATTTTCAAAACACCG
1 GGATACTCCAA-CTCGTTATTTTC-GAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCG
* * *
1511593 ATTTTTTATAATCCG
64 ATTTTTCACAATCGG
1511608 GGATAC
1 GGATAC
1511614 ACTAATCCCA
Statistics
Matches: 277, Mismatches: 38, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
78 72 0.26
79 203 0.73
80 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACTCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCGAT
TTTTCACAATCGG
Found at i:1511393 original size:157 final size:158
Alignment explanation
Indices: 1511213--1511597 Score: 508
Period size: 157 Copynumber: 2.4 Consensus size: 158
1511203 TATTTTTGAG
* *
1511213 AGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCG
1 AGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCG
* * *
1511278 ATTTTCCACAATCGGGGATACTCCAACC-CTGTTATTTCTGAGGGGATACTCCAACCCCGGTTTT
66 ATTTTCCACAATCGGGGATACTCCAACCTC-GTTATTTCTGAAGGGATACACCAACCCCGATTTT
1511342 ATTTCCAAAACAT-AATTTTTCACAATCA
130 ATTTCCAAAACATCAATTTTTCACAATCA
* * * * *
1511370 AGGATACTCCAA-CCCTGTTATTTTCAAAGGGATACTCCAACCCTGATTTTATTTCTAAAACATC
1 AGGATACTCCAATCTC-GTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACC
* * * * * *
1511434 GATTTTTCACCATTGGGGATATTCCAACCTCGTTATTTTTGAAGGGATACACCAACCCTGATTTT
65 GATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTCTGAAGGGATACACCAACCCCGATTTT
* * **
1511499 ATTTTCAAAACATCGATTTTTCACAATTG
130 ATTTCCAAAACATCAATTTTTCACAATCA
* * *
1511528 GGGATACTCCAATCTCGTTA-TTTCTGAGGGGATACTCCAACCCTAATTTTATTTTCAAAACACC
1 AGGATACTCCAATCTCGTTATTTTC-GAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACC
1511592 GATTTT
65 GATTTT
1511598 TTATAATCCG
Statistics
Matches: 195, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
156 2 0.01
157 124 0.64
158 67 0.34
159 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (158 bp):
AGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCG
ATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTCTGAAGGGATACACCAACCCCGATTTTA
TTTCCAAAACATCAATTTTTCACAATCA
Found at i:1511636 original size:127 final size:127
Alignment explanation
Indices: 1511497--1511760 Score: 318
Period size: 127 Copynumber: 2.1 Consensus size: 127
1511487 AACCCTGATT
* * * * * *
1511497 TTATTTTCAAAACATCGATT-TTTCACAATTGGGGATACTCCAATCTCGTTATTTCTGAGGGGAT
1 TTATTTTCAAAACACCCATTGTCT-ACAACTAGGGATACTCCAACCTCGTTATTTCTGAGGGGAT
* * * * *
1511561 ACTCCAA-CCCTAATTTTA-TTTTCAAAACACCGATTTTTTATAATCCGGGATACACTAATCCCA
65 ACTCCAACCCCT-ATTTTACTTCT-AAAACACCGATTTTTCACAATCCGGGACACACTAACCCCA
* *
1511624 TTATTTTCAAAACACCCATTGTCTACCACTAGGGATACTCCAACCTCGTTATTTTTGAGGGGATA
1 TTATTTTCAAAACACCCATTGTCTACAACTAGGGATACTCCAACCTCGTTATTTCTGAGGGGATA
* * * * *
1511689 CTCCAACCCCTGTTTTACTTCTAAAACATCGATTTTTCACCATCGGGGACACTCTAACCCCA
66 CTCCAACCCCTATTTTACTTCTAAAACACCGATTTTTCACAATCCGGGACACACTAACCCCA
1511751 TTATTTTCAA
1 TTATTTTCAA
1511761 GGGGATACTC
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
127 107 0.92
128 9 0.08
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (127 bp):
TTATTTTCAAAACACCCATTGTCTACAACTAGGGATACTCCAACCTCGTTATTTCTGAGGGGATA
CTCCAACCCCTATTTTACTTCTAAAACACCGATTTTTCACAATCCGGGACACACTAACCCCA
Found at i:1511755 original size:79 final size:79
Alignment explanation
Indices: 1511660--1511831 Score: 209
Period size: 79 Copynumber: 2.2 Consensus size: 79
1511650 CACTAGGGAT
* * ** * *
1511660 ACTCCAACCTCGTTATTTTTGAGGGGATACTCCAACCCCTGTTTTACTTCTAAAACATCGATTTT
1 ACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCTATTTTACTTCTAAAACATCGACTTT
* *
1511725 TCACCATCGGGGAC
66 TAACCATCGGAGAC
* ** * * *
1511739 ACTCTAACCCCATTATTTTCAAGGGGATACTCTGACCTCTATTTTATTTCTAAAATATCGACTTT
1 ACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCTATTTTACTTCTAAAACATCGACTTT
*
1511804 TAACCATCGGAGAT
66 TAACCATCGGAGAC
1511818 ACTCCAACCCCATT
1 ACTCCAACCCCATT
1511832 TTATCTCCAA
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (79 bp):
ACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCTATTTTACTTCTAAAACATCGACTTT
TAACCATCGGAGAC
Found at i:1513851 original size:21 final size:22
Alignment explanation
Indices: 1513809--1513851 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
1513799 TAATAGTAAA
* *
1513809 ATATTATTTTATAGTGATATTT
1 ATATTATTTTATAATGAAATTT
*
1513831 ATATT-TTTTATAATTAAATTT
1 ATATTATTTTATAATGAAATTT
1513852 TGAAAGCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
ATATTATTTTATAATGAAATTT
Found at i:1514621 original size:13 final size:13
Alignment explanation
Indices: 1514603--1514628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1514593 CAATTTTTTG
1514603 TGTATCGATACAT
1 TGTATCGATACAT
1514616 TGTATCGATACAT
1 TGTATCGATACAT
1514629 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1517186 original size:13 final size:13
Alignment explanation
Indices: 1517164--1517228 Score: 103
Period size: 13 Copynumber: 5.0 Consensus size: 13
1517154 ATAATCACCC
* *
1517164 TGTATTGATACAG
1 TGTATCGATACAA
1517177 TGTATCGATACAA
1 TGTATCGATACAA
*
1517190 TGTATCGATACAG
1 TGTATCGATACAA
1517203 TGTATCGATACAA
1 TGTATCGATACAA
1517216 TGTATCGATACAA
1 TGTATCGATACAA
1517229 AGAAAAATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1517193 original size:26 final size:26
Alignment explanation
Indices: 1517164--1517227 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
1517154 ATAATCACCC
*
1517164 TGTATTGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
1517190 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
1517216 TGTATCGATACA
1 TGTATCGATACA
1517228 AAGAAAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:1517239 original size:20 final size:20
Alignment explanation
Indices: 1517214--1517252 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1517204 GTATCGATAC
1517214 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1517234 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
1517253 TTTCCAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1519327 original size:15 final size:15
Alignment explanation
Indices: 1519307--1519337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1519297 ATTTCGTTTG
*
1519307 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1519322 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1519337 G
1 G
1519338 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1523418 original size:13 final size:13
Alignment explanation
Indices: 1523400--1523425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1523390 CAATTTTTTG
1523400 TGTATCGATACAT
1 TGTATCGATACAT
1523413 TGTATCGATACAT
1 TGTATCGATACAT
1523426 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1527128 original size:33 final size:33
Alignment explanation
Indices: 1527091--1527160 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1527081 TTCAACGATT
1527091 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1527124 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1527157 TGTA
1 TGTA
1527161 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1527129 original size:13 final size:13
Alignment explanation
Indices: 1527111--1527135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1527101 CATAAAATGT
1527111 TGTATCGATACAA
1 TGTATCGATACAA
1527124 TGTATCGATACA
1 TGTATCGATACA
1527136 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1527361 original size:52 final size:52
Alignment explanation
Indices: 1527233--1527353 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1527223 CACTGATCTT
*
1527233 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1527285 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1527337 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1527354 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1534484 original size:18 final size:18
Alignment explanation
Indices: 1534448--1534497 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1534438 TAATCTTCAC
*
1534448 AAAAAAAAGATACAA-AAA
1 AAAAAAAAGA-AAAATAAA
* *
1534466 AAAATAAATAAAAATAAA
1 AAAAAAAAGAAAAATAAA
1534484 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
1534498 CCCCTTTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.86, C:0.02, G:0.04, T:0.08
Consensus pattern (18 bp):
AAAAAAAAGAAAAATAAA
Found at i:1534490 original size:12 final size:12
Alignment explanation
Indices: 1534448--1534497 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
1534438 TAATCTTCAC
*
1534448 AAAAAAAAGATA
1 AAAAAAAAAATA
*
1534460 CAAAAAAAAAT-
1 AAAAAAAAAATA
*
1534471 -AAATAAAAATA
1 AAAAAAAAAATA
*
1534482 AAAAAAAAAAGA
1 AAAAAAAAAATA
1534494 AAAA
1 AAAA
1534498 CCCCTTTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 9 0.29
12 22 0.71
ACGTcount: A:0.86, C:0.02, G:0.04, T:0.08
Consensus pattern (12 bp):
AAAAAAAAAATA
Found at i:1535473 original size:30 final size:31
Alignment explanation
Indices: 1535436--1535520 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 31
1535426 CAAATACCTT
1535436 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
*
1535467 -TCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
1535497 TTTAAAGCCCACAACTCCGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
1535521 CCCTTTTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:1535535 original size:27 final size:27
Alignment explanation
Indices: 1535496--1535587 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
1535486 GGCATTTTTT
* *
1535496 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGCCCACAACTACGTGGCACC
* *
1535523 CTTTTAAGTCCACGACTACGTGGCACTCTTTTC
1 CTTTTAAGCCCACAACTACGTGGCA--C----C
* *
1535556 CTTTAAAGCCCACAACTACGTGGCACT
1 CTTTTAAGCCCACAACTACGTGGCACC
1535583 CTTTT
1 CTTTT
1535588 CCTTCTAAGC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
27 25 0.50
29 1 0.02
31 1 0.02
33 23 0.46
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGCCCACAACTACGTGGCACC
Found at i:1535574 original size:33 final size:32
Alignment explanation
Indices: 1535474--1535756 Score: 278
Period size: 34 Copynumber: 8.7 Consensus size: 32
1535464 GTCTCAAAGT
* * *
1535474 CCACGACTCAGTGGCA-T-TTTTTCTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTT-AAGC
* *
1535505 CCACAACTCCGTGGCAC-C----CTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTCCTTTAAGC
* *
1535532 CCACGACTACGTGGCACTCTTTTCCTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTTT-AAGC
*
1535565 CCACAACTACGTGGCACTCTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTCTTTTCCTT-TAAGC
1535598 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTC-TTTTCCTT-TAAGC
1535632 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACTC-TTTTCCTT-TAAGC
1535666 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGC
1 CCACAACTCCGTGGCACTC--TTTT-CC-TTT-AAGC
* *
1535703 CCACAACTCCGTGGCAC-CTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTT-TTC-CTTTAAGC
*
1535736 CCACAACTTCGTGGCA-TCTTT
1 CCACAACTCCGTGGCACTCTTT
1535757 CACCCTTTCT
Statistics
Matches: 221, Mismatches: 14, Indels: 33
0.82 0.05 0.12
Matches are distributed among these distances:
27 18 0.08
28 4 0.02
31 14 0.06
32 5 0.02
33 72 0.33
34 74 0.33
35 7 0.03
36 4 0.02
37 23 0.10
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (32 bp):
CCACAACTCCGTGGCACTCTTTTCCTTTAAGC
Found at i:1535627 original size:34 final size:34
Alignment explanation
Indices: 1535522--1535756 Score: 300
Period size: 33 Copynumber: 6.9 Consensus size: 34
1535512 TCCGTGGCAC
* * * *
1535522 CCTTTTAAGTCCACGACTACGTGGCACTC-TTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
*
1535555 CCTT-TAAAGCCCACAACTACGTGGCACTC-TTTT
1 CCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTT
1535588 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1535622 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1535656 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTC-TTTTT
* *
1535691 CCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT
1 -CCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
1535726 CTTTTTAAGTCCACAACTTCGTGGCA-TCTTT
1 CCTTCTAAGCCCACAACTCCGTGGCACTCTTT
1535757 CACCCTTTCT
Statistics
Matches: 186, Mismatches: 9, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
32 1 0.01
33 76 0.41
34 73 0.39
35 9 0.05
36 6 0.03
37 21 0.11
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (34 bp):
CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:1535795 original size:33 final size:32
Alignment explanation
Indices: 1535758--1535969 Score: 286
Period size: 33 Copynumber: 6.5 Consensus size: 32
1535748 GGCATCTTTC
1535758 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGC-A
1535791 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCA
*
1535824 A-CCTTCCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTT--TCTAAAGCCCACACAAGTCGGTGGCA
* *
1535857 ATCCCTTCCCAAAGCCCACACAAGTCGGTGGCA
1 A-CCCTTTCTAAAGCCCACACAAGTCGGTGGCA
* * *
1535890 ACCCTTCCCAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
*
1535922 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCA
1535955 ACCC-TTCT-AAGCCCA
1 ACCCTTTCTAAAGCCCA
1535970 ATATAGCTGG
Statistics
Matches: 164, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
30 7 0.04
31 3 0.02
32 40 0.24
33 85 0.52
34 25 0.15
35 4 0.02
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.18
Consensus pattern (32 bp):
ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1535932 original size:98 final size:99
Alignment explanation
Indices: 1535758--1535961 Score: 324
Period size: 98 Copynumber: 2.1 Consensus size: 99
1535748 GGCATCTTTC
* * *
1535758 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGGC
*
1535823 AACCTTCCTCTAAAGCCCACACAAGTTGGTGGCA
66 AACCTTCCTCTAAAGCCCACACAAGTCGGTGGCA
*
1535857 ATCCCTTCCCAAAGCCCACACAAGTCGGTGGC-AACCCTTC-CCAAAGCCCACACAAGTTGGTGG
1 A-CCCTTCCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGG
1535920 CAACCATT-CTCTAAAGCCCACACAAGTCGGTGGCA
65 CAACC-TTCCTCTAAAGCCCACACAAGTCGGTGGCA
1535955 ACCCTTC
1 ACCCTTC
1535962 TAAGCCCAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
97 6 0.06
98 53 0.54
99 11 0.11
100 28 0.29
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.18
Consensus pattern (99 bp):
ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGGC
AACCTTCCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1535936 original size:65 final size:65
Alignment explanation
Indices: 1535758--1535961 Score: 313
Period size: 65 Copynumber: 3.1 Consensus size: 65
1535748 GGCATCTTTC
* * *
1535758 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCCCAAAGCCCACACAAGTTGGTGGC-AACCCTTCTCTAAAGCCCACACAAGTCGGTGGC
1535823 A
65 A
*
1535824 A-CCTTCCTCTAAAGCCCACACAAGTTGGTGGCAATCCCTTC-CCAAAGCCCACACAAGTCGGTG
1 ACCCTTCC-C-AAAGCCCACACAAGTTGGTGGCAA-CCCTTCTCTAAAGCCCACACAAGTCGGTG
1535887 GCA
63 GCA
*
1535890 ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1535955 ACCCTTC
1 ACCCTTC
1535962 TAAGCCCAAT
Statistics
Matches: 127, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
64 5 0.04
65 60 0.47
66 29 0.23
67 33 0.26
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.18
Consensus pattern (65 bp):
ACCCTTCCCAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1536020 original size:49 final size:49
Alignment explanation
Indices: 1535962--1536583 Score: 812
Period size: 49 Copynumber: 12.7 Consensus size: 49
1535952 GCAACCCTTC
* * *
1535962 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1536011 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAGC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1536059 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1536102 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * *
1536154 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1536203 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1536252 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1536301 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1536350 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* *
1536399 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1536447 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1536496 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
** *
1536548 TAAGTTTAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1536584 ACATCCTTTT
Statistics
Matches: 498, Mismatches: 60, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
43 40 0.08
45 1 0.00
48 84 0.17
49 290 0.58
50 3 0.01
51 2 0.00
52 78 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1536052 original size:26 final size:26
Alignment explanation
Indices: 1536023--1536097 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
1536013 AGTCCAATAT
1536023 AGCTGGCCTTGAATCAGCACATTGGC
1 AGCTGGCCTTGAATCAGCACATTGGC
** * *
1536049 AGCTCACCTTTAAGTC--CA-A-T-GT
1 AGCTGGCCTTGAA-TCAGCACATTGGC
1536071 AGCTGGCCTTGAATCAGCACATTGGC
1 AGCTGGCCTTGAATCAGCACATTGGC
1536097 A
1 A
1536098 CCTTTAAGTC
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
21 2 0.06
22 11 0.31
23 3 0.09
24 2 0.06
25 3 0.09
26 12 0.34
27 2 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (26 bp):
AGCTGGCCTTGAATCAGCACATTGGC
Found at i:1536290 original size:98 final size:98
Alignment explanation
Indices: 1535962--1536583 Score: 938
Period size: 98 Copynumber: 6.4 Consensus size: 98
1535952 GCAACCCTTC
* * * * * * *
1535962 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * * *
1536027 GGCCTTGAATCAGCACATTGGCAGC-TCACCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
1536059 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1536118 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
*
1536154 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1536219 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
1536252 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
1536317 GGCCTTGAATCAGCATATTGGCACTTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
1536350 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT-CACCATTAAGTCCAATATAGC
1536413 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
1536447 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
1536512 GGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
66 GGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
** *
1536548 TAAGTTTAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
1536584 ACATCCTTTT
Statistics
Matches: 490, Mismatches: 19, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
91 40 0.08
93 1 0.00
95 44 0.09
96 2 0.00
97 130 0.27
98 188 0.38
99 3 0.01
100 3 0.01
101 79 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:1536460 original size:195 final size:196
Alignment explanation
Indices: 1535962--1536583 Score: 965
Period size: 195 Copynumber: 3.2 Consensus size: 196
1535952 GCAACCCTTC
* * * * * *
1535962 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * * * *
1536027 GGCCTTGAATCAGCACATTGGCAGC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
1536091 ATTGGCACC-T---TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
131 ATTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATC
1536152 TT
195 TT
* *
1536154 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1536219 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
1536284 ATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTT-AT
131 ATTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCAT
1536347 CTT
194 CTT
*
1536350 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCATTAAGTCC-ATATAGC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-CACCATTAAGTCCAATATAGC
1536413 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
65 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
*
1536478 CATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
130 CATTGGCACCTTCA-C-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-C
1536543 ATCTT
192 ATCTT
**
1536548 TAAGTTTAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1536584 ACATCCTTTT
Statistics
Matches: 399, Mismatches: 20, Indels: 16
0.92 0.05 0.04
Matches are distributed among these distances:
192 80 0.20
193 45 0.11
194 1 0.00
195 129 0.32
196 61 0.15
198 43 0.11
199 40 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (196 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
ATTGGCACCTTCACTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCT
T
Found at i:1537541 original size:33 final size:33
Alignment explanation
Indices: 1537504--1537573 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1537494 TTCAACGATT
1537504 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1537537 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1537570 TGTA
1 TGTA
1537574 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1537542 original size:13 final size:13
Alignment explanation
Indices: 1537524--1537548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1537514 CATAAAATGT
1537524 TGTATCGATACAA
1 TGTATCGATACAA
1537537 TGTATCGATACA
1 TGTATCGATACA
1537549 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1537775 original size:52 final size:52
Alignment explanation
Indices: 1537647--1537767 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1537637 CACTGATCTT
* *
1537647 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1537699 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1537751 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1537768 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1540901 original size:13 final size:11
Alignment explanation
Indices: 1540883--1540937 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 11
1540873 GACCTTTTTC
1540883 TTTTTTTTTGCT
1 TTTTTTTTTG-T
*
1540895 ATTTTTTCTTGGTT
1 -TTTTTT-TTTG-T
1540909 TTTTTGTTTTGT
1 TTTTT-TTTTGT
1540921 TTTTTTTTTGT
1 TTTTTTTTTGT
1540932 TTTTTT
1 TTTTTT
1540938 ATAAAGGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 12 0.32
12 6 0.16
13 14 0.38
14 5 0.14
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:1554888 original size:20 final size:20
Alignment explanation
Indices: 1554841--1554915 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
1554831 AAAAAGACAT
*
1554841 AATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
*
1554860 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1554881 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
1554901 AATGTATTGATACAT
1 AATGTATCGATACAT
1554916 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 43 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1554898 original size:40 final size:39
Alignment explanation
Indices: 1554838--1554915 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1554828 GGTAAAAAGA
*
1554838 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
1554877 CATACATGTATCGATATATTGAAAAATGTATTGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1554916 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1567226 original size:22 final size:20
Alignment explanation
Indices: 1567177--1567229 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 20
1567167 AAAAAGCTAG
1567177 AATGTATCGATACAATGATA
1 AATGTATCGATACAATGATA
*
1567197 AATGTATCGATACAATTATA
1 AATGTATCGATACAATGATA
1567217 AGTATGTATCGAT
1 A--ATGTATCGAT
1567230 CCATTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 20 0.67
22 10 0.33
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACAATGATA
Found at i:1567305 original size:21 final size:21
Alignment explanation
Indices: 1567279--1567356 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
1567269 AAGGTAGTTT
1567279 TGTATCGATACATTTTAGGCA
1 TGTATCGATACATTTTAGGCA
1567300 TGTATCGATACA-TTTA--CTA
1 TGTATCGATACATTTTAGGC-A
**
1567319 TTTGTATCGATACATTAAAGGCA
1 --TGTATCGATACATTTTAGGCA
**
1567342 CATATCGATACATTT
1 TGTATCGATACATTT
1567357 CGACAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 4 0.09
21 36 0.78
22 2 0.04
23 1 0.02
24 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTTAGGCA
Found at i:1567326 original size:42 final size:42
Alignment explanation
Indices: 1567277--1567356 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
1567267 GCAAGGTAGT
** **
1567277 TTTGTATCGATACATTTTAGGCATGTATCGATACATTTACTA
1 TTTGTATCGATACATTAAAGGCACATATCGATACATTTACTA
1567319 TTTGTATCGATACATTAAAGGCACATATCGATACATTT
1 TTTGTATCGATACATTAAAGGCACATATCGATACATTT
1567357 CGACAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (42 bp):
TTTGTATCGATACATTAAAGGCACATATCGATACATTTACTA
Found at i:1572160 original size:26 final size:26
Alignment explanation
Indices: 1572131--1572185 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1572121 CCATTTTATT
* *
1572131 AAAAAGAAACAATCACCTTTCTTGTC
1 AAAAACAAACAATCACATTTCTTGTC
* * *
1572157 AAAATCTAACTATCACATTTCTTGTC
1 AAAAACAAACAATCACATTTCTTGTC
1572183 AAA
1 AAA
1572186 CACCCCTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAAACAAACAATCACATTTCTTGTC
Found at i:1572955 original size:29 final size:29
Alignment explanation
Indices: 1572898--1572954 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1572888 TTCCTTCTCC
*
1572898 AAAGTCCATGCCCTAGTGGCACCTCTTTT
1 AAAGTCCATGACCTAGTGGCACCTCTTTT
* *
1572927 AAAGTCCATGACTTTGTGGCACC-CTTTT
1 AAAGTCCATGACCTAGTGGCACCTCTTTT
1572955 TTTATGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (29 bp):
AAAGTCCATGACCTAGTGGCACCTCTTTT
Found at i:1573056 original size:30 final size:30
Alignment explanation
Indices: 1572858--1573124 Score: 132
Period size: 30 Copynumber: 8.8 Consensus size: 30
1572848 CAAATCTTTT
* * *
1572858 TCCTCTTTCATAGTCCAAGACTCAGTGGCA
1 TCCTTTTTCAAAGTCCATGACTCAGTGGCA
* * *
1572888 TTCCTTCTCCAAAGTCCATG-CCCTAGTGGCA
1 -TCCTTTTTCAAAGTCCATGACTC-AGTGGCA
**
1572919 -CCTCTTTT-AAAGTCCATGACTTTGTGGCA
1 TCCT-TTTTCAAAGTCCATGACTCAGTGGCA
* ** * * **
1572948 CCCTTTTTTTATGCCCACAACTCA-TGGCA
1 TCCTTTTTCAAAGTCCATGACTCAGTGGCA
* * * *
1572977 TCTCTTTTT-AAATTCCATAACTCCGTGACA
1 TC-CTTTTTCAAAGTCCATGACTCAGTGGCA
* *
1573007 CCCTTTCCCTTTTCTAAGTCCATGACTCAGTGGCA
1 -----TCCTTTTTCAAAGTCCATGACTCAGTGGCA
** *
1573042 TCCTTTTTCAAAGTCCACAACTAAGTGGCA
1 TCCTTTTTCAAAGTCCATGACTCAGTGGCA
* * * * *
1573072 TCCCTTCTCAAAGTCCATTACTCAATGGCG
1 TCCTTTTTCAAAGTCCATGACTCAGTGGCA
*
1573102 TCCTTCTTT-AAAGTCCACGACTC
1 TCCTT-TTTCAAAGTCCATGACTC
1573125 CAAGTCCACA
Statistics
Matches: 174, Mismatches: 48, Indels: 29
0.69 0.19 0.12
Matches are distributed among these distances:
29 38 0.22
30 90 0.52
31 23 0.13
34 5 0.03
35 18 0.10
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.33
Consensus pattern (30 bp):
TCCTTTTTCAAAGTCCATGACTCAGTGGCA
Found at i:1573173 original size:74 final size:74
Alignment explanation
Indices: 1573052--1573199 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
1573042 TCCTTTTTCA
*
1573052 AAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTCCATTACTCAATGGCGTCCTTCTTTAAAGTC
1 AAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTCCATTACTCAATGGCATCCTTCTTTAAAGTC
1573117 CACGACTCC
66 CACGACTCC
* *
1573126 AAGTCCACAACTCAGTGGCATCCTTTCTCAAAGTCCATTACTCAATGGCATCCTTCTTTAAAGTC
1 AAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTCCATTACTCAATGGCATCCTTCTTTAAAGTC
1573191 CACGACTCC
66 CACGACTCC
1573200 GTGGCAACCT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (74 bp):
AAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTCCATTACTCAATGGCATCCTTCTTTAAAGTC
CACGACTCC
Found at i:1573230 original size:104 final size:104
Alignment explanation
Indices: 1573022--1573210 Score: 229
Period size: 104 Copynumber: 1.8 Consensus size: 104
1573012 TCCCTTTTCT
** *
1573022 AAGTCCATGACTCAGTGGCATCCTTTTTCAAAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTC
1 AAGTCCACAACTCAGTGGCATCCTTTCTCAAAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTC
** ** *
1573087 CATTACTCAATGGCGTCCTTCTTTAAAGTCCACGACTCC
66 CACGACTCAATGGCAACCTTCTTTAAAGTCCACAACTCC
** *
1573126 AAGTCCACAACTCAGTGGCATCCTTTCTCAAAGTCCATTACTCAA-TGGCAT-CCTTCTTTAAAG
1 AAGTCCACAACTCAGTGGCATCCTTTCTCAAAGTCCACAACT-AAGTGGCATCCCTTC-TCAAAG
**
1573189 TCCACGACTCCGTGGCAACCTT
64 TCCACGACTCAATGGCAACCTT
1573211 TTTTTAAGCC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
103 5 0.07
104 64 0.90
105 2 0.03
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (104 bp):
AAGTCCACAACTCAGTGGCATCCTTTCTCAAAGTCCACAACTAAGTGGCATCCCTTCTCAAAGTC
CACGACTCAATGGCAACCTTCTTTAAAGTCCACAACTCC
Found at i:1573294 original size:59 final size:60
Alignment explanation
Indices: 1573126--1573313 Score: 163
Period size: 60 Copynumber: 3.1 Consensus size: 60
1573116 CCACGACTCC
* * * ** * * *
1573126 AAGTCCACAACTCAGTGGCATCCTTTCTCAAAGTCC-ATTACTCAATGGCATCCTTCTTTA
1 AAGTCCACAACTCCGTGGCAACCTTTTTTTAAG-CCTATAACTCCATGGCACCCTTCTTTA
*
1573186 AAGTCCACGACTCCGTGGCAACCTTTTTTTAAGCCTATAACTCCATGGCA-CCTT-TTTA
1 AAGTCCACAACTCCGTGGCAACCTTTTTTTAAGCCTATAACTCCATGGCACCCTTCTTTA
* * * *
1573244 AA-TCCACAACTCTGTGG-TACCTTTTTCTTTAAAGTCC-ATAACTTCGTGGCACCCTTCTTTA
1 AAGTCCACAACTCCGTGGCAACC-TTTT-TTT-AAG-CCTATAACTCCATGGCACCCTTCTTTA
*
1573305 AAGCCCACA
1 AAGTCCACA
1573314 GAAGTCGGTG
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
56 3 0.03
57 17 0.16
58 9 0.08
59 21 0.20
60 45 0.42
61 6 0.06
62 5 0.05
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (60 bp):
AAGTCCACAACTCCGTGGCAACCTTTTTTTAAGCCTATAACTCCATGGCACCCTTCTTTA
Found at i:1573303 original size:30 final size:30
Alignment explanation
Indices: 1573126--1573345 Score: 126
Period size: 30 Copynumber: 7.3 Consensus size: 30
1573116 CCACGACTCC
* * *
1573126 AAGTCCACAACTCAGTGGCATCCTT-TCTCA
1 AAGTCCACAACTCCGTGGCACCCTTCT-TTA
** ** *
1573156 AAGTCCATTACTCAATGGCATCCTTCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTCTTTA
* * * *
1573186 AAGTCCACGACTCCGTGGCAACCTTTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTCTTTA
* *
1573216 AAG-CCTATAACTCCATGGCA-CCTT-TTTA
1 AAGTCC-ACAACTCCGTGGCACCCTTCTTTA
* * *
1573244 AA-TCCACAACTCTGTGGTACCTTTTTCTTTA
1 AAGTCCACAACTCCGTGGCACC--CTTCTTTA
* *
1573275 AAGTCCATAACTTCGTGGCACCCTTCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTCTTTA
* * * * *
1573305 AAGCCCACAGAAGTCGGTGGCACCCCTCTCTA
1 AAGTCCAC--AACTCCGTGGCACCCTTCTTTA
*
1573337 AAGCCCACA
1 AAGTCCACA
1573346 TAAGCCAGTG
Statistics
Matches: 148, Mismatches: 32, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
27 10 0.07
28 8 0.05
29 6 0.04
30 77 0.52
31 7 0.05
32 40 0.27
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (30 bp):
AAGTCCACAACTCCGTGGCACCCTTCTTTA
Found at i:1573613 original size:93 final size:93
Alignment explanation
Indices: 1573495--1573708 Score: 249
Period size: 93 Copynumber: 2.3 Consensus size: 93
1573485 AATCTTTCCC
* * *
1573495 CAAAGCCCACACAAG-CTAGTAGCAACCTTTTCTAAAG-CCAACACCAGTCAGTGGCGCA-CCCT
1 CAAAGCCCACACAAGTC-AGTGGCAACCTTTT-TAAAGCCCAA-ACAAGTCAGTGGC-AATCCCT
* *
1573557 CTAAAGCCCAC-AAGTCAGTGGCAACCCTTCT
62 CTAAAGCCCACAAAATCAGTGGCAACCATTCT
*
1573588 CAAAGCCCACACAAGTCAGTGGCAACCCTTTTTAAAGCCCAAACAAGTCAGTGGCAATCCTTCTA
1 CAAAGCCCACACAAGTCAGTGGCAA-CCTTTTTAAAGCCCAAACAAGTCAGTGGCAATCCCTCTA
**
1573653 AAGCCCACATAAATTGGTGGCAACCATTCT
65 AAGCCCACA-AAATCAGTGGCAACCATTCT
* *
1573683 -AAAGTCCACACAAGTCGGTGGCAACC
1 CAAAGCCCACACAAGTCAGTGGCAACC
1573709 CCTTCTAAGC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
92 1 0.01
93 55 0.52
94 33 0.31
95 16 0.15
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (93 bp):
CAAAGCCCACACAAGTCAGTGGCAACCTTTTTAAAGCCCAAACAAGTCAGTGGCAATCCCTCTAA
AGCCCACAAAATCAGTGGCAACCATTCT
Found at i:1573658 original size:31 final size:31
Alignment explanation
Indices: 1573289--1573721 Score: 326
Period size: 32 Copynumber: 13.7 Consensus size: 31
1573279 CCATAACTTC
* *
1573289 GTGGC-ACCCTTCTTTAAAGCCCACAGAAGTCG
1 GTGGCAACCCTTC--TAAAGCCCACACAAGTCA
* * *
1573321 GTGGCACCCCTCTCTAAAGCCCACATAAGCCA
1 GTGGCAACCCT-TCTAAAGCCCACACAAGTCA
* * *
1573353 GTGGCAACCTTTCTTAAACCCCACACAAGT-T
1 GTGGCAACCCTTC-TAAAGCCCACACAAGTCA
* * *
1573384 GATGGCTACCCCTTCAAAAGCCTACACAAGTC-
1 G-TGGC-AACCCTTCTAAAGCCCACACAAGTCA
* *
1573416 GATGGCACCCCTTCTAAAGCCCACACAAG-CTG
1 G-TGGCAACCCTTCTAAAGCCCACACAAGTC-A
* * * *
1573448 GTGGCAACCTATTCTAAAGCCTACACAAATCG
1 GTGGCAACC-CTTCTAAAGCCCACACAAGTCA
* * * *
1573480 GTGGTAATCTTTCCCCAAAGCCCACACAAG-CTA
1 GTGGCAACCCTT--CTAAAGCCCACACAAGTC-A
* * * *
1573513 GTAGCAACCTTTTCTAAAGCCAACACCAGTCA
1 GTGGCAACC-CTTCTAAAGCCCACACAAGTCA
*
1573545 GTGGCGCACCC-TCTAAAG-CC-CACAAGTCA
1 GTGGC-AACCCTTCTAAAGCCCACACAAGTCA
1573574 GTGGCAACCCTTCTCAAAGCCCACACAAGTCA
1 GTGGCAACCCTTCT-AAAGCCCACACAAGTCA
* *
1573606 GTGGCAACCCTTTTTAAAGCCCAAACAAGTCA
1 GTGGCAACCC-TTCTAAAGCCCACACAAGTCA
* * * **
1573638 GTGGCAATCCTTCTAAAGCCCACATAAATTG
1 GTGGCAACCCTTCTAAAGCCCACACAAGTCA
* * *
1573669 GTGGCAACCATTCTAAAGTCCACACAAGTCG
1 GTGGCAACCCTTCTAAAGCCCACACAAGTCA
1573700 GTGGCAACCCCTTCT-AAGCCCA
1 GTGGCAA-CCCTTCTAAAGCCCA
1573722 ATGTCGTTGG
Statistics
Matches: 322, Mismatches: 57, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.01
29 16 0.05
30 6 0.02
31 95 0.30
32 159 0.49
33 37 0.11
34 5 0.02
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (31 bp):
GTGGCAACCCTTCTAAAGCCCACACAAGTCA
Found at i:1573713 original size:63 final size:63
Alignment explanation
Indices: 1573289--1573721 Score: 337
Period size: 63 Copynumber: 6.9 Consensus size: 63
1573279 CCATAACTTC
* * * * *
1573289 GTGGCACCCTTCTTTAAAGCCCACAGAAGTCGGTGGC-ACCCCTCTCTAAAGCCCACATAAGCCA
1 GTGGCAACCTT-TCTAAAGCCCACACAAGTCGGTGGCAACCCCT-TCTAAAGCCCACACAAGTCA
* * * * * *
1573353 GTGGCAACCTTTCTTAAACCCCACACAAGTTGATGGCTACCCCTTCAAAAGCCTACACAAGTC-
1 GTGGCAACCTTTC-TAAAGCCCACACAAGTCGGTGGCAACCCCTTCTAAAGCCCACACAAGTCA
* * ** * * *
1573416 GATGGCACCCCTTCTAAAGCCCACACAAG-CTGGTGGCAACCTATTCTAAAGCCTACACAAATCG
1 G-TGGCAACCTTTCTAAAGCCCACACAAGTC-GGTGGCAACCCCTTCTAAAGCCCACACAAGTCA
* * * * * ** * *
1573480 GTGGTAATCTTTCCCCAAAGCCCACACAAG-CTAGTAGCAACCTTTTCTAAAGCCAACACCAGTC
1 GTGGCAACCTTT--CTAAAGCCCACACAAGTC-GGTGGCAACCCCTTCTAAAGCCCACACAAGTC
1573544 A
63 A
* * *
1573545 GTGGCGCACC-CTCTAAAG-CC-CACAAGTCAGTGGCAA-CCCTTCTCAAAGCCCACACAAGTCA
1 GTGGC-AACCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTTCT-AAAGCCCACACAAGTCA
* * * * * * **
1573606 GTGGCAACCCTTTTTAAAGCCCAAACAAGTCAGTGGCAA-TCCTTCTAAAGCCCACATAAATTG
1 GTGGCAA-CCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTTCTAAAGCCCACACAAGTCA
* *
1573669 GTGGCAACCATTCTAAAGTCCACACAAGTCGGTGGCAACCCCTTCT-AAGCCCA
1 GTGGCAACCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTTCTAAAGCCCA
1573722 ATGTCGTTGG
Statistics
Matches: 297, Mismatches: 57, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
60 6 0.02
61 35 0.12
62 42 0.14
63 82 0.28
64 76 0.26
65 54 0.18
66 2 0.01
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (63 bp):
GTGGCAACCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTTCTAAAGCCCACACAAGTCA
Found at i:1573961 original size:52 final size:52
Alignment explanation
Indices: 1573841--1573976 Score: 123
Period size: 52 Copynumber: 2.6 Consensus size: 52
1573831 GATGTTGCTG
* * * * *
1573841 GCCTTGAATCAACACATT-GTTACCTTCACCATCTCTAAGTCCAATATCACTA
1 GCCTTGAATCAACATATTAG-CACCTTTATCATCTCTAAGCCCAATATCACTA
* * * * * *
1573893 GCCTTGAATTAGCATATTAGCATCTTTGTCATCTTTAAGCCCAATATCA-TT
1 GCCTTGAATCAACATATTAGCACCTTTATCATCTCTAAGCCCAATATCACTA
* *
1573944 GACCTTGGATCAACATATTGGCACCTTTATCAT
1 G-CCTTGAATCAACATATTAGCACCTTTATCAT
1573977 TTTTCTCATC
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 2 0.03
52 62 0.95
53 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.35
Consensus pattern (52 bp):
GCCTTGAATCAACATATTAGCACCTTTATCATCTCTAAGCCCAATATCACTA
Found at i:1574069 original size:113 final size:113
Alignment explanation
Indices: 1573922--1574198 Score: 376
Period size: 113 Copynumber: 2.5 Consensus size: 113
1573912 GCATCTTTGT
** * * *
1573922 CATCTTTAAGCCCAATATCATTGACCTTGGATCAACATATTGGCACCTTTATCATT-TTTCTCAT
1 CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTTATCATTCTTT-TCAT
* * *
1573986 CTTCAAGTCTAATGTCGCCGGCCGTGAATCAACAGATTGGCATTCTTCG
65 CTTCAAGTCTAATGTCACCGGCCGTGAATCAACACATTGGCATTCTTCA
* * *
1574035 CATCTTTAAGCCCAATATTGCTGGCCTTGAATCAACATATCGGTATCTTTATCATTCTTTTCATC
1 CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTTATCATTCTTTTCATC
* * *
1574100 TTCAAGTCTAATGTCACTGGTCGTGAATCAGCACATTGGCATTCTTCA
66 TTCAAGTCTAATGTCACCGGCCGTGAATCAACACATTGGCATTCTTCA
* * * *
1574148 CATCTTTAAGTCCGATATCGCTGGCCTTGAATTAGCATATTGGCATCTTTA
1 CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTTA
1574199 ACTTTCCTAA
Statistics
Matches: 142, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
113 139 0.98
114 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (113 bp):
CATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTTATCATTCTTTTCATC
TTCAAGTCTAATGTCACCGGCCGTGAATCAACACATTGGCATTCTTCA
Found at i:1575074 original size:13 final size:13
Alignment explanation
Indices: 1575056--1575081 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1575046 ACATAAGTTT
1575056 TGTATCAATACAA
1 TGTATCAATACAA
1575069 TGTATCAATACAA
1 TGTATCAATACAA
1575082 AACCACCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TGTATCAATACAA
Done.