Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008521.1 Hibiscus syriacus cultivar Beakdansim tig00111388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1601068
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:812997 original size:18 final size:19
Alignment explanation
Indices: 812971--813006 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
812961 TTTTTATATG
*
812971 ATAATTTTTTTATAAAAAA
1 ATAATTTTTTTAGAAAAAA
812990 ATAA-TTTTTTAGAAAAA
1 ATAATTTTTTTAGAAAAA
813007 GTATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAATTTTTTTAGAAAAAA
Found at i:813186 original size:116 final size:114
Alignment explanation
Indices: 812982--813199 Score: 321
Period size: 116 Copynumber: 1.9 Consensus size: 114
812972 TAATTTTTTT
* * **
812982 ATAAAAAAATAATTTTTTAGAAAAAGTATTTTAAATTTGTGACGGAATTTGTGATCCCGTCACAA
1 ATAAAAAAATAATTTTTTAGAAAAAATATTTTAAATTTGTGACGAAATTTGTGAAACCGTCACAA
* *
813047 ATTTCTGACAGATCCACCAATTCCGTCACAAATTTGTATGTTCTGTCAC
66 ATTTCTGACAGATCCACCAATTCCATCACAAAATTGTATGTTCTGTCAC
*
813096 ATAAAAAATTCAA-TTTTTAGAAAAAAAATATTTTAAATTTGTGACGAAATTTGTGAAACCGTCA
1 ATAAAAAAAT-AATTTTTTAG--AAAAAATATTTTAAATTTGTGACGAAATTTGTGAAACCGTCA
* *
813160 CAAATTTCTGACATATCCACCTATTCCATCACAAAATTGT
63 CAAATTTCTGACAGATCCACCAATTCCATCACAAAATTGT
813200 GACGAGTATA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
114 16 0.17
115 2 0.02
116 74 0.80
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (114 bp):
ATAAAAAAATAATTTTTTAGAAAAAATATTTTAAATTTGTGACGAAATTTGTGAAACCGTCACAA
ATTTCTGACAGATCCACCAATTCCATCACAAAATTGTATGTTCTGTCAC
Found at i:813370 original size:14 final size:15
Alignment explanation
Indices: 813345--813373 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
813335 TCTACACTCA
813345 TTTCTCTCTCATTTC
1 TTTCTCTCTCATTTC
813360 TTTCT-TCTCATTTC
1 TTTCTCTCTCATTTC
813374 ATCTCTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCTCTCTCATTTC
Found at i:813802 original size:3 final size:3
Alignment explanation
Indices: 813794--813850 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
813784 GAATTGTTAG
813794 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
813842 TAT TAT TAT
1 TAT TAT TAT
813851 CCTTTTTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:816917 original size:18 final size:18
Alignment explanation
Indices: 816894--816928 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
816884 GACCTGACCT
816894 AAAATAATATATTTATTA
1 AAAATAATATATTTATTA
* *
816912 AAAATATTATTTTTATT
1 AAAATAATATATTTATT
816929 CAGTAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATAATATATTTATTA
Found at i:823071 original size:33 final size:33
Alignment explanation
Indices: 823029--823105 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
823019 TATGCAATTG
*
823029 GAATTTGCATATATTAGCATAAAATACGTGACT
1 GAATTTGCATATATTAGCATAAAATACGTAACT
* * *
823062 GAATTTGCATATGTTTGCATAAGATACGTAACT
1 GAATTTGCATATATTAGCATAAAATACGTAACT
*
823095 GACTTTGCATA
1 GAATTTGCATA
823106 CGAGAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (33 bp):
GAATTTGCATATATTAGCATAAAATACGTAACT
Found at i:828536 original size:2 final size:2
Alignment explanation
Indices: 828529--828556 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
828519 TGTTTTGCAG
828529 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
828557 GTATTTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:831227 original size:38 final size:41
Alignment explanation
Indices: 831151--831238 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 41
831141 TCAGCCTTGG
* *
831151 ATGCATGGTAAATTCAAGCATATCAAGTTCTTATTTTTAGGAC
1 ATGCATGGTAAATTCAAGCATATCAA--TCTGATTTTTAAGAC
*
831194 ATGCATGGTAAATTCAAGCATATCAA-C-GA-TTTTAATAC
1 ATGCATGGTAAATTCAAGCATATCAATCTGATTTTTAAGAC
831232 ATGCATG
1 ATGCATG
831239 CCAATCTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 14 0.33
39 1 0.02
40 1 0.02
43 26 0.62
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (41 bp):
ATGCATGGTAAATTCAAGCATATCAATCTGATTTTTAAGAC
Found at i:831679 original size:37 final size:38
Alignment explanation
Indices: 831612--831856 Score: 193
Period size: 37 Copynumber: 6.5 Consensus size: 38
831602 ATATATGCAC
* * * *
831612 ATATATATTATACAG-TTTGCAAATTGTTTTTGAAAATA
1 ATATATAATATATAGTTTTG-AAAATATTTTTGAAAATA
831650 CATATATAATATATAG-TTT-AAAATATTTTTGAAAAT-
1 -ATATATAATATATAGTTTTGAAAATATTTTTGAAAATA
* * *
831686 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT-
1 ATATATAATATATAGTTTTGAAAATATTTTTGAAAATA
**
831723 -TATATAATATATAGTTTTTGAAAACGTTTTT-AAAATA
1 ATATATAATATATAG-TTTTGAAAATATTTTTGAAAATA
* ** * *
831760 TATATATAATATATACTTTTGAAAA-CGTTATGAAAACA
1 -ATATATAATATATAGTTTTGAAAATATTTTTGAAAATA
* * * * *
831798 TTTATATAATATATAATTTTTAAAAAACCATTTTGAAAAT-
1 -ATATATAATATATAGTTTTGAAAATA--TTTTTGAAAATA
831838 ATATATAATATATAGTTTT
1 ATATATAATATATAGTTTT
831857 TTTTTTTTAA
Statistics
Matches: 171, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
35 13 0.08
36 20 0.12
37 48 0.28
38 36 0.21
39 46 0.27
41 8 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATATAATATATAGTTTTGAAAATATTTTTGAAAATA
Found at i:831804 original size:38 final size:38
Alignment explanation
Indices: 831722--831822 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 38
831712 TTTTTGAAAA
* * * *
831722 TTATATAATATATAGTTTTTGAAAACGTTTTTAAAATAT
1 TTATATAATATATA-ATTTTGAAAACGTTATGAAAACAT
* *
831761 ATATATAATATATACTTTTGAAAACGTTATGAAAACAT
1 TTATATAATATATAATTTTGAAAACGTTATGAAAACAT
*
831799 TTATATAATATATAATTTTTAAAA
1 TTATATAATATATAATTTTGAAAA
831823 AACCATTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
38 41 0.76
39 13 0.24
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (38 bp):
TTATATAATATATAATTTTGAAAACGTTATGAAAACAT
Found at i:831967 original size:15 final size:15
Alignment explanation
Indices: 831932--831967 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
831922 TATATTATTA
831932 TTATTTATTTTTAAT
1 TTATTTATTTTTAAT
* *
831947 TAATTTATTTTTCAT
1 TTATTTATTTTTAAT
831962 TTATTT
1 TTATTT
831968 TTGTGCAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTATTTTTAAT
Found at i:833165 original size:25 final size:25
Alignment explanation
Indices: 833101--833165 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
833091 TGATCCTAAG
* * *
833101 TTTTATCT-TTATTTTTCATTTTACT
1 TTTTAT-TATTATTTTTAATTTAACC
*
833126 TTTTAAATATT-TTTTTAATTTAACC
1 TTTT-ATTATTATTTTTAATTTAACC
833151 TTTTATTATTATTTT
1 TTTTATTATTATTTT
833166 ATTATTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 5 0.16
25 24 0.75
26 3 0.09
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTATTATTATTTTTAATTTAACC
Found at i:833180 original size:27 final size:28
Alignment explanation
Indices: 833150--833218 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
833140 TTAATTTAAC
*
833150 CTTTTATTATTATTTTATTATTTCT-TT
1 CTTTTATTATTATTTTATTATTTATATT
* *
833177 CTTTCATTATTATTATTATTTTTTATATT
1 CTTTTATTATTATT-TTATTATTTATATT
833206 -TTTT-TTATTATTT
1 CTTTTATTATTATTT
833219 AACATTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.03
27 21 0.58
28 12 0.33
29 2 0.06
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (28 bp):
CTTTTATTATTATTTTATTATTTATATT
Found at i:833216 original size:30 final size:33
Alignment explanation
Indices: 833153--833217 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
833143 ATTTAACCTT
833153 TTATTATTATTTTATTATTTCTTTCTTTCATTA
1 TTATTATTATTTTATTATTTCTTTCTTTCATTA
833186 TTATTATTATTTT-TTATATT-TTT-TTT-ATTA
1 TTATTATTATTTTATTAT-TTCTTTCTTTCATTA
833216 TT
1 TT
833218 TAACATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 6 0.19
31 3 0.10
32 7 0.23
33 15 0.48
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (33 bp):
TTATTATTATTTTATTATTTCTTTCTTTCATTA
Found at i:838735 original size:249 final size:249
Alignment explanation
Indices: 838270--839199 Score: 1470
Period size: 249 Copynumber: 3.7 Consensus size: 249
838260 GCTCAAGGCC
*
838270 AGAAGGGCTATCTGTCCACCAAGACCTTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATT
1 AGAAGGGCTATCTG-CCA--AAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATT
838335 TGCAGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTC
63 TGCAGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTC
838400 AGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACC
128 AGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACC
838465 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
193 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
838522 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
838587 AGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
66 AGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
838652 TTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTT
131 TTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTT
838717 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
196 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
838771 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
*
838836 AGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
66 AGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
* * *
838901 TTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAAACCTT
131 TTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACC-AAAGACCTT
*
838966 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
195 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
** * ** * * *
839021 AGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTC-AAGGGCATAACATTTA
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAA-GGCACATCATTTG
* * * * * ** * * * * * *
839085 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA-CCTTCGAGTTCGACTCCGCTCA
65 CAGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCA
* * * * * * * *
839149 GCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
129 GCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
839200 CTAAAGACCT
Statistics
Matches: 640, Mismatches: 35, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
249 455 0.71
250 168 0.26
251 3 0.00
252 14 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGC
AGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGC
TTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTT
GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
Found at i:839222 original size:165 final size:166
Alignment explanation
Indices: 838261--839208 Score: 1067
Period size: 165 Copynumber: 5.7 Consensus size: 166
838251 TGCAGCTTAG
* * * * *
838261 CTCAAGGCCAGAAGGGCTATCTGT--CCACCAAGACCTTCGAGTTCGACTACGTTCAGCTTCGAA
1 CTCAAGGCTAGAAGGGTTATCTGTGACCA-AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAA
* * * * *
838324 GGCACATCATTTGCAGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTTAAGTT
64 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCTTAAGTT
838389 CGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
126 CGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* *
838430 CTCAAGGCTAGAAGGGTTATCTGTAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * ** *
838494 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTCGACT
66 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTTAAGTTCGATT
** * * *
838558 ACGTTCAGCTTCGAA-GGCACATCATTTGCAGTATAA
131 ACACTCAGCTTC-AAGGGCATATCATTTACAGCATAA
* * * * ** * * * * * *
838594 CTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-
* * * * * * * *
838658 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
64 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCCTTAAGTTC
* * * * * * *
838723 GACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAG
127 GATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* * * * * * *
838762 CTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAG
* * * *
838823 GCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTC
65 GCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCTTAAGTTC
*
838888 GATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
127 GATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* *
838928 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAAACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
*
838993 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTTAAGTTCGATT
66 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTTAAGTTCGATT
*
839057 ACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
131 ACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
*
839093 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* *
839158 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTAAAGACC
66 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACC
839209 TCCGAGGTCG
Statistics
Matches: 668, Mismatches: 94, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
163 3 0.00
164 125 0.19
165 232 0.35
166 73 0.11
168 84 0.13
169 124 0.19
170 25 0.04
171 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (166 bp):
CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTTAAGTTCGATT
ACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
Found at i:839880 original size:37 final size:37
Alignment explanation
Indices: 839813--840055 Score: 210
Period size: 37 Copynumber: 6.5 Consensus size: 37
839803 ATATATGCAC
* * * *
839813 ATATATATTATACAG-TTTGCAAATTGTTTTTGAAAAT
1 ATATATAATATATAGTTTTG-AAAATATTTTTGAAAAT
839850 ACATATATAATATATAG-TTT-AAAATATTTTTGAAAAT
1 --ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
* * *
839887 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
**
839924 -TATATAATATATAGTTTTTGAAAACGTTTTT-AAAAT
1 ATATATAATATATAG-TTTTGAAAATATTTTTGAAAAT
* ** *
839960 ATATATAATATATACTTTTGAAAA-CGTTATGAAAACAT
1 ATATATAATATATAGTTTTGAAAATATTTTTG-AAA-AT
* * * * *
839998 TTATATAATATATAATTTTTAAAAAACCATTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAATA--TTTTTGAAAAT
840037 ATATATAATATATAGTTTT
1 ATATATAATATATAGTTTT
840056 TTTTTTTAAA
Statistics
Matches: 171, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
35 16 0.09
36 29 0.17
37 61 0.36
38 23 0.13
39 35 0.20
40 3 0.02
41 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
Found at i:839942 original size:36 final size:37
Alignment explanation
Indices: 839839--840056 Score: 221
Period size: 37 Copynumber: 5.8 Consensus size: 37
839829 TTGCAAATTG
839839 TTTTTGAAAATACATATATAATATATAG--TTTAAAATA
1 TTTTTGAAAAT--ATATATAATATATAGTTTTTAAAATA
* *
839876 TTTTTGAAAATATGTATATTATATAGTTTTTAAAATA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAATA
**
839913 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATAGTTTTT-AAAATA
* * *
839950 TTTTT-AAAATATATATAATATATACTTTTGAAAA-C
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAATA
* * * * *
839985 GTTATGAAAACATTTATATAATATATAATTTTTAAAAAA
1 TTTTTG-AAA-ATATATATAATATATAGTTTTTAAAATA
*
840024 CCATTTTGAAAATATATATAATATATAGTTTTT
1 --TTTTTGAAAATATATATAATATATAGTTTTT
840057 TTTTTTAAAA
Statistics
Matches: 152, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
35 16 0.11
36 26 0.17
37 60 0.39
38 23 0.15
39 20 0.13
40 3 0.02
41 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAATA
Found at i:840166 original size:15 final size:15
Alignment explanation
Indices: 840131--840166 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
840121 TATATTATTA
840131 TTATTTATTTTTAAT
1 TTATTTATTTTTAAT
* *
840146 TAATTTATTTTTCAT
1 TTATTTATTTTTAAT
840161 TTATTT
1 TTATTT
840167 TTGTGCAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTATTTTTAAT
Found at i:841363 original size:25 final size:25
Alignment explanation
Indices: 841299--841363 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
841289 TGATCCTAAG
* * *
841299 TTTTATCT-TTATTTTTCATTTTACT
1 TTTTAT-TATTATTTTTAATTTAACC
*
841324 TTTTAAATATT-TTTTTAATTTAACC
1 TTTT-ATTATTATTTTTAATTTAACC
841349 TTTTATTATTATTTT
1 TTTTATTATTATTTT
841364 ATTATTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 5 0.16
25 24 0.75
26 3 0.09
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTATTATTATTTTTAATTTAACC
Found at i:841415 original size:30 final size:29
Alignment explanation
Indices: 841349--841418 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
841339 TAATTTAACC
*
841349 TTTTATTATTATTTTATTATTTCTTTCTT
1 TTTTATTATTATTTTATTATTTATTTCTT
* *
841378 TCATTATTATTATTATTATTTTTTATATT-TT
1 T-TTTATTATTATT-TTATTATTTAT-TTCTT
841409 TTTTATTATT
1 TTTTATTATT
841419 TAACATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 1 0.03
30 19 0.56
31 12 0.35
32 2 0.06
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTATTATTATTTTATTATTTATTTCTT
Found at i:841417 original size:33 final size:36
Alignment explanation
Indices: 841351--841418 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
841341 ATTTAACCTT
841351 TTATTATTATTTTATTATTTCTTTCTTTCATTATTA
1 TTATTATTATTTTATTATTTCTTTCTTTCATTATTA
841387 TTATTATTATTTT-TTATATT-TTT-TTT-ATTATT
1 TTATTATTATTTTATTAT-TTCTTTCTTTCATTATT
841419 TAACATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
33 6 0.19
34 3 0.10
35 7 0.23
36 15 0.48
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (36 bp):
TTATTATTATTTTATTATTTCTTTCTTTCATTATTA
Found at i:846301 original size:29 final size:29
Alignment explanation
Indices: 846269--846328 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
846259 TTCAGTTTAG
846269 ATTTGTGAATGGTGCGTGAGATCTTGTTT
1 ATTTGTGAATGGTGCGTGAGATCTTGTTT
*
846298 ATTTGTGAATGGTGTGTGAGATCTTGTTT
1 ATTTGTGAATGGTGCGTGAGATCTTGTTT
846327 AT
1 AT
846329 CTTAGTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.05, G:0.30, T:0.47
Consensus pattern (29 bp):
ATTTGTGAATGGTGCGTGAGATCTTGTTT
Found at i:849085 original size:42 final size:42
Alignment explanation
Indices: 849021--849140 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
849011 TTTCCCCGAA
* *
849021 TTCCCGTGTTTGTTTCAAGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
849063 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
849105 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
849141 TGTAATTCAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:849329 original size:12 final size:12
Alignment explanation
Indices: 849308--849340 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
849298 ATATTAATTA
849308 TTAA-AATATTT
1 TTAATAATATTT
*
849319 TTATTAATATTT
1 TTAATAATATTT
849331 TTAATAATAT
1 TTAATAATAT
849341 AATATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTAATAATATTT
Found at i:849353 original size:22 final size:23
Alignment explanation
Indices: 849320--849363 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
849310 AAAATATTTT
849320 TATTAATATTTTTAATAATATAA
1 TATTAATATTTTTAATAATATAA
*
849343 TATT-ATATTTTTAATATTATA
1 TATTAATATTTTTAATAATATA
849364 TAAAATAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTAATATTTTTAATAATATAA
Found at i:849390 original size:18 final size:19
Alignment explanation
Indices: 849358--849403 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
849348 TATTTTTAAT
*
849358 ATTATA-TAAAATAAT-CA
1 ATTATATTATAATAATACA
849375 ATTATATTATAATAATACA
1 ATTATATTATAATAATACA
*
849394 A-GATATTATA
1 ATTATATTATA
849404 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTATATTATAATAATACA
Found at i:849447 original size:30 final size:28
Alignment explanation
Indices: 849377--849480 Score: 79
Period size: 29 Copynumber: 3.5 Consensus size: 28
849367 AATAATCAAT
* *
849377 TATATTATAATAATACA-AGATATTATATTTT
1 TATATT-TAATAATATATA-ATATT-T-TTTA
849408 TAT-TTTAATAATATATAATAATTTTTTTA
1 TATATTTAATAATATATAAT-A-TTTTTTA
* *
849437 TATATTTAATAATGA-GTAATATTATTTA
1 TATATTTAATAAT-ATATAATATTTTTTA
849465 TATATTTCAATAATAT
1 TATATTT-AATAATAT
849481 TTTAGTAAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
28 14 0.23
29 24 0.39
30 18 0.29
31 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
TATATTTAATAATATATAATATTTTTTA
Found at i:849579 original size:10 final size:10
Alignment explanation
Indices: 849564--849588 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
849554 ATTAATATAA
849564 TTTATAATAT
1 TTTATAATAT
849574 TTTATAATAT
1 TTTATAATAT
849584 TTTAT
1 TTTAT
849589 TTCACTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:849884 original size:20 final size:20
Alignment explanation
Indices: 849806--849875 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
849796 TTTCCAGATG
*
849806 TTTTCCATAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
849826 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
849846 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
849866 TTTTCCAGAA
1 TTTTCCAGAA
849876 TTCAAATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:849894 original size:15 final size:15
Alignment explanation
Indices: 849858--849924 Score: 91
Period size: 15 Copynumber: 4.5 Consensus size: 15
849848 TTACAGAAAT
**
849858 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
849873 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
849887 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
849902 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
849917 GTAATTCA
1 GTAATTCA
849925 TTTTCTGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.27
15 33 0.73
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:849900 original size:29 final size:30
Alignment explanation
Indices: 849858--849929 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
849848 TTACAGAAAT
849858 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
849887 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
849917 GTAATTCATTTTC
1 GTAATTCATTTTC
849930 TGGAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:856564 original size:22 final size:24
Alignment explanation
Indices: 856539--856583 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
856529 TATAAATTTT
856539 TTAAAATT-TTATT-TTAAAAAAA
1 TTAAAATTATTATTATTAAAAAAA
856561 TTAAAATTATTATTATTAAAAAA
1 TTAAAATTATTATTATTAAAAAA
856584 TCCTAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 5 0.24
24 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAAAATTATTATTATTAAAAAAA
Found at i:857519 original size:12 final size:12
Alignment explanation
Indices: 857502--857544 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
857492 ATTATTCTTG
*
857502 TAGTATCGGTAC
1 TAGTATCGATAC
857514 TAGTATCGATA-
1 TAGTATCGATAC
*
857525 TCAGTATCAATAC
1 T-AGTATCGATAC
857538 TAGTATC
1 TAGTATC
857545 AATATCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (12 bp):
TAGTATCGATAC
Found at i:857538 original size:24 final size:24
Alignment explanation
Indices: 857511--857572 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
857501 GTAGTATCGG
* *
857511 TACTAGTATCGATATC-AGTATCAA
1 TACTAGTATCAATATCTA-TACCAA
857535 TACTAGTATCAATATCTATACCAA
1 TACTAGTATCAATATCTATACCAA
*
857559 TACAAGTATCAATA
1 TACTAGTATCAATA
857573 ATGTCCAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (24 bp):
TACTAGTATCAATATCTATACCAA
Found at i:857545 original size:12 final size:12
Alignment explanation
Indices: 857511--857572 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
857501 GTAGTATCGG
*
857511 TACTAGTATCGA
1 TACTAGTATCAA
857523 TA-TCAGTATCAA
1 TACT-AGTATCAA
857535 TACTAGTATCAA
1 TACTAGTATCAA
*
857547 TATCTA-TACCAA
1 TA-CTAGTATCAA
*
857559 TACAAGTATCAA
1 TACTAGTATCAA
857571 TA
1 TA
857573 ATGTCCAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 3 0.07
12 35 0.83
13 4 0.10
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (12 bp):
TACTAGTATCAA
Found at i:871700 original size:18 final size:18
Alignment explanation
Indices: 871660--871706 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
871650 AAACCTTTTC
* *
871660 TCCACGGCCCCTTCCACG
1 TCCACGGCCTCTTCCAAG
871678 TCCACGGCCTCTTCCAAAG
1 TCCACGGCCTCTTCC-AAG
871697 -CCACGGCCTC
1 TCCACGGCCTC
871707 CACCAGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.15, C:0.51, G:0.17, T:0.17
Consensus pattern (18 bp):
TCCACGGCCTCTTCCAAG
Found at i:873823 original size:20 final size:20
Alignment explanation
Indices: 873800--873850 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
873790 CACGGAATGT
873800 AAGATTATCAGTGAGAATAA
1 AAGATTATCAGTGAGAATAA
873820 AAGATTATCAGTGAGAATAA
1 AAGATTATCAGTGAGAATAA
873840 AAGATTATCAG
1 AAGATTATCAG
873851 AGAATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (20 bp):
AAGATTATCAGTGAGAATAA
Found at i:886146 original size:15 final size:16
Alignment explanation
Indices: 886115--886151 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
886105 AAAGGAGGAA
886115 AAACAAGAAGAAGAGAAG
1 AAACAAGAA-AAGA-AAG
886133 AAACAAGAAAAGAAAG
1 AAACAAGAAAAGAAAG
886149 AAA
1 AAA
886152 ATGTGTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (16 bp):
AAACAAGAAAAGAAAG
Found at i:894836 original size:19 final size:19
Alignment explanation
Indices: 894801--894837 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
894791 AACCGGCTTG
*
894801 ACCCGACCCAACTCGACCA
1 ACCCGACCCAACCCGACCA
*
894820 ACCCGACCCGACCCGACC
1 ACCCGACCCAACCCGACC
894838 GTTGACCCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.57, G:0.14, T:0.03
Consensus pattern (19 bp):
ACCCGACCCAACCCGACCA
Found at i:894846 original size:17 final size:17
Alignment explanation
Indices: 894824--894861 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
894814 CGACCAACCC
894824 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
*
894841 GACCCGACCGGACCGTT
1 GACCCGACCCGACCGTT
894858 GACC
1 GACC
894862 GTTGACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.45, G:0.26, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:897692 original size:21 final size:20
Alignment explanation
Indices: 897640--897716 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
897630 TTCTCTGCTC
* * * *
897640 AAAGGATCTATCCCATAGTA
1 AAAGGATCGATCCCTTTGAA
* *
897660 AAAGGACCGATCCCTTTGACT
1 AAAGGATCGATCCCTTTGA-A
* *
897681 AAAGGATTGATCCCCTTGAA
1 AAAGGATCGATCCCTTTGAA
*
897701 AAATGATCGATCCCTT
1 AAAGGATCGATCCCTT
897717 GGACAACAGT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (20 bp):
AAAGGATCGATCCCTTTGAA
Found at i:897830 original size:20 final size:20
Alignment explanation
Indices: 897807--897848 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
897797 AGTCGAAATA
*
897807 TTTGAAAAATAATCTATCCT
1 TTTGAAAAATAATCGATCCT
* *
897827 TTTGTAAAATGATCGATCCT
1 TTTGAAAAATAATCGATCCT
897847 TT
1 TT
897849 GTGCCTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTGAAAAATAATCGATCCT
Found at i:901824 original size:32 final size:32
Alignment explanation
Indices: 901718--901909 Score: 291
Period size: 32 Copynumber: 6.1 Consensus size: 32
901708 GCTCGTATAA
*
901718 TAATA-TGTCCATATGTCCCAAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
901749 TAA-ACTATCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
901780 TAA-ACTGTCCATATGTCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
901811 TAATACTGTCCATATATCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
* * * *
901843 TAATACTGTTCGTCTATCCCGAAAGACATAGG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
*
901875 TAATACTGTCCATATGTCCCGAAAGACATAAG
1 TAATACTGTCCATATGTCCCGAAAGACATAGG
901907 TAA
1 TAA
901910 ACCCTCGACT
Statistics
Matches: 147, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
30 1 0.01
31 60 0.41
32 86 0.59
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (32 bp):
TAATACTGTCCATATGTCCCGAAAGACATAGG
Found at i:905777 original size:18 final size:18
Alignment explanation
Indices: 905754--905791 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
905744 AAATCTTGCG
905754 TCCGTTTCTGATAAAGAC
1 TCCGTTTCTGATAAAGAC
905772 TCCGTTTCTGATAAAGAC
1 TCCGTTTCTGATAAAGAC
905790 TC
1 TC
905792 TCACTTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (18 bp):
TCCGTTTCTGATAAAGAC
Found at i:907971 original size:17 final size:17
Alignment explanation
Indices: 907951--907986 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
907941 AAAATATTTA
*
907951 AAAATATAAAAAAAATT
1 AAAACATAAAAAAAATT
*
907968 AAAACATATAAAAAATT
1 AAAACATAAAAAAAATT
907985 AA
1 AA
907987 TTCAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAACATAAAAAAAATT
Found at i:911365 original size:13 final size:13
Alignment explanation
Indices: 911347--911381 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
911337 GACTTGAATC
911347 AGAAAATAAGAAG
1 AGAAAATAAGAAG
*
911360 AGAAAATACGAAG
1 AGAAAATAAGAAG
911373 AGAAAATAA
1 AGAAAATAA
911382 AAAACTCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.09
Consensus pattern (13 bp):
AGAAAATAAGAAG
Found at i:918595 original size:61 final size:61
Alignment explanation
Indices: 918530--918662 Score: 167
Period size: 61 Copynumber: 2.2 Consensus size: 61
918520 TTTTCCCAAT
* * * *
918530 TCGCAATGCGAATAAGTAAATCACAATGCGAATTTGGAAAATTGCAATGCGATACTGACTA
1 TCGCAATGCGAATAAGGAAATCACAATGCAAATTTGGAAAATCGCAACGCGATACTGACTA
** * * * *
918591 TCGCAATGCGAATTTGGAAATCGCAATGCAAATTTGGAAAATCGTAACGTGGTACTGACTA
1 TCGCAATGCGAATAAGGAAATCACAATGCAAATTTGGAAAATCGCAACGCGATACTGACTA
*
918652 TCGCAACGCGA
1 TCGCAATGCGA
918663 TACTGACTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (61 bp):
TCGCAATGCGAATAAGGAAATCACAATGCAAATTTGGAAAATCGCAACGCGATACTGACTA
Found at i:918613 original size:20 final size:20
Alignment explanation
Indices: 918530--918630 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
918520 TTTTCCCAAT
** *
918530 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATTTGGAAA
*
918550 TCACAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGG-AAA
* * *
918571 TTGCAATGCG-ATACT-GACTA
1 TCGCAATGCGAAT-TTGGA-AA
918591 TCGCAATGCGAATTTGGAAA
1 TCGCAATGCGAATTTGGAAA
*
918611 TCGCAATGCAAATTTGGAAA
1 TCGCAATGCGAATTTGGAAA
918631 ATCGTAACGT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 47 0.73
21 16 0.25
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATTTGGAAA
Found at i:918659 original size:20 final size:20
Alignment explanation
Indices: 918643--918724 Score: 74
Period size: 20 Copynumber: 4.1 Consensus size: 20
918633 CGTAACGTGG
918643 TACTGACTATCGCAACGCGA
1 TACTGACTATCGCAACGCGA
* *
918663 TACTGACTTTCGCAACTCGA
1 TACTGACTATCGCAACGCGA
* * * * *
918683 TACTTAATTTCGCAACTCAA
1 TACTGACTATCGCAACGCGA
* * *
918703 TATTGACTTTCGCAACGAGA
1 TACTGACTATCGCAACGCGA
918723 TA
1 TA
918725 ATACATAATC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (20 bp):
TACTGACTATCGCAACGCGA
Found at i:918937 original size:22 final size:22
Alignment explanation
Indices: 918911--918954 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
918901 CACTCTCTCA
918911 CCCATATCCGACGAAATCCGTC
1 CCCATATCCGACGAAATCCGTC
*
918933 CCCATCTCCGACGAAATCCGTC
1 CCCATATCCGACGAAATCCGTC
918955 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.43, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATATCCGACGAAATCCGTC
Found at i:919271 original size:20 final size:21
Alignment explanation
Indices: 919238--919277 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
919228 TCAAATTCGC
919238 GTTGCGATTTTTCATTTTCAT
1 GTTGCGATTTTTCATTTTCAT
919259 GTTGCGA-TTTTCATTTTCA
1 GTTGCGATTTTTCATTTTCA
919278 GAAACTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (21 bp):
GTTGCGATTTTTCATTTTCAT
Found at i:920618 original size:18 final size:18
Alignment explanation
Indices: 920597--920644 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
920587 TCCACTTCGG
920597 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
920615 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
920633 GAGCCATCACCT
1 GAGCCATCACCT
920645 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:921240 original size:19 final size:20
Alignment explanation
Indices: 921186--921252 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
921176 TAGTTTACTT
* *
921186 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
921206 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
921226 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
921245 TCGCAACG
1 TCGCAACG
921253 ACAAAATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:921319 original size:14 final size:14
Alignment explanation
Indices: 921300--921358 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
921290 TTTCATTTCG
921300 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
921314 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
921331 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
921347 CGTTGCGATTTT
1 CGTTGCGATTTT
921359 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:921325 original size:33 final size:33
Alignment explanation
Indices: 921283--921374 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
921273 ACAAATCGCA
*
921283 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
921316 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
921349 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
921375 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:921393 original size:20 final size:20
Alignment explanation
Indices: 921347--921433 Score: 122
Period size: 20 Copynumber: 4.4 Consensus size: 20
921337 GCGATTTTGT
**
921347 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
* *
921366 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTCCG
921386 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
921406 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
921426 CGTTGCGA
1 CGTTGCGA
921434 AAGTAAGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 13 0.22
20 47 0.78
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:921444 original size:20 final size:19
Alignment explanation
Indices: 921360--921459 Score: 74
Period size: 20 Copynumber: 5.1 Consensus size: 19
921350 TGCGATTTTC
* * **
921360 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGAAAGTA
* *
921379 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGAAAGTA
*
921399 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCGTTGCGAAAGT-A
*
921420 TTTTCGCGTTGCGAAAGTA
1 ATTTCGCGTTGCGAAAGTA
* *
921439 AGTTTCGTGTTGTGAAAGTA
1 A-TTTCGCGTTGCGAAAGTA
921459 A
1 A
921460 ACTATTCTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 5 0.07
20 62 0.89
21 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (19 bp):
ATTTCGCGTTGCGAAAGTA
Found at i:923335 original size:14 final size:14
Alignment explanation
Indices: 923301--923339 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
923291 TTGATTGTTT
923301 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
923315 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
923329 TGTTGATTTGT
1 AATTGATTTGT
923340 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:923512 original size:14 final size:14
Alignment explanation
Indices: 923466--923519 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
923456 GAAACTGACT
923466 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
923480 ATCACAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
923499 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
923513 ATCGCAA
1 ATCGCAA
923520 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:923568 original size:20 final size:20
Alignment explanation
Indices: 923551--923638 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
923541 CGATTTTCTA
923551 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
923571 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
923591 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
923611 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
923631 GTTGCGAT
1 GTTGCGAT
923639 TTCCCCGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:923576 original size:34 final size:36
Alignment explanation
Indices: 923531--923618 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
923521 GCGATTTTCA
* *
923531 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
923565 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
923605 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
923619 AGCCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 12 0.26
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.59
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:923916 original size:20 final size:21
Alignment explanation
Indices: 923869--923920 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
923859 ATAGTCAGTA
*
923869 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
923890 TCACATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
923910 TCGCATTGCGA
1 TCGCATTGCGA
923921 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:924720 original size:24 final size:24
Alignment explanation
Indices: 924693--924746 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
924683 GTATTCGAAA
*
924693 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
924717 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
924741 TTTGAT
1 TTTGAT
924747 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:924938 original size:12 final size:12
Alignment explanation
Indices: 924921--924957 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
924911 ATATAATCCT
924921 GAAGAAGAAAAA
1 GAAGAAGAAAAA
924933 GAAGAAGAAAAA
1 GAAGAAGAAAAA
924945 GAAGAAGAAAAA
1 GAAGAAGAAAAA
924957 G
1 G
924958 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:927270 original size:19 final size:19
Alignment explanation
Indices: 927248--927378 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
927238 AGAAATTACT
*
927248 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
927267 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
927281 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
927300 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
927314 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
927333 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
927347 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
927366 ATCGCAACGCGAA
1 ATCGCAATGCGAA
927379 TTTAATTTTG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 27 0.32
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 40 0.47
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:927290 original size:33 final size:33
Alignment explanation
Indices: 927248--927374 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
927238 AGAAATTACT
*
927248 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
927281 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
927313 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
927347 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
927375 CGAATTTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
32 1 0.01
33 84 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:927355 original size:66 final size:66
Alignment explanation
Indices: 927249--927381 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
927239 GAAATTACTA
927249 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
927314 T
66 T
* *
927315 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
927380 T
66 T
927381 T
1 T
927382 AATTTTGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:927556 original size:14 final size:15
Alignment explanation
Indices: 927537--927573 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
927527 CATCAATTAA
927537 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
927551 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
*
927565 AAAAATCAA
1 ACAAATCAA
927574 TTAAACAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.85
15 1 0.05
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:931154 original size:20 final size:19
Alignment explanation
Indices: 931123--931244 Score: 84
Period size: 20 Copynumber: 6.8 Consensus size: 19
931113 TCTTTTGGTT
931123 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
931142 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
931163 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
931182 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
931196 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
931215 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
931229 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
931245 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
14 20 0.25
16 4 0.05
17 4 0.05
19 21 0.26
20 29 0.36
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:931191 original size:14 final size:14
Alignment explanation
Indices: 931172--931227 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
931162 GGAAATGACT
931172 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
931186 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
931203 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
931219 ATCGCAACG
1 ATCGCAACG
931228 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:931205 original size:33 final size:33
Alignment explanation
Indices: 931148--931244 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
931138 ACGAGATAAT
931148 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
931182 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
931215 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
931245 TGCGATTTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:931847 original size:20 final size:20
Alignment explanation
Indices: 931822--931913 Score: 114
Period size: 20 Copynumber: 4.5 Consensus size: 20
931812 GCTATGTAAA
931822 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
931842 TCGCATTGCGATTTTTC-TAAT
1 TCGCATTGCGA-TTTACGT-AT
* * *
931863 TCGCATTACGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
*
931883 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
931903 TCGCATTGCGA
1 TCGCATTGCGA
931914 ATTATGAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 43 0.72
21 17 0.28
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:931926 original size:41 final size:41
Alignment explanation
Indices: 931881--932051 Score: 132
Period size: 41 Copynumber: 4.2 Consensus size: 41
931871 CGATTTACTT
* * *
931881 AATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAA
1 AATCGCATTGCGATTTACGTATTCGCAATGCGAATTAGGAA
** * *
931922 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAA
1 AATCGCATTGCGATTTACGT-ATTCGCAATGCGAATTAGGAA
* * * * ***
931963 AATTGCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAA
1 AATCGCATTGCGAT-TTAC-GTATTCGCAATGCGAATTAGGAA
* * * *
932004 ATTCGCATTGCGATTTACTTATTCACAATGCGAATTGGGAA
1 AATCGCATTGCGATTTACGTATTCGCAATGCGAATTAGGAA
932045 AATCGCA
1 AATCGCA
932052 ACGCGAAATT
Statistics
Matches: 97, Mismatches: 27, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
40 8 0.08
41 84 0.87
42 2 0.02
43 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (41 bp):
AATCGCATTGCGATTTACGTATTCGCAATGCGAATTAGGAA
Found at i:931934 original size:21 final size:21
Alignment explanation
Indices: 931910--931965 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
931900 TATTCGCATT
*
931910 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
931931 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
931951 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
931966 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:931946 original size:61 final size:62
Alignment explanation
Indices: 931817--931954 Score: 154
Period size: 61 Copynumber: 2.3 Consensus size: 62
931807 ATGGCGCTAT
* * * * ** *
931817 GTAAATCGCATTGCGATTTACGTATTCGCATTGCGATTTTTCTAATTCGCATTACGATTTAC
1 GTAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTATCAAAATCGCAACACGATATAC
* * * *
931879 -TTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCGCAACGCGA-ATAC
1 GTAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTATCAAAATCGCAACACGATATAC
*
931939 GTAAATCGCAATGCGA
1 GTAAATCGCATTGCGA
931955 ATTAGGAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
60 3 0.05
61 58 0.95
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (62 bp):
GTAAATCGCATTGCGATTTACGTATTCGCATTGCGAATTATCAAAATCGCAACACGATATAC
Found at i:931974 original size:21 final size:21
Alignment explanation
Indices: 931903--931975 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
931893 ATTTACGTAT
* *
931903 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
931924 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
931944 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
931965 TTGCATTGCGA
1 TCGCAATGCGA
931976 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:932078 original size:21 final size:22
Alignment explanation
Indices: 932029--932070 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
932019 TACTTATTCA
932029 CAATGCG-AATTGGGAAAATCG
1 CAATGCGAAATTGGGAAAATCG
*
932050 CAACGCGAAATT-GGAAAATCG
1 CAATGCGAAATTGGGAAAATCG
932071 TATTGCGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (22 bp):
CAATGCGAAATTGGGAAAATCG
Found at i:932766 original size:17 final size:17
Alignment explanation
Indices: 932744--932782 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
932734 AAAATAAATC
*
932744 TATTTCGGAATTAATAT
1 TATTTCAGAATTAATAT
*
932761 TATTTCATAATTAATAT
1 TATTTCAGAATTAATAT
932778 TATTT
1 TATTT
932783 AGTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
TATTTCAGAATTAATAT
Found at i:933288 original size:23 final size:23
Alignment explanation
Indices: 933245--933289 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
933235 CATTAACCGA
*
933245 TAAAAAAGTATGATTAAATTTAT
1 TAAAAAAGTATGATCAAATTTAT
*
933268 TAAATAAAGTATGA-CATATTTA
1 TAAA-AAAGTATGATCAAATTTA
933290 AAAGAGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (23 bp):
TAAAAAAGTATGATCAAATTTAT
Found at i:934775 original size:87 final size:87
Alignment explanation
Indices: 934677--934916 Score: 336
Period size: 87 Copynumber: 2.8 Consensus size: 87
934667 CATTTAATTA
* * *
934677 GAAATATTATCAAGTAAAATAACAAATTAAGTATTACTTATATAATGTAATAGATAGTGTTTATA
1 GAAATATTATCAAGTAAAATAACATATTAAGTAGTACTTATATAATGTAATAGGTAGTGTTTATA
*
934742 TAATAAAATAGGTTAATTATTG
66 TAATAAAATAGGTTAATTACTG
* * * ** *
934764 GAAATATTATCAAATATAATAACATATTGAGTAGTGTTTATATAATGTAATAGGTAGCGTTTATA
1 GAAATATTATCAAGTAAAATAACATATTAAGTAGTACTTATATAATGTAATAGGTAGTGTTTATA
934829 TAATAAAATAGGTTAATTACTG
66 TAATAAAATAGGTTAATTACTG
* * * * * *
934851 AAAACATTATCAAGTAAAATAATATATTAGGTAGTACTTATACAATGTAATAGGTAATGTTTATA
1 GAAATATTATCAAGTAAAATAACATATTAAGTAGTACTTATATAATGTAATAGGTAGTGTTTATA
934916 T
66 T
934917 TGACTTATTC
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 131 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.38
Consensus pattern (87 bp):
GAAATATTATCAAGTAAAATAACATATTAAGTAGTACTTATATAATGTAATAGGTAGTGTTTATA
TAATAAAATAGGTTAATTACTG
Found at i:934820 original size:23 final size:23
Alignment explanation
Indices: 934794--934841 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
934784 AACATATTGA
* **
934794 GTAGTGTTTATATAATGTAATAG
1 GTAGCGTTTATATAATAAAATAG
934817 GTAGCGTTTATATAATAAAATAG
1 GTAGCGTTTATATAATAAAATAG
934840 GT
1 GT
934842 TAATTACTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.40
Consensus pattern (23 bp):
GTAGCGTTTATATAATAAAATAG
Found at i:935124 original size:24 final size:25
Alignment explanation
Indices: 935056--935124 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
935046 TAGATAATAT
*
935056 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
*
935081 -AAATAATAATATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
935104 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
935125 GTTTGATGCT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
24 23 0.62
25 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:935493 original size:20 final size:20
Alignment explanation
Indices: 935464--935533 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
935454 CATTTTCAGT
935464 AAAACCGGTAAAAAAATAAC
1 AAAACCGGTAAAAAAATAAC
* *
935484 AAAACGGGTAAAAAAAAAAC
1 AAAACCGGTAAAAAAATAAC
935504 AAAACCGGTAAAAAAATAAC
1 AAAACCGGTAAAAAAATAAC
935524 AAAACCGGTA
1 AAAACCGGTA
935534 GCGCTTTACA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.64, C:0.14, G:0.13, T:0.09
Consensus pattern (20 bp):
AAAACCGGTAAAAAAATAAC
Found at i:939004 original size:162 final size:164
Alignment explanation
Indices: 938729--939037 Score: 534
Period size: 162 Copynumber: 1.9 Consensus size: 164
938719 GCGTTACTTA
938729 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
1 AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
*
938794 TATATTTATACCGATTATATTACAAAATTACCTATTAAATTATAATTATGGGTTCCGATG-TTTT
66 TATATCTATACCGATTATATTACAAAATTACCTATTAAATTATAATTATGGGTTCCGATGTTTTT
938858 TTCAAT-GACACTTTTTTCATCCATTCTGGACAT
131 TTCAATCGACACTTTTTTCATCCATTCTGGACAT
* * *
938891 AAAGTA-GCGACACAATATTAAAATGTGTCGATATAGGTTGTAGATCTATTCTCTCATAAAATCG
1 AAAGTATG-GACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCG
* *
938955 GTATATCTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTT
65 GTATATCTATACCGATTATATTACAAAATTACCTATTAAATTATAATTATGGGTTCCGATGTTTT
939020 TTTCAATCGACACTTTTT
130 TTTCAATCGACACTTTTT
939038 GAAAAGGTAT
Statistics
Matches: 138, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
161 1 0.01
162 117 0.85
163 10 0.07
164 10 0.07
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (164 bp):
AAAGTATGGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGG
TATATCTATACCGATTATATTACAAAATTACCTATTAAATTATAATTATGGGTTCCGATGTTTTT
TTCAATCGACACTTTTTTCATCCATTCTGGACAT
Found at i:942286 original size:200 final size:200
Alignment explanation
Indices: 941936--942721 Score: 1430
Period size: 200 Copynumber: 3.9 Consensus size: 200
941926 ATATTTAAAT
* * * *
941936 TAGTATCGACACAAAATTAAAAAGTGTCGATATATATATTACACCTATTATCTCATAAAATCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
*
942001 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
942066 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
942131 ACCAA
196 ACCAA
* *
942136 TAGTATTGACACAAAATTAAAAAGTGTCGATATATATATTACACCTAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
942201 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
942266 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
942331 ACCAA
196 ACCAA
*
942336 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACATAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
* *
942401 ATACTTATACCGATTAGATTGAAAAATTACCTATGACATTATACTTATGGGTTTCGATGTTTCTG
66 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
* *
942466 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTACACCCTGTTTGCCATTCATTCTGG
131 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
942531 ACCAA
196 ACCAA
*
942536 TAGTATCGACACAAAATTAAAAAGTGTCGATACATAT-TATATACCTAATCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTAATCTCTCATAAAACCGG
942600 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
65 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
*
942665 GGGATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTGCCAT
130 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
942722 ATTGTAAATT
Statistics
Matches: 566, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
199 1 0.00
200 565 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTAATCTCTCATAAAACCGGT
ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
ACCAA
Found at i:944569 original size:15 final size:15
Alignment explanation
Indices: 944544--944603 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
944534 TTCCTTCCTC
944544 CTCAT-TTCTTCCAT
1 CTCATCTTCTTCCAT
944558 CTCATCTTCTTCC-T
1 CTCATCTTCTTCCAT
*
944572 CCTCCCTCTTTTCTTCCAT
1 -CT-CATC--TTCTTCCAT
*
944591 CTCTTCTTCTTCC
1 CTCATCTTCTTCC
944604 TCCTCCCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
14 6 0.16
15 16 0.42
16 3 0.08
17 3 0.08
18 9 0.24
19 1 0.03
ACGTcount: A:0.07, C:0.43, G:0.00, T:0.50
Consensus pattern (15 bp):
CTCATCTTCTTCCAT
Found at i:944585 original size:33 final size:33
Alignment explanation
Indices: 944533--944620 Score: 142
Period size: 33 Copynumber: 2.7 Consensus size: 33
944523 ATGACATCGA
*
944533 CTTCCTTCCT-CCTCATTTCTTCCATCTCATCTT
1 CTTCC-TCCTCCCTCTTTTCTTCCATCTCATCTT
*
944566 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
1 CTTCCTCCTCCCTCTTTTCTTCCATCTCATCTT
944599 CTTCCTCCTCCCTCTTTTCTTC
1 CTTCCTCCTCCCTCTTTTCTTC
944621 TTCATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 4 0.08
33 48 0.92
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (33 bp):
CTTCCTCCTCCCTCTTTTCTTCCATCTCATCTT
Found at i:944587 original size:18 final size:18
Alignment explanation
Indices: 944564--944620 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
944554 CCATCTCATC
944564 TTCTTCCTCCTCCCTCTT
1 TTCTTCCTCCTCCCTCTT
*
944582 TTCTTCCAT-CT--CT-TC
1 TTCTTCC-TCCTCCCTCTT
944597 TTCTTCCTCCTCCCTCTT
1 TTCTTCCTCCTCCCTCTT
944615 TTCTTC
1 TTCTTC
944621 TTCATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 10 0.31
16 2 0.06
17 2 0.06
18 16 0.50
19 1 0.03
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.53
Consensus pattern (18 bp):
TTCTTCCTCCTCCCTCTT
Found at i:944931 original size:21 final size:21
Alignment explanation
Indices: 944906--944970 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
944896 CCCCTTATGC
* *
944906 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
944927 CTCTCAAGTTTCTCTTCAACT
1 CTCTCAAGTTTCTCTTCGACT
*
944948 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
944969 CT
1 CT
944971 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.31, G:0.09, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:947492 original size:181 final size:182
Alignment explanation
Indices: 947188--947660 Score: 734
Period size: 181 Copynumber: 2.6 Consensus size: 182
947178 CGTACTTACG
* *
947188 AAAGTATCGACACTTTCAATATAGCCGGTAGCGTTTTACCGGTTTTATCATTTTCATACCAGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTAATACCAGTTT
947253 TATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
* *
947318 AGGCGCTAAAACTGTTTATCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGCGCTAAAACTGCTTATCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * *
947369 AAAGTATCGACACTTGCAATATATCCAGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTAATACCAGTTT
* *
947434 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
* *
947499 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
131 AGGCGCTAAAACTGCTTATCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * *
947551 AAAGTA-CTGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATACCAGTT
1 AAAGTATC-GACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTAATACCAGTT
* * *
947615 TTGTCATAGTTTTACTTGTTATATCGTTGTGAATCGATACATTTTT
65 TTATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTT
947661 AATTTGGATC
Statistics
Matches: 263, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 169 0.64
182 94 0.36
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTAATACCAGTTT
TATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTATCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:961234 original size:29 final size:31
Alignment explanation
Indices: 961189--961251 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
961179 TTACATTAAT
*
961189 GACTAAAATGTGAGAAA-TCTAAAGTTAAGG
1 GACTAAAATATGAGAAAGTCTAAAGTTAAGG
961219 GACTAAAATAT-AGAAAGTCTAAAGTTAAGG
1 GACTAAAATATGAGAAAGTCTAAAGTTAAGG
961249 GAC
1 GAC
961252 CAAATCTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (31 bp):
GACTAAAATATGAGAAAGTCTAAAGTTAAGG
Found at i:962976 original size:26 final size:28
Alignment explanation
Indices: 962942--963000 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
962932 AAATATAGAT
*
962942 AAAAA-TTTGACTTATCCAT-T-TAATA
1 AAAAATTTTGACTTATCCATGTCAAATA
*
962967 AAAAATTTTGACTTATTCATGTCAAATA
1 AAAAATTTTGACTTATCCATGTCAAATA
962995 AAAAAT
1 AAAAAT
963001 CAATTATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 13 0.45
27 1 0.03
28 10 0.34
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (28 bp):
AAAAATTTTGACTTATCCATGTCAAATA
Found at i:963374 original size:26 final size:27
Alignment explanation
Indices: 963341--963413 Score: 114
Period size: 26 Copynumber: 2.8 Consensus size: 27
963331 AATAATAAAA
* *
963341 TATT-TTTTTTAAATTAACATTTTATT
1 TATTATTTTTAAAATTAAAATTTTATT
963367 TA-TATTTTTAAAATTAAAATTTTATT
1 TATTATTTTTAAAATTAAAATTTTATT
963393 TATTATTTTTAAAATTAAAAT
1 TATTATTTTTAAAATTAAAAT
963414 ATTAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 1 0.02
26 24 0.56
27 18 0.42
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTATTTTTAAAATTAAAATTTTATT
Found at i:971509 original size:24 final size:24
Alignment explanation
Indices: 971468--971525 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
971458 GTTTTTAATA
* ** *
971468 TGTTAGTTTGATGTATTTGTAGAT
1 TGTTACTTTGATAAATTTGTAAAT
*
971492 TGTTACTTTGATAAATTTTTAAAT
1 TGTTACTTTGATAAATTTGTAAAT
*
971516 TATTACTTTG
1 TGTTACTTTG
971526 CTTATAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (24 bp):
TGTTACTTTGATAAATTTGTAAAT
Found at i:971541 original size:67 final size:67
Alignment explanation
Indices: 971463--971602 Score: 226
Period size: 67 Copynumber: 2.1 Consensus size: 67
971453 AAAATGTTTT
* * *
971463 TAATATGTTAGTTTGATGTATTTGTAGATTGTTACTTTGATAAATTTTTAAATTATTACTTTGCT
1 TAATATATTAGTTTGATGTATTTGTAGATTGTTACTTTAATAAATTTCTAAATTATTACTTTGCT
971528 TA
66 TA
* *
971530 TAATATATTAGTTTGATGTATTTGTAGATTGTTACTTTAATAAATTTCTAAATTGTTACTTTGTT
1 TAATATATTAGTTTGATGTATTTGTAGATTGTTACTTTAATAAATTTCTAAATTATTACTTTGCT
*
971595 TT
66 TA
971597 TAATAT
1 TAATAT
971603 GTATACATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.54
Consensus pattern (67 bp):
TAATATATTAGTTTGATGTATTTGTAGATTGTTACTTTAATAAATTTCTAAATTATTACTTTGCT
TA
Found at i:972708 original size:15 final size:15
Alignment explanation
Indices: 972690--972732 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
972680 CGACGGTTTT
*
972690 CTTCTCCTCAGCTGG
1 CTTCTTCTCAGCTGG
*
972705 CTTCTTCTCCGCTGG
1 CTTCTTCTCAGCTGG
972720 CTTCTTCTCAGCT
1 CTTCTTCTCAGCT
972733 TTCGGTGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.40
Consensus pattern (15 bp):
CTTCTTCTCAGCTGG
Found at i:975687 original size:15 final size:16
Alignment explanation
Indices: 975667--975707 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
975657 GTAATGTAAG
*
975667 TATAATATATATA-TA
1 TATAATATATACATTA
975682 TATAATATATACATTA
1 TATAATATATACATTA
975698 TATAAT-TATA
1 TATAATATATA
975708 GTACACAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATATACATTA
Found at i:977087 original size:12 final size:12
Alignment explanation
Indices: 977056--977183 Score: 100
Period size: 12 Copynumber: 10.6 Consensus size: 12
977046 TATTAATGAA
*
977056 TATTAATTATGT
1 TATTAATTGTGT
977068 TGATTAATTGTGT
1 T-ATTAATTGTGT
*
977081 TATTAATTGGGT
1 TATTAATTGTGT
977093 TATTAATTGTGT
1 TATTAATTGTGT
*
977105 TATTAA-T-T-A
1 TATTAATTGTGT
977114 TATTAATTTGTGT
1 TATTAA-TTGTGT
* *
977127 TGTTAATTGTGAA
1 TATTAATTGTG-T
* *
977140 TATTTATTATGT
1 TATTAATTGTGT
* *
977152 TGTTAATTGTGAA
1 TATTAATTGTG-T
* *
977165 TATTTATTATGT
1 TATTAATTGTGT
977177 TATTAAT
1 TATTAAT
977184 GGTGAATATT
Statistics
Matches: 89, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
9 6 0.07
10 1 0.01
11 2 0.02
12 48 0.54
13 32 0.36
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (12 bp):
TATTAATTGTGT
Found at i:977152 original size:25 final size:25
Alignment explanation
Indices: 977124--977193 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
977114 TATTAATTTG
977124 TGTTGTTAATTGTGAATATTTATTA
1 TGTTGTTAATTGTGAATATTTATTA
977149 TGTTGTTAATTGTGAATATTTATTA
1 TGTTGTTAATTGTGAATATTTATTA
* *
977174 TGTTATTAATGGTGAATATT
1 TGTTGTTAATTGTGAATATT
977194 AAGTGAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (25 bp):
TGTTGTTAATTGTGAATATTTATTA
Found at i:977158 original size:59 final size:59
Alignment explanation
Indices: 977044--977162 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
977034 ATGATCAATA
* *
977044 GTTATTAATGAATATTAATTATGTTGATTAATTGTGTTATTAATTGGGTTATTAATTGT
1 GTTATTAATGAATATTAATTATGTTGATTAATTGTGATATTAATTAGGTTATTAATTGT
* * * * *
977103 GTTATTAAT-TATATTAATTTGTGTTG-TTAATTGTGAATATTTATTATGTTGTTAATTGT
1 GTTATTAATGAATATTAA-TTATGTTGATTAATTGTG-ATATTAATTAGGTTATTAATTGT
977162 G
1 G
977163 AATATTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
58 16 0.31
59 35 0.69
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (59 bp):
GTTATTAATGAATATTAATTATGTTGATTAATTGTGATATTAATTAGGTTATTAATTGT
Found at i:978782 original size:4 final size:4
Alignment explanation
Indices: 978765--979125 Score: 65
Period size: 4 Copynumber: 92.2 Consensus size: 4
978755 ATAACACACG
* * * * * * *
978765 CGCA CACA CACA CGCA CGCA CGCG CGCG CGCG CACA CACA CGCA CGCA
1 CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * * * *
978813 CG-- CGCA CACA CACA CGCA --CA CACA CACA CGCA C-CA CACG CGCA
1 CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * * * * * * * *
978856 CACA CACA CG-A -GCA CACA CGCG CACA CACG CGCG CGCA CACA CACA
1 CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * * * * *
978902 CGCG CGCA CACA C-C- CACA CACA CCCA C-CA CCCA CACA CGCA --CA
1 CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * *
978945 CACA CGCA CCACA CGCA CG-- CGCA CGCA CGCA CGCA CGCA CACA CACA
1 CGCA CGCA -CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * * *
978992 CAGACA CACAA CCACA CGCA --CA CACA CGCA CGCA CGCA CACA CACA
1 C-G-CA CGC-A -CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA CGCA
* * * * * *
979038 CACA CGCA CGCA CGCA -GACA CGCA CACA CAC- CACA CACA CGTACA CACA
1 CGCA CGCA CGCA CGCA CG-CA CGCA CGCA CGCA CGCA CGCA CG--CA CGCA
* * * *
979087 CACA CGCA CACA CGCA CACA CGCA CTCGCA CCCA CGCA C
1 CGCA CGCA CGCA CGCA CGCA CGCA --CGCA CGCA CGCA C
979126 CTGCACCCGC
Statistics
Matches: 279, Mismatches: 50, Indels: 56
0.72 0.13 0.15
Matches are distributed among these distances:
2 12 0.04
3 14 0.05
4 234 0.84
5 6 0.02
6 13 0.05
ACGTcount: A:0.34, C:0.51, G:0.15, T:0.01
Consensus pattern (4 bp):
CGCA
Found at i:978801 original size:28 final size:28
Alignment explanation
Indices: 978763--979048 Score: 105
Period size: 28 Copynumber: 9.9 Consensus size: 28
978753 AAATAACACA
978763 CGCGCACACACACACGCACGCACGCGCG
1 CGCGCACACACACACGCACGCACGCGCG
* *
978791 CGCGCGCACACACACGCACGCACGCGCACA
1 CGCGCACACACACACGCACGCACGCG--CG
* * * * *
978821 CACACACGCACACACACACACGCAC-CACA
1 CGCGCA--CACACACACGCACGCACGCGCG
* *
978850 CGCGCACACACACACG-A-GCACACACG
1 CGCGCACACACACACGCACGCACGCGCG
* * * * * * *
978876 CGCACACACGCGCGCGCACACACACACG
1 CGCGCACACACACACGCACGCACGCGCG
* * * *
978904 CGCGCACACACCCACACACACCCAC-CACC
1 CGCGCACACA--CACACGCACGCACGCGCG
* * * *
978933 CACACACGCACACACACGCAC-CACACGCA
1 CGCGCA--CACACACACGCACGCACGCGCG
* * * * *
978962 CGCGCACGCACGCACGCACGCACACACA
1 CGCGCACACACACACGCACGCACGCGCG
* * *
978990 CACAGACACACAACCACACGCACACACACGCACG
1 CGC-G-CACAC-A-CACACG--CACGCACGCGCG
* *
979024 CACGCACACACACACACACGCACGC
1 CGCGCACACACACACGCACGCACGC
979049 ACGCAGACAC
Statistics
Matches: 198, Mismatches: 41, Indels: 38
0.71 0.15 0.14
Matches are distributed among these distances:
25 4 0.02
26 16 0.08
27 21 0.11
28 61 0.31
29 28 0.14
30 22 0.11
31 7 0.04
32 26 0.13
33 1 0.01
34 12 0.06
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (28 bp):
CGCGCACACACACACGCACGCACGCGCG
Found at i:979116 original size:14 final size:14
Alignment explanation
Indices: 978801--979345 Score: 274
Period size: 14 Copynumber: 38.9 Consensus size: 14
978791 CGCGCGCACA
* *
978801 CACACGCACGCACG
1 CACACACACACACG
*
978815 CGCACACACACACG
1 CACACACACACACG
978829 CACACACACACACG
1 CACACACACACACG
* *
978843 CACCACACGCGCACACA
1 CA-CACA--CACACACG
978860 CACACGAGCACACACG
1 CACAC-A-CACACACG
* * *
978876 CGCACACACGCGCG
1 CACACACACACACG
*
978890 CGCACACACACACG
1 CACACACACACACG
* *
978904 CGCGCACACAC-C-
1 CACACACACACACG
*
978916 CACACACACCCAC-
1 CACACACACACACG
978929 CAC-C-CACACACG
1 CACACACACACACG
*
978941 CACACACACGCAC-
1 CACACACACACACG
* * * *
978954 CACACGCACGCGCA
1 CACACACACACACG
* * *
978968 CGCACGCACGCACG
1 CACACACACACACG
978982 CACACACACACA-G
1 CACACACACACACG
978995 -ACACACAACCACACG
1 CACACAC-A-CACACG
*
979010 CACACACACGCACG
1 CACACACACACACG
* *
979024 CACGCACACACACA
1 CACACACACACACG
* *
979038 CACACGCACGCACG
1 CACACACACACACG
* * *
979052 CAGACACGCACACA
1 CACACACACACACG
979066 CAC-CACACACACG
1 CACACACACACACG
*
979079 TACACACACACACG
1 CACACACACACACG
979093 CACACACGCACACACG
1 CACACA--CACACACG
* * *
979109 CACTCGCACCCACG
1 CACACACACACACG
* *
979123 CACCTGCACCCGCACACG
1 CA----CACACACACACG
* *
979141 CAC-C-CGCACCCG
1 CACACACACACACG
* ** *
979153 CGCATGCACACGCG
1 CACACACACACACG
* * *
979167 CACAGACACATACA
1 CACACACACACACG
*
979181 CACACACATACACG
1 CACACACACACACG
* *
979195 CACGCACACGCACG
1 CACACACACACACG
* *
979209 CACGCACGTACACACA
1 CACACAC--ACACACG
979225 CACA-ACACACAC-
1 CACACACACACACG
* *
979237 AACACACACACACA
1 CACACACACACACG
979251 CACACA-ACACAC-
1 CACACACACACACG
* * *
979263 AACACGCACGCACG
1 CACACACACACACG
* * *
979277 CACTCACGCACGCG
1 CACACACACACACG
* *
979291 CACACTCACACACA
1 CACACACACACACG
* *
979305 CACACATACACACA
1 CACACACACACACG
* * *
979319 TACACACACATACA
1 CACACACACACACG
*
979333 TACACACACACAC
1 CACACACACACAC
979346 ATACAGACAT
Statistics
Matches: 408, Mismatches: 95, Indels: 56
0.73 0.17 0.10
Matches are distributed among these distances:
11 6 0.01
12 34 0.08
13 55 0.13
14 245 0.60
15 9 0.02
16 40 0.10
17 9 0.02
18 10 0.02
ACGTcount: A:0.37, C:0.49, G:0.12, T:0.02
Consensus pattern (14 bp):
CACACACACACACG
Found at i:979161 original size:18 final size:18
Alignment explanation
Indices: 979095--979153 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
979085 CACACACGCA
*
979095 CACACGCACACACGCACTCG
1 CACACGCAC-C-CGCACCCG
*
979115 CACCCACGCACCTGCACCCG
1 CA--CACGCACCCGCACCCG
979135 CACACGCACCCGCACCCG
1 CACACGCACCCGCACCCG
979153 C
1 C
979154 GCATGCACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.47
20 10 0.29
21 1 0.03
22 7 0.21
ACGTcount: A:0.24, C:0.58, G:0.15, T:0.03
Consensus pattern (18 bp):
CACACGCACCCGCACCCG
Found at i:979187 original size:4 final size:4
Alignment explanation
Indices: 979167--979364 Score: 143
Period size: 4 Copynumber: 50.5 Consensus size: 4
979157 TGCACACGCG
* * * * * * * *
979167 CACA GACA CATA CACA CACA CATA CACG CACG CACA CGCA CGCA CGCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
**
979215 CGTA CACA CACA CA-A CACA CACA -ACA CACA CACA CACA CACA -ACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * *
979260 CACA -ACA CGCA CGCA CGCA CTCA CGCA CGCG CACA CTCA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
979307 CACA TACA CACA TACA CACA CATA CATA CACA CACA CACA TACA GACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
*
979355 TACA CACA CA
1 CACA CACA CA
979365 TACATACATA
Statistics
Matches: 160, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
3 12 0.08
4 148 0.93
ACGTcount: A:0.44, C:0.43, G:0.07, T:0.06
Consensus pattern (4 bp):
CACA
Found at i:979188 original size:18 final size:18
Alignment explanation
Indices: 979167--979368 Score: 135
Period size: 18 Copynumber: 11.4 Consensus size: 18
979157 TGCACACGCG
* *
979167 CACAGACACATACACACA
1 CACATACACACACACACA
* *
979185 CACATACACGCACGCACA
1 CACATACACACACACACA
* * * **
979203 CGC--ACGCACGCACGTA
1 CACATACACACACACACA
*
979219 CACACACACA-ACACACA
1 CACATACACACACACACA
*
979236 CA-ACACACACACACACA
1 CACATACACACACACACA
*
979253 CACA-ACACACAACACGCA
1 CACATACACAC-ACACACA
* ** * * *
979271 CGCACGCACTCACGCACG
1 CACATACACACACACACA
* * *
979289 CGCACACTCACACACACA
1 CACATACACACACACACA
*
979307 CACATACACACATACACA
1 CACATACACACACACACA
*
979325 CACATACATACACACACA
1 CACATACACACACACACA
* *
979343 CACATACAGACATACACA
1 CACATACACACACACACA
979361 CACATACA
1 CACATACA
979369 TACATATATA
Statistics
Matches: 142, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
16 16 0.11
17 21 0.15
18 101 0.71
19 4 0.03
ACGTcount: A:0.44, C:0.43, G:0.07, T:0.06
Consensus pattern (18 bp):
CACATACACACACACACA
Found at i:979234 original size:9 final size:9
Alignment explanation
Indices: 979220--979263 Score: 79
Period size: 9 Copynumber: 4.8 Consensus size: 9
979210 ACGCACGTAC
979220 ACACACACA
1 ACACACACA
979229 ACACACACA
1 ACACACACA
979238 ACACACACA
1 ACACACACA
979247 CACACACACA
1 -ACACACACA
979257 ACACACA
1 ACACACA
979264 ACACGCACGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (9 bp):
ACACACACA
Found at i:979251 original size:8 final size:8
Alignment explanation
Indices: 978797--979364 Score: 258
Period size: 8 Copynumber: 72.0 Consensus size: 8
978787 CGCGCGCGCG
978797 CACACACA
1 CACACACA
* *
978805 CGCACGCA
1 CACACACA
* *
978813 CGCGCACA
1 CACACACA
*
978821 CACACACG
1 CACACACA
978829 CACACACA
1 CACACACA
*
978837 CACACGCA
1 CACACACA
*
978845 C-CACACG
1 CACACACA
*
978852 CGCACACA
1 CACACACA
978860 CACACGAGCA
1 CACAC-A-CA
* *
978870 CACACGCG
1 CACACACA
*
978878 CACACACG
1 CACACACA
* * *
978886 CGCGCGCA
1 CACACACA
978894 CACACACA
1 CACACACA
* * *
978902 CGCGCGCA
1 CACACACA
*
978910 CACACCCA
1 CACACACA
*
978918 CACACACC
1 CACACACA
*
978926 CAC-CACC
1 CACACACA
*
978933 CACACACG
1 CACACACA
978941 CACACACA
1 CACACACA
*
978949 CGCAC-CA
1 CACACACA
* *
978956 CACGCACG
1 CACACACA
* *
978964 CGCACGCA
1 CACACACA
* *
978972 CGCACGCA
1 CACACACA
*
978980 CGCACACA
1 CACACACA
*
978988 CACACAGA
1 CACACACA
978996 CACACA-A
1 CACACACA
*
979003 C-CACACG
1 CACACACA
979010 CACACACA
1 CACACACA
* *
979018 CGCACGCA
1 CACACACA
*
979026 CGCACACA
1 CACACACA
979034 CACACACA
1 CACACACA
* *
979042 CGCACGCA
1 CACACACA
* *
979050 CGCAGACA
1 CACACACA
*
979058 CGCACACA
1 CACACACA
979066 CAC-CACA
1 CACACACA
**
979073 CACACGTA
1 CACACACA
979081 CACACACA
1 CACACACA
*
979089 CACGCACA
1 CACACACA
*
979097 CACGCACA
1 CACACACA
* *
979105 CACGCACT
1 CACACACA
* *
979113 CGCACCCA
1 CACACACA
* *
979121 CGCAC-CTG
1 CACACAC-A
* *
979129 CACCCGCA
1 CACACACA
* *
979137 CACGCACC
1 CACACACA
* * *
979145 CGCACCCG
1 CACACACA
* **
979153 CGCATGCA
1 CACACACA
* *
979161 CACGCGCA
1 CACACACA
*
979169 CAGACACA
1 CACACACA
*
979177 TACACACA
1 CACACACA
*
979185 CACATACA
1 CACACACA
* *
979193 CGCACGCA
1 CACACACA
* *
979201 CACGCACG
1 CACACACA
* *
979209 CACGCACG
1 CACACACA
*
979217 TACACACA
1 CACACACA
979225 CACA-ACA
1 CACACACA
979232 CACACA-A
1 CACACACA
979239 CACACACA
1 CACACACA
979247 CACACACA
1 CACACACA
979255 CA-ACACA
1 CACACACA
*
979262 CA-ACACG
1 CACACACA
* *
979269 CACGCACG
1 CACACACA
* *
979277 CACTCACG
1 CACACACA
* *
979285 CACGCGCA
1 CACACACA
*
979293 CACTCACA
1 CACACACA
979301 CACACACA
1 CACACACA
*
979309 CATACACA
1 CACACACA
*
979317 CATACACA
1 CACACACA
*
979325 CACATACA
1 CACACACA
*
979333 TACACACA
1 CACACACA
*
979341 CACACATA
1 CACACACA
* *
979349 CAGACATA
1 CACACACA
979357 CACACACA
1 CACACACA
979365 TACATACATA
Statistics
Matches: 427, Mismatches: 120, Indels: 26
0.75 0.21 0.05
Matches are distributed among these distances:
6 4 0.01
7 55 0.13
8 359 0.84
9 2 0.00
10 7 0.02
ACGTcount: A:0.37, C:0.48, G:0.12, T:0.03
Consensus pattern (8 bp):
CACACACA
Found at i:979363 original size:22 final size:22
Alignment explanation
Indices: 979218--979364 Score: 126
Period size: 22 Copynumber: 7.0 Consensus size: 22
979208 GCACGCACGT
979218 ACACACACACA-ACACACACA-
1 ACACACACACATACACACACAC
979238 ACACACACAC--ACACACACA-
1 ACACACACACATACACACACAC
** * *
979257 ACACACA-ACACGCACGCACGC
1 ACACACACACATACACACACAC
* * *** *
979278 ACTCACGCACGCGCACACTCAC
1 ACACACACACATACACACACAC
*
979300 ACACACACACATACACACATAC
1 ACACACACACATACACACACAC
*
979322 ACACACATACATACACACACAC
1 ACACACACACATACACACACAC
* *
979344 ACATACAGACATACACACACA
1 ACACACACACATACACACACA
979365 TACATACATA
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
18 2 0.02
19 16 0.16
20 16 0.16
21 5 0.05
22 64 0.62
ACGTcount: A:0.46, C:0.44, G:0.05, T:0.05
Consensus pattern (22 bp):
ACACACACACATACACACACAC
Found at i:979369 original size:4 final size:4
Alignment explanation
Indices: 979308--979439 Score: 51
Period size: 4 Copynumber: 34.5 Consensus size: 4
979298 ACACACACAC
* * * * *
979308 ACAT ACAC ACAT AC-- ACAC ACAT ACAT AC-- ACAC ACAC ACAT ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
979352 ACAT AC-- ACAC ACAT ACAT ACAT ATAT ATAT ATAT ATAT ATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * *
979398 ACGT ACAC ACGT ACAC ACGT ACAC ACCT ACAT ATAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
979440 GTATGTATCA
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
2 6 0.06
4 91 0.94
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (4 bp):
ACAT
Found at i:979412 original size:16 final size:16
Alignment explanation
Indices: 979393--979430 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
979383 TATATATATA
*
979393 TACATACGTACACACG
1 TACATACGTACACACC
*
979409 TACACACGTACACACC
1 TACATACGTACACACC
979425 TACATA
1 TACATA
979431 TATACATACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.34, G:0.08, T:0.18
Consensus pattern (16 bp):
TACATACGTACACACC
Found at i:979487 original size:12 final size:12
Alignment explanation
Indices: 979472--979528 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
979462 TGTATACACG
*
979472 TACATACCTACA
1 TACATACGTACA
*
979484 TACATATGTACA
1 TACATACGTACA
* *
979496 TGCATACGTACG
1 TACATACGTACA
* *
979508 TACATGCGTACG
1 TACATACGTACA
*
979520 TACGTACGT
1 TACATACGT
979529 GTATATATAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (12 bp):
TACATACGTACA
Found at i:979510 original size:16 final size:16
Alignment explanation
Indices: 979491--979526 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
979481 ACATACATAT
979491 GTACATGCATACGTAC
1 GTACATGCATACGTAC
*
979507 GTACATGCGTACGTAC
1 GTACATGCATACGTAC
979523 GTAC
1 GTAC
979527 GTGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (16 bp):
GTACATGCATACGTAC
Found at i:981969 original size:3 final size:3
Alignment explanation
Indices: 981961--982012 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
981951 TCTGTATTGC
981961 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
982008 ATT AT
1 ATT AT
982013 ATAGTAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:985484 original size:14 final size:15
Alignment explanation
Indices: 985460--985547 Score: 108
Period size: 16 Copynumber: 5.7 Consensus size: 15
985450 ATTATACATG
985460 AAAAAAGAAAAAAGA
1 AAAAAAGAAAAAAGA
*
985475 AAATAAA-AAATGAAGA
1 AAA-AAAGAAA-AAAGA
985491 AAAAAATGAAAAAAGA
1 AAAAAA-GAAAAAAGA
985507 AAAAAAGAAAAAAG-
1 AAAAAAGAAAAAAGA
985521 AAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAG-A
985537 GAAAAAAGAAA
1 -AAAAAAGAAA
985548 TGAAAAGGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
14 14 0.22
15 17 0.27
16 20 0.31
17 13 0.20
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAAAAGA
Found at i:985511 original size:39 final size:38
Alignment explanation
Indices: 985457--985547 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 38
985447 GATATTATAC
985457 ATGAAAAAAGAAAAAAGAAAATAA-AAAATGAAGAAAAAA-
1 ATGAAAAAAGAAAAAAGAAAA-AAGAAAA--AAGAAAAAAG
985496 ATGAAAAAAGAAAAAAAGAAAAAAGAAAAAAGAAAAAAG
1 ATGAAAAAAG-AAAAAAGAAAAAAGAAAAAAGAAAAAAG
*
985535 AAGAAAAAAGAAA
1 ATGAAAAAAGAAA
985548 TGAAAAGGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
38 12 0.25
39 21 0.44
40 15 0.31
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.04
Consensus pattern (38 bp):
ATGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAG
Found at i:985514 original size:24 final size:23
Alignment explanation
Indices: 985460--985547 Score: 69
Period size: 24 Copynumber: 3.7 Consensus size: 23
985450 ATTATACATG
985460 AAAAAAGAAAAAAGAAAATA-AA-
1 AAAAAAGAAAAAAGAAAA-AGAAG
*
985482 AAATGAAGAAAAAA-ATGAAAA-AAG
1 AAA-AAAGAAAAAAGA--AAAAGAAG
985506 AAAAAAAGAAAAAAGAAAAAAGAA-
1 -AAAAAAGAAAAAAG-AAAAAGAAG
985530 AAAAGAAGAAAAAAGAAA
1 AAAA-AAGAAAAAAGAAA
985548 TGAAAAGGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
22 4 0.07
23 19 0.35
24 26 0.47
25 5 0.09
26 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (23 bp):
AAAAAAGAAAAAAGAAAAAGAAG
Found at i:985547 original size:7 final size:7
Alignment explanation
Indices: 985459--985541 Score: 96
Period size: 7 Copynumber: 11.0 Consensus size: 7
985449 TATTATACAT
985459 GAAAAAA
1 GAAAAAA
985466 GAAAAAA
1 GAAAAAA
985473 GAAAATAA
1 GAAAA-AA
985481 -AAAATGAA
1 GAAAA--AA
985489 GAAAAAAA
1 G-AAAAAA
985497 TGAAAAAA
1 -GAAAAAA
985505 GAAAAAAA
1 G-AAAAAA
985513 GAAAAAA
1 GAAAAAA
985520 GAAAAAA
1 GAAAAAA
985527 GAAAAAA
1 GAAAAAA
985534 GAAGAAAA
1 GAA-AAAA
985542 AAGAAATGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
7 40 0.59
8 23 0.34
9 1 0.01
10 4 0.06
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (7 bp):
GAAAAAA
Found at i:988015 original size:15 final size:15
Alignment explanation
Indices: 987992--988026 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
987982 CCGTAGGACC
*
987992 ACTATGTCCCGAAGG
1 ACTACGTCCCGAAGG
988007 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
988022 ACTAC
1 ACTAC
988027 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Done.