Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007741.1 Hibiscus syriacus cultivar Beakdansim tig00110004_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: 1550271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:590049 original size:31 final size:31
Alignment explanation
Indices: 590003--590096 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 31
589993 ATAATAAATA
* *
590003 ATATATATAAAATATACTAAATATATACACT
1 ATATAAATAATATATACTAAATATATACACT
* * *
590034 ATATAAATAATATATACTATATATATATATT
1 ATATAAATAATATATACTAAATATATACACT
590065 A-ATATAATAATAATATATCATATAATATATAC
1 ATATA-AATAAT-ATATA-C-TA-AATATATAC
590097 TATACATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
30 3 0.06
31 33 0.65
32 5 0.10
33 1 0.02
34 2 0.04
35 7 0.14
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.39
Consensus pattern (31 bp):
ATATAAATAATATATACTAAATATATACACT
Found at i:590068 original size:70 final size:70
Alignment explanation
Indices: 589961--590108 Score: 185
Period size: 70 Copynumber: 2.1 Consensus size: 70
589951 TATAGAATAT
* *
589961 ATATATAGTATAATATATACTAAATATACTATATAATA-AATAATATATATAAAATATACTAAAT
1 ATATATA-AATAATATATACTAAATATACTATATAATATAATAATA-ATATAAAATATAATAAAT
590025 A-TATAC
64 ACTATAC
* ** *
590031 ACTATATAAATAATATATACTATATATA-TATATTAATATAATAATAATATATCATATAATATAT
1 A-TATATAAATAATATATACTAAATATACTATA-TAATATAATAATAATATAAAATATAATAAAT
590095 ACTATAC
64 ACTATAC
590102 ATATATA
1 ATATATA
590109 TAAAATAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
69 4 0.06
70 45 0.66
71 19 0.28
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (70 bp):
ATATATAAATAATATATACTAAATATACTATATAATATAATAATAATATAAAATATAATAAATAC
TATAC
Found at i:590116 original size:39 final size:38
Alignment explanation
Indices: 589936--590116 Score: 146
Period size: 39 Copynumber: 4.7 Consensus size: 38
589926 AACATATACA
* *
589936 ATATA-TATACTATACTATAGAATATATATATAGTATAAT
1 ATATACTATAATATACTATAAAATA-ATATATA-TATAAT
* *
589975 ATATACTA-AATATACTATATAATAAATAATATATATAAA
1 ATATACTATAATATACTATAAAAT-AAT-ATATATATAAT
*
590014 ATATACTAAATATATACACTATATAAATAATATATACTAT-AT
1 ATATACT--ATA-ATATACTATA-AAATAATATATA-TATAAT
590056 ATATA-TAT--TA-A-TATAATAATAATATATCATATAAT
1 ATATACTATAATATACTATAA-AATAATATAT-ATATAAT
590091 ATATACTATACATATA-TATAAAATAA
1 ATATACTATA-ATATACTATAAAATAA
590117 AAAAGGGTTG
Statistics
Matches: 119, Mismatches: 6, Indels: 34
0.75 0.04 0.21
Matches are distributed among these distances:
33 1 0.01
34 17 0.14
35 9 0.08
36 5 0.04
39 41 0.34
40 14 0.12
41 2 0.02
42 12 0.10
43 15 0.13
44 3 0.03
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (38 bp):
ATATACTATAATATACTATAAAATAATATATATATAAT
Found at i:595624 original size:44 final size:44
Alignment explanation
Indices: 595576--596144 Score: 139
Period size: 44 Copynumber: 13.1 Consensus size: 44
595566 ATATCAGTGC
*
595576 TGATCTACCACATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
* * * * * **
595620 TGATCTAACTCCTTATGCGATAGATTTGAGCGAAATAA--AAATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAGC-AAA-AAGTTGATGT
* * * * * * * * * *
595664 CGATCCACCTCATTCTATGATGGAATCGAACGAAATGTCGGTGCT
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATG-T
*
595709 T-ATCTACCTCATTCTGTGATAGAATCT-AGCAAAAAGTTGATGC
1 TGATCTACCTCATTCTGTGATAGAAT-TGAGCAAAAAGTTGATGT
* * * * * * *
595752 TGATCCAACTCCTTATGCGATGGATTTGAGCGAATAAA----ATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAGC-AA-AAAGTTGATGT
* * ** * * * * * * **
595794 CGATCCACCTCATTCTACGATGGAATCGAACGAGATGTCAAT-T
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
* * * * * *
595837 CTGATCTACATCACTCTGTGATAGAATCGCGCAAAAAGTTGACGC
1 -TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
* * * * * *
595882 TGATCCA-CTCATTC--TAATGGATTTGAGTGAAAAA---AATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAG-CAAAAAGTTGATGT
* * * * * * * * * * * *
595921 TGATCCACCCCCTTCCGTGATGGAATCGAACGAGATGTCGATGC
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
* *
595965 TGATCTACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
* * * * * * * * * **
596009 TGATCCAACTCCTTATGCGTTGGATTTGAGTGAAATAA--AAATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAG-CAAA-AAGTTGATGT
* * * * * * * * *
596053 TGATCCACTTCATTCCGTGATGGAATCGAAC-GAGAGTCGATGT
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
* * *
596096 TGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGC
1 TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
596140 TGATC
1 TGATC
596145 CAACTCCTTA
Statistics
Matches: 355, Mismatches: 142, Indels: 56
0.64 0.26 0.10
Matches are distributed among these distances:
39 9 0.03
40 6 0.02
41 12 0.03
42 42 0.12
43 39 0.11
44 231 0.65
45 9 0.03
46 7 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
TGATCTACCTCATTCTGTGATAGAATTGAGCAAAAAGTTGATGT
Found at i:595863 original size:130 final size:131
Alignment explanation
Indices: 595520--596394 Score: 1016
Period size: 130 Copynumber: 6.7 Consensus size: 131
595510 AATCTAGCAA
* * * *
595520 AAATGAAAATATTGATCCAACC-CCTTCTGTGATGGAATCGAAC-ATAATATC-A-GTGCTGATC
1 AAAT-AAAATGTTGATCC-ACCTCATTCTGTGATGGAATCGAACGA-GATGTCGATGT-CTGATC
* * * * *
595581 TACCACATTCTGTGATAGAATTGAGCAAAAAGTTGATGTTGATCTAACTCCTTATGCGATAGATT
62 TACCTC-TTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATT
595646 TGAGCG
126 TGAGCG
* * * * *
595652 AAATAAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAAATGTCGGTG-CTTATCTAC
1 AAAT-AAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTAC
*
595716 CTCATTCTGTGATAGAATCTAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGA
65 CTC-TTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGA
595781 GCG
129 GCG
* ** * *
595784 -AATAAAATGTCGATCCACCTCATTCTACGATGGAATCGAACGAGATGTCAAT-TCTGATCTACA
1 AAATAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTACC
* * * * * *
595847 TCACTCTGTGATAGAATCGCGCAAAAAGTTGACGCTGATCC-ACTCATTCT--AATGGATTTGAG
66 TC-TTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAG
*
595909 TG
130 CG
* * *
595911 AAA-AAAATGTTGATCCACCCCCTTCCGTGATGGAATCGAACGAGATGTCGATG-CTGATCTACC
1 AAATAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTACC
* *
595974 TCTTTCTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCGTTGGATTTGAG
66 TC-TTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAG
*
596039 TG
130 CG
* *
596041 AAATAAAAATGTTGATCCACTTCATTCCGTGATGGAATCGAACGAGA-GTCGATGT-TGATCTAC
1 AAAT-AAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTAC
*
596104 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGTTGGATTTGA
65 CT-CTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGA
596169 GCG
129 GCG
* * * * * * * * * *
596172 AAATAAAATATTAATCTACCTCCTTATGTGATGG-ATTGAATGATATGTCGGTGT-TGATCAACC
1 AAATAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTACC
* * *
596235 TTCTTCTGTGATAGAATCGAGCAAAAA-TTGATTCTGATCCAACTCCTTATGCGTTGGATTTGAT
66 -TCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAG
596299 CG
130 CG
* * * *
596301 GAATAAAA-GTTGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGGTGT-TGATCTACC
1 AAATAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTACC
596364 TCCTTCTGTGATAGAATCGAGC-AAAAGTTGA
66 T-CTTCTGTGATAGAATCGAGCAAAAAGTTGA
596395 ACAATTTATT
Statistics
Matches: 652, Mismatches: 72, Indels: 41
0.85 0.09 0.05
Matches are distributed among these distances:
127 99 0.15
128 35 0.05
129 109 0.17
130 168 0.26
131 90 0.14
132 149 0.23
133 1 0.00
134 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (131 bp):
AAATAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGATGTCTGATCTACC
TCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGC
G
Found at i:596393 original size:389 final size:388
Alignment explanation
Indices: 595525--596394 Score: 1121
Period size: 389 Copynumber: 2.2 Consensus size: 388
595515 AGCAAAAATG
* * * *
595525 AAAATATTGATCCAACCCCTTCTGTGATGGAATCGAAC-ATAATATCAGTGCTGATCTACCACAT
1 AAAATGTTGATCC-ACCCCTTCTGTGATGGAATCGAACGAT-ATGTCGGTGCTGATCTACCTCAT
* *
595589 TCTGTGATAGAATTGAGCAAAAAGTTGATGTTGATCTAACTCCTTATGCGATAGATTTGAGCGAA
64 TCTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCGATAGATTTGAGCGAA
* *
595654 ATAAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAAATGTCGGTGCTTATCTACCTC
129 ATAAAAATGTCGATCCACCTCATTCCATGATGGAATCGAACGAAATGTCGATGCTTATCTACCTC
*
595719 ATTCTGTGATAGAATCTAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCG
194 ATTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCG
* * * *
595784 AATAAAATGTCGATCCACCTCATTCTACGATGGAATCGAACGAGATGTCAATTCTGATCTACATC
259 AATAAAATATCAATCCACCTCATTATACGATGGAATCGAACGAGATGTCAATTCTGATCAACATC
* *
595849 ACTCTGTGATAGAATCGCGCAAAAAGTTGACGCTGATCCACTCATTCTAATGGATTTGAGTGAAA
324 ACTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCACTCATTATAATGGATTTGAGTGAAA
* * * *
595914 AAAATGTTGATCCACCCCCTTCCGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCTTT
1 AAAATGTTGATCCA-CCCCTTCTGTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCATT
* * *
595979 CTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCGTTGGATTTGAGTGAAA
65 CTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCGATAGATTTGAGCGAAA
* * * *
596044 TAAAAATGTTGATCCACTTCATTCCGTGATGGAATCGAACGAGA-GTCGATG-TTGATCTACCTC
130 TAAAAATGTCGATCCACCTCATTCCATGATGGAATCGAACGAAATGTCGATGCTT-ATCTACCTC
* *
596107 CTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGTTGGATTTGAGCG
194 ATTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCG
* * * ** * * * **
596172 AAATAAAATATTAATCTACCTCCTTATGTGATGG-ATTGAATGATATGTCGGTGT-TGATCAACC
259 -AATAAAATATCAATCCACCTCATTATACGATGGAATCGAACGAGATGTCAAT-TCTGATCAA-C
* * ** * **
596235 TTC-TTCTGTGATAGAATCGAGCAAAAA-TTGATTCTGATCCAACTCCTTATGCGTTGGATTTGA
321 ATCACTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCC-ACTCATTAT--AATGGATTTGA
*
596298 -TCGGAAT
383 GT--GAAA
* *
596305 AAAA-GTTGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGGTGTTGATCTACCTCCTT
1 AAAATGTTGATCCACC-CCTTCTGTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCATT
596369 CTGTGATAGAATCGAGC-AAAAGTTGA
65 CTGTGATAGAATCGAGCAAAAAGTTGA
596395 ACAATTTATT
Statistics
Matches: 418, Mismatches: 51, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
387 13 0.03
388 126 0.30
389 193 0.46
390 79 0.19
391 7 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (388 bp):
AAAATGTTGATCCACCCCTTCTGTGATGGAATCGAACGATATGTCGGTGCTGATCTACCTCATTC
TGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCGATAGATTTGAGCGAAAT
AAAAATGTCGATCCACCTCATTCCATGATGGAATCGAACGAAATGTCGATGCTTATCTACCTCAT
TCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAGCGAA
TAAAATATCAATCCACCTCATTATACGATGGAATCGAACGAGATGTCAATTCTGATCAACATCAC
TCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCACTCATTATAATGGATTTGAGTGAAA
Found at i:596862 original size:30 final size:30
Alignment explanation
Indices: 596828--596966 Score: 160
Period size: 29 Copynumber: 4.6 Consensus size: 30
596818 CGAGACAAAG
596828 TTTGTTTCAAGGGAAACAGATTCAAAGATT
1 TTTGTTTCAAGGGAAACAGATTCAAAGATT
596858 TTTGTTTCAAGGG-AACAGATTCAAAGATT
1 TTTGTTTCAAGGGAAACAGATTCAAAGATT
* *
596887 TTTGTTTCAAGGGAAAC-TATCTCAAGGGAGATAAA
1 TTTGTTTCAAGGGAAACAGAT-TCAA---AGAT--T
596922 TTTGTTTCAAGGGAAACAGATTC-AA-ATT
1 TTTGTTTCAAGGGAAACAGATTCAAAGATT
**
596950 GGTGTTTCAAGGGAAAC
1 TTTGTTTCAAGGGAAAC
596967 TGTCTCAAGA
Statistics
Matches: 95, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
28 15 0.16
29 31 0.33
30 22 0.23
31 1 0.01
33 4 0.04
34 1 0.01
35 19 0.20
36 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (30 bp):
TTTGTTTCAAGGGAAACAGATTCAAAGATT
Found at i:596933 original size:35 final size:34
Alignment explanation
Indices: 596783--597103 Score: 155
Period size: 35 Copynumber: 9.6 Consensus size: 34
596773 TCTCTCGAGT
* *
596783 GAGATAAATTTTGTTTCAAGGAAAACTGTCTCAAG
1 GAGATAAA-TTTGTTTCAAGGGAAACTATCTCAAG
* *
596818 CGAGACAAAGTTTGTTTCAAGGGAAACAGAT-TCAA-
1 -GAGATAAA-TTTGTTTCAAGGGAAAC-TATCTCAAG
* *
596853 -AGAT--TTTTGTTTCAAGGG-AACAGAT-TCAA-
1 GAGATAAATTTGTTTCAAGGGAAAC-TATCTCAAG
*
596882 -AGAT--TTTTGTTTCAAGGGAAACTATCTCAAGG
1 GAGATAAATTTGTTTCAAGGGAAACTATCTCAA-G
*
596914 GAGATAAATTTGTTTCAAGGGAAACAGAT-TC-A-
1 GAGATAAATTTGTTTCAAGGGAAAC-TATCTCAAG
* *
596946 -A-AT---TGGTGTTTCAAGGGAAACTGTCTCAAG
1 GAGATAAAT-TTGTTTCAAGGGAAACTATCTCAAG
* *
596976 AGAGACAAAACTTTGTTTC-A--GAAACTGTCTCAAGG
1 -GAGA-TAAA-TTTGTTTCAAGGGAAACTATCTCAA-G
*
597011 GAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAGG
1 GAGA-TAAA-TTTGTTTCAAGGGAAACTATCTCAA-G
* * * * *
597048 GAGACAAATTTGTTTTAAAGAAAACAATCTCAAG
1 GAGATAAATTTGTTTCAAGGGAAACTATCTCAAG
* *
597082 TGAGATTAATTTTGTTTTAAGG
1 -GAGA-TAAATTTGTTTCAAGG
597104 AAAATTGTCT
Statistics
Matches: 234, Mismatches: 24, Indels: 54
0.75 0.08 0.17
Matches are distributed among these distances:
27 2 0.01
28 17 0.07
29 32 0.14
30 22 0.09
31 1 0.00
32 1 0.00
33 8 0.03
34 33 0.14
35 46 0.20
36 46 0.20
37 25 0.11
38 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (34 bp):
GAGATAAATTTGTTTCAAGGGAAACTATCTCAAG
Found at i:596966 original size:63 final size:66
Alignment explanation
Indices: 596858--596995 Score: 194
Period size: 63 Copynumber: 2.1 Consensus size: 66
596848 TTCAAAGATT
** * *
596858 TTTGTTTCAAGGGAACAGATTCAAAGATTTTTGTTTCAAGGGAAACTATCTCAAGGGAGA-TAAA
1 TTTGTTTCAAGGGAACAGATTCAAAGATTGGTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
596922 -
66 C
*
596922 TTTGTTTCAAGGGAAACAGATTC-AA-ATTGGTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTCAAGGG-AACAGATTCAAAGATTGGTGTTTCAAGGGAAACTATCTCAAGAGAGACAAA
596985 AC
65 AC
596987 TTTGTTTCA
1 TTTGTTTCA
596996 GAAACTGTCT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
63 30 0.45
64 18 0.27
65 18 0.27
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (66 bp):
TTTGTTTCAAGGGAACAGATTCAAAGATTGGTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
C
Found at i:597046 original size:37 final size:37
Alignment explanation
Indices: 596952--597086 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 37
596942 TTCAAATTGG
* *
596952 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTT
*
596989 TGTTTC-A--GAAACTGTCTCAAGGGAGACAAAACTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTT
597023 TGTTTCAAGGGAAACTATCTCAAGGGAGAC-AAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTT
* * * * *
597058 TGTTTTAAAGAAAACAATCTCAAGTGAGA
1 TGTTTCAAGGGAAACTATCTCAAGGGAGA
597087 TTAATTTTGT
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
34 32 0.36
35 27 0.31
36 4 0.05
37 25 0.28
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAACTT
Found at i:597096 original size:71 final size:71
Alignment explanation
Indices: 596952--597181 Score: 209
Period size: 71 Copynumber: 3.2 Consensus size: 71
596942 TTCAAATTGG
* * *
596952 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTG-TTTCAG-AAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGAAAACTATCTCAAGTGAGA
*
597015 CAAAACTT
65 -TAAACTT
* * *
597023 TGTTTCAAGGGAAACTATCTCAAGGGAGAC-AAATTTGTTTTAAAGAAAACAATCTCAAGTGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTT-AAGAAAACTATCTCAAGTGAGA
* *
597087 TTAATTT
65 TAAACTT
* * * * *
597094 TGTTTTAAGGAAAATTGTCTCAA-ATGAGACAAAAATTGTTCTTTAAGAAAACTATCAT-ATGTG
1 TGTTTCAAGGGAAACTGTCTCAAGA-GAGACAAAATTTG-T-TTTAAGAAAACTATC-TCAAGTG
*
597157 AGATCAACTT
62 AGATAAACTT
* *
597167 TGATTCAAGTGAAAC
1 TGTTTCAAGGGAAAC
597182 AAACTCGAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
69 4 0.03
70 6 0.05
71 58 0.46
72 21 0.17
73 34 0.27
74 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (71 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAAAACTATCTCAAGTGAGAT
AAACTT
Found at i:597115 original size:36 final size:35
Alignment explanation
Indices: 596952--597149 Score: 134
Period size: 36 Copynumber: 5.5 Consensus size: 35
596942 TTCAAATTGG
* * * *
596952 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTTAAGGAAAACTATCTCAAGTGAGAC-AAA-TT
* * *
596989 TG-TTTCA-G-AAACTGTCTCAAGGGAGACAAAACTT
1 TGTTTTAAGGAAAACTATCTCAAGTGAGAC-AAA-TT
* * *
597023 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAATT
1 TGTTTTAAGGAAAACTATCTCAAGTGAGACAAATT
* * * *
597058 TGTTTTAAAGAAAACAATCTCAAGTGAGATTAATTT
1 TGTTTTAAGGAAAACTATCTCAAGTGAGA-CAAATT
* * * *
597094 TGTTTTAAGGAAAATTGTCTCAAATGAGACAAAAAT
1 TGTTTTAAGGAAAACTATCTCAAGTGAGAC-AAATT
597130 TGTTCTTTAA-GAAAACTATC
1 TG-T-TTTAAGGAAAACTATC
597150 ATATGTGAGA
Statistics
Matches: 131, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
34 27 0.21
35 30 0.23
36 40 0.31
37 29 0.22
38 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (35 bp):
TGTTTTAAGGAAAACTATCTCAAGTGAGACAAATT
Found at i:597447 original size:148 final size:150
Alignment explanation
Indices: 597263--597560 Score: 550
Period size: 148 Copynumber: 2.0 Consensus size: 150
597253 GAGCGAGATA
597263 AATTGGTTTCGAGGAAACAATCTCAAAGGTGAGATAAAATATGTTTTAAG-AAAACAATCTTGAG
1 AATTGGTTTCGAGGAAACAATCTCAAAGGTGAGATAAAATATGTTTTAAGAAAAACAATCTTGAG
597327 TAAAACAAAATATATTATTTCGAGTAAAATAGTCTC-A-AGAGATGAAGTCTTTTTTAAGAGAGA
66 TAAAACAAAA-ATATTATTTCGAGTAAAATAGTCTCAAGAGAGATGAAGTCTTTTTTAAGAGAGA
597390 CGATCTCAAA-GATTATAGAC
130 CGATCTCAAAGGATTATAGAC
597410 AATTGGTTTCGAGGGAAACAATCTCAAAGGTGAGATAAAATATGTTTTAAGAAAAACAATCTTGA
1 AATTGGTTTCGA-GGAAACAATCTCAAAGGTGAGATAAAATATGTTTTAAGAAAAACAATCTTGA
597475 GTAAAACAAAAATATTATTTCGAGTAAAATAGTCTCAAGAGAGATGAAGTCTTTTTTAAGAGAGA
65 GTAAAACAAAAATATTATTTCGAGTAAAATAGTCTCAAGAGAGATGAAGTCTTTTTTAAGAGAGA
597540 CGATCTCAAAGGATTATAGAC
130 CGATCTCAAAGGATTATAGAC
597561 TGTCCACTCC
Statistics
Matches: 146, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
147 12 0.08
148 63 0.43
149 25 0.17
150 36 0.25
151 10 0.07
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (150 bp):
AATTGGTTTCGAGGAAACAATCTCAAAGGTGAGATAAAATATGTTTTAAGAAAAACAATCTTGAG
TAAAACAAAAATATTATTTCGAGTAAAATAGTCTCAAGAGAGATGAAGTCTTTTTTAAGAGAGAC
GATCTCAAAGGATTATAGAC
Found at i:597658 original size:32 final size:32
Alignment explanation
Indices: 597617--597680 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
597607 TTCATCTTTG
597617 GATGTTGAATCCCCAAAGATGCACCAACATTC
1 GATGTTGAATCCCCAAAGATGCACCAACATTC
* * *
597649 GATGTTGAATCTCCAAAGATGCCCCATCATTC
1 GATGTTGAATCCCCAAAGATGCACCAACATTC
597681 ATCGTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAGATGCACCAACATTC
Found at i:598682 original size:18 final size:17
Alignment explanation
Indices: 598659--598732 Score: 50
Period size: 18 Copynumber: 4.5 Consensus size: 17
598649 TGATTTGTTT
598659 TTTTTTCTATTTTTTTC
1 TTTTTTCTATTTTTTTC
598676 ATTTTTTC-A---TTTTC
1 -TTTTTTCTATTTTTTTC
**
598690 ATTTTTTCT-CCTTTTTC
1 -TTTTTTCTATTTTTTTC
* *
598707 TTTTTGCTATATCTTTTC
1 TTTTTTCTAT-TTTTTTC
598725 TTTTTTCT
1 TTTTTTCT
598733 CTTTGTGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 13 0.29
16 7 0.16
17 6 0.13
18 19 0.42
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTTTCTATTTTTTTC
Found at i:598688 original size:14 final size:14
Alignment explanation
Indices: 598671--598697 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
598661 TTTTCTATTT
598671 TTTTCATTTTTTCA
1 TTTTCATTTTTTCA
598685 TTTTCATTTTTTC
1 TTTTCATTTTTTC
598698 TCCTTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCATTTTTTCA
Found at i:598706 original size:23 final size:24
Alignment explanation
Indices: 598661--598716 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
598651 ATTTGTTTTT
*
598661 TTTTCTATTTTTTTCATTTTTTCA
1 TTTTCTATTTTTTTCACTTTTTCA
*
598685 TTTTC-ATTTTTTCTC-CTTTTTCT
1 TTTTCTATTTTTT-TCACTTTTTCA
598708 TTTTGCTAT
1 TTTT-CTAT
598717 ATCTTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 17 0.63
24 8 0.30
25 2 0.07
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTTCTATTTTTTTCACTTTTTCA
Found at i:603225 original size:18 final size:19
Alignment explanation
Indices: 603188--603226 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
603178 GTCTGCTGGG
603188 ATTGGGCCTGAACTGGGTT
1 ATTGGGCCTGAACTGGGTT
*
603207 ATTGGGTCTGAAC-GGGTT
1 ATTGGGCCTGAACTGGGTT
603225 AT
1 AT
603227 AAATTGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.18, C:0.13, G:0.36, T:0.33
Consensus pattern (19 bp):
ATTGGGCCTGAACTGGGTT
Found at i:603322 original size:3 final size:3
Alignment explanation
Indices: 603314--603343 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
603304 TATAAAGAAA
603314 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
603344 AATATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:604019 original size:18 final size:19
Alignment explanation
Indices: 603982--604019 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
603972 TCTGCTGGGA
603982 TTGGGCCGAAACCAAGTTG
1 TTGGGCCGAAACCAAGTTG
604001 TTGGGCCTG-AACC-AGTTG
1 TTGGGCC-GAAACCAAGTTG
604019 T
1 T
604020 AAACTGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 11 0.61
20 1 0.06
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (19 bp):
TTGGGCCGAAACCAAGTTG
Found at i:604109 original size:3 final size:3
Alignment explanation
Indices: 604101--604155 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
604091 GGGCTTTGTA
604101 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
604147 -AT AAT AAT A
1 AAT AAT AAT A
604156 TTAGTATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:604163 original size:21 final size:22
Alignment explanation
Indices: 604102--604170 Score: 99
Period size: 21 Copynumber: 3.3 Consensus size: 22
604092 GGCTTTGTAA
604102 ATAATAATAATAATAATA-ATA
1 ATAATAATAATAATAATATATA
604123 ATAATAATAATAATAATATATA
1 ATAATAATAATAATAATATATA
* *
604145 AT-ATAATAATATTAGTATAT-
1 ATAATAATAATAATAATATATA
604165 ATAATA
1 ATAATA
604171 GATACGTCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.05
21 37 0.84
22 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (22 bp):
ATAATAATAATAATAATATATA
Found at i:604166 original size:18 final size:17
Alignment explanation
Indices: 604101--604170 Score: 85
Period size: 15 Copynumber: 4.2 Consensus size: 17
604091 GGGCTTTGTA
604101 AATAATAATA-ATA-AT
1 AATAATAATATATATAT
604116 AATAATAATA-ATA-AT
1 AATAATAATATATATAT
604131 AATAATAATATATAATAT
1 AATAATAATATAT-ATAT
*
604149 AATAATATTAGTATATAT
1 AATAATAATA-TATATAT
604167 AATA
1 AATA
604171 GATACGTCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
15 25 0.50
16 2 0.04
17 1 0.02
18 19 0.38
19 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (17 bp):
AATAATAATATATATAT
Found at i:605348 original size:28 final size:31
Alignment explanation
Indices: 605327--605382 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
605317 TAAAATAATA
*
605327 AAAACAACA-AATA-AAAAATAAAA-ACAGT
1 AAAACAACATAAAATAAAAATAAAATACAGT
605355 AAAACAACATAAAATAAAAATAAAATAC
1 AAAACAACATAAAATAAAAATAAAATAC
605383 GAGGACCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 3 0.12
30 10 0.42
31 2 0.08
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.12
Consensus pattern (31 bp):
AAAACAACATAAAATAAAAATAAAATACAGT
Found at i:606081 original size:14 final size:14
Alignment explanation
Indices: 606064--606091 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
606054 AAATATAGAT
606064 TAAAAATTAAAAGG
1 TAAAAATTAAAAGG
606078 TAAAAATTAAAAGG
1 TAAAAATTAAAAGG
606092 CTAGAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (14 bp):
TAAAAATTAAAAGG
Found at i:612541 original size:30 final size:30
Alignment explanation
Indices: 612505--612564 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
612495 ACCATGGGGT
612505 TATGCTTTGCGCCACCATCAATTTTTCTTC
1 TATGCTTTGCGCCACCATCAATTTTTCTTC
*
612535 TATGCTTTGTGCCACCATCAATTTTTCTTC
1 TATGCTTTGCGCCACCATCAATTTTTCTTC
612565 AGGAAATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.28, G:0.10, T:0.45
Consensus pattern (30 bp):
TATGCTTTGCGCCACCATCAATTTTTCTTC
Found at i:614317 original size:20 final size:20
Alignment explanation
Indices: 614292--614342 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
614282 GATGCAATCG
614292 GTATCGATACCGAAAAGAAA
1 GTATCGATACCGAAAAGAAA
* **
614312 GTATCGATACTGAAGGGAAA
1 GTATCGATACCGAAAAGAAA
614332 GTATCGATACC
1 GTATCGATACC
614343 ATTCAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (20 bp):
GTATCGATACCGAAAAGAAA
Found at i:614417 original size:22 final size:19
Alignment explanation
Indices: 614366--614419 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
614356 TGCAAAAATG
614366 GTATCGATACCATAATAGA
1 GTATCGATACCATAATAGA
* *
614385 GTATTGGTACCATAGTATAGTA
1 GTATCGATACCATA--ATAG-A
614407 GTATCGATACCAT
1 GTATCGATACCAT
614420 GGTAGGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:614863 original size:55 final size:55
Alignment explanation
Indices: 614775--615291 Score: 743
Period size: 55 Copynumber: 9.4 Consensus size: 55
614765 AAGTGTGCAA
* *
614775 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGAGCATTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * *
614830 AAATTTAAGAAATTCATACTAAGTGGATAAATTT-TCGTATGGGCACCTTGTGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATGGGCACTTTATGTGT
* * *
614885 AAACTTAAGGAATTCATACTAAGTGGATGAATTTATGTATGGGCACATTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * *
614940 AAAATTAAGAAATCCATACTAAGTGGATGAATTT-TCGTATGGGCACTTTGTGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATGGGCACTTTATGTGT
*
614995 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTATATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * *
615050 AAACTTAATAAATTCATACTAAGTGGATGAATTTCCGTATGGACACTTTGTGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
*
615105 AAACCTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * *
615160 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACCTTGTGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
* * * * *
615215 AAACTTAAGGAGTTAATACTAAGTGGATGAATTTTTGTATGGGCACTTTATGTGCA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTG-T
*
615271 AAAC-TAGGAAATTCATACTAA
1 AAACTTAAGAAATTCATACTAA
615292 AAGTATAAAT
Statistics
Matches: 411, Mismatches: 46, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
54 2 0.00
55 403 0.98
56 6 0.01
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGT
Found at i:619339 original size:2 final size:2
Alignment explanation
Indices: 619332--619367 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
619322 GGCATCACCA
619332 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
619368 GAGGTTAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:619489 original size:115 final size:117
Alignment explanation
Indices: 619358--619583 Score: 357
Period size: 115 Copynumber: 1.9 Consensus size: 117
619348 ATATATATAA
* *
619358 TATATATATAGAGGTTAGGATCCACTTACACCTAGAGTAGAACTTTTAGTTTTACACTCTTTAAG
1 TATATATATAGAGGTTAGGATCCACTTACACCTAGAGTAAAACTTATAGTTTTACACTCTTTAAG
* *
619423 GATCATTGGATGAGGGGAAATCAAAGGTTGAGAATAACTCATTTTTTTACAG
66 GATCATTAGATGAGGGGAAATCAAAGGATGAGAATAACTCATTTTTTTACAG
* *
619475 TATATATAT-G-GGTTAGGATCCACTTACACCTAGGGTAAAACTTATAGTTTTACACTCTTTTAG
1 TATATATATAGAGGTTAGGATCCACTTACACCTAGAGTAAAACTTATAGTTTTACACTCTTTAAG
* * *
619538 GGTCTTTAGATGAGGGGAAATCAAAGGATGAGATTAACTCATTTTT
66 GATCATTAGATGAGGGGAAATCAAAGGATGAGAATAACTCATTTTT
619584 CCCGATAAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 90 0.90
116 1 0.01
117 9 0.09
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (117 bp):
TATATATATAGAGGTTAGGATCCACTTACACCTAGAGTAAAACTTATAGTTTTACACTCTTTAAG
GATCATTAGATGAGGGGAAATCAAAGGATGAGAATAACTCATTTTTTTACAG
Found at i:619710 original size:2 final size:2
Alignment explanation
Indices: 619703--619771 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
619693 ATCCTAGCCC
619703 TA TA TA TA TA TA T- TA TA TA TA TA TA TA T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
619742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
619772 CACACAACAC
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 61 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:621569 original size:20 final size:20
Alignment explanation
Indices: 621544--621583 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
621534 CTTAGATCGT
*
621544 CGGGGCTACTTTCTGTCGCC
1 CGGGGCGACTTTCTGTCGCC
621564 CGGGGCGACTTTCTGTCGCC
1 CGGGGCGACTTTCTGTCGCC
621584 AGAGTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.35, G:0.33, T:0.28
Consensus pattern (20 bp):
CGGGGCGACTTTCTGTCGCC
Found at i:621957 original size:15 final size:16
Alignment explanation
Indices: 621931--621963 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
621921 TTTTAATCGT
621931 TAACTTTCTAATTTAC
1 TAACTTTCTAATTTAC
621947 TAACTTT-TAATTTAC
1 TAACTTTCTAATTTAC
621962 TA
1 TA
621964 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (16 bp):
TAACTTTCTAATTTAC
Found at i:622802 original size:138 final size:138
Alignment explanation
Indices: 622411--622765 Score: 511
Period size: 138 Copynumber: 2.6 Consensus size: 138
622401 ATTCCTTTTA
* * *
622411 ATTTAGTCCTTTAATTTG-GGGGAATTTTTAATTTGGTCATCGT-TTTTGCTCGAGGTTTCATTT
1 ATTTAGTCCTTTAA-TTGAGGGGAATTCTTAATTTGATCATC-TCTTTTGCTCGAGGTTCCATTT
* * *
622474 TAATTATTCGATTCAATAATTGGTT-AAATTGACTACGTTAACAATTAGAGTCTCCACTTTAGGC
64 TAATTATTCGATTCAATAATTGGTTAAAATTGACTAGGTTAACAATTAGAGCCTCCACTTCAGGC
622538 TTAATTTCAT
129 TTAATTTCAT
* * *
622548 ATTTAGTCCTTTAATTTAGGGGAATTCTTAATTTGATCCTCGCTTTTTG-TCGAGGTTCCATTTT
1 ATTTAGTCCTTTAATTGAGGGGAATTCTTAATTTGATCATCTC-TTTTGCTCGAGGTTCCATTTT
**
622612 AATTATTTAATTCAATAATTGGTTAAAATTGACTAGGTTAACAATTAGAGCCTCCACTTCAGGCT
65 AATTATTCGATTCAATAATTGGTTAAAATTGACTAGGTTAACAATTAGAGCCTCCACTTCAGGCT
622677 TAATTTCAT
130 TAATTTCAT
* * *
622686 ATTTAGTCCTTTAACTGAAGGGAATTCTTAATTTGTTCATCTCTTTTGCTCGAGGTTCCATTTTA
1 ATTTAGTCCTTTAATTGAGGGGAATTCTTAATTTGATCATCTCTTTTGCTCGAGGTTCCATTTTA
* *
622751 CTTACTCGATTCAAT
66 ATTATTCGATTCAAT
622766 GATTTATTAA
Statistics
Matches: 192, Mismatches: 21, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
136 2 0.01
137 75 0.39
138 115 0.60
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (138 bp):
ATTTAGTCCTTTAATTGAGGGGAATTCTTAATTTGATCATCTCTTTTGCTCGAGGTTCCATTTTA
ATTATTCGATTCAATAATTGGTTAAAATTGACTAGGTTAACAATTAGAGCCTCCACTTCAGGCTT
AATTTCAT
Found at i:624815 original size:2 final size:2
Alignment explanation
Indices: 624810--624835 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
624800 TGTGTGTGAG
624810 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
624836 GAATATAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:627731 original size:13 final size:14
Alignment explanation
Indices: 627709--627755 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 14
627699 GACTTGGACC
*
627709 TAAA-AAAAAT-AG
1 TAAATAAAAATAAA
627721 TAAATAAAAATAAA
1 TAAATAAAAATAAA
627735 TAAAT--AAATAAA
1 TAAATAAAAATAAA
627747 T-AATAAAAA
1 TAAATAAAAA
627756 ATTATATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 3 0.10
12 12 0.40
13 9 0.30
14 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAATAAAAATAAA
Found at i:627743 original size:12 final size:11
Alignment explanation
Indices: 627721--627757 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
627711 AAAAAAATAG
627721 TAAATAA-AAA
1 TAAATAATAAA
627731 TAAATAAATAAA
1 TAAAT-AATAAA
627743 TAAATAATAAA
1 TAAATAATAAA
627754 -AAAT
1 TAAAT
627758 TATATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.36
11 8 0.32
12 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:627925 original size:28 final size:28
Alignment explanation
Indices: 627894--627961 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
627884 TATTTCCAAA
*
627894 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAAACTATATAATATATAT
627922 ATGTTTTCAAAAACTATATAATATATAT
1 ATGTTTTCAAAAACTATATAATATATAT
*
627950 TTGTTTTCAAAA
1 ATGTTTTCAAAA
627962 TATTTTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (28 bp):
ATGTTTTCAAAAACTATATAATATATAT
Found at i:627933 original size:39 final size:38
Alignment explanation
Indices: 627828--628113 Score: 344
Period size: 39 Copynumber: 7.7 Consensus size: 38
627818 AAAACTTTTT
* *
627828 AAAATTATATATTATATATA-CTTTCAAAATGTTTTTCA
1 AAAACTATATATTATATATATTTTTCAAAATG-TTTTCA
*
627866 AAAACTATATATTATATATA-TTTCCAAAATGTTTTCA
1 AAAACTATATATTATATATATTTTTCAAAATGTTTTCA
627903 AAAACTATATA-T-TATATA----T----ATGTTTTCA
1 AAAACTATATATTATATATATTTTTCAAAATGTTTTCA
* * *
627931 AAAACTATATAATATATATTTGTTTTCAAAATATTTTCA
1 AAAACTATATATTATATATAT-TTTTCAAAATGTTTTCA
* *
627970 AAAACCATATATTATATATGTATATTTCCAAAATGTTTTCA
1 AAAACTATATATTATATA--TAT-TTTTCAAAATGTTTTCA
628011 AAAACTATATATTATATATATGTTTTCAAAATGTTTTCA
1 AAAACTATATATTATATATAT-TTTTCAAAATGTTTTCA
*
628050 AAAACTATATATTATATATATATTTTCAAACTGTTTTCA
1 AAAACTATATATTATATATAT-TTTTCAAAATGTTTTCA
628089 AAAACTATATATTATATATATTTTT
1 AAAACTATATATTATATATATTTTT
628114 GAAACAAATT
Statistics
Matches: 218, Mismatches: 17, Indels: 26
0.84 0.07 0.10
Matches are distributed among these distances:
28 20 0.09
29 1 0.00
30 5 0.02
35 7 0.03
36 1 0.00
37 17 0.08
38 32 0.15
39 101 0.46
41 34 0.16
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (38 bp):
AAAACTATATATTATATATATTTTTCAAAATGTTTTCA
Found at i:628007 original size:80 final size:78
Alignment explanation
Indices: 627922--628113 Score: 305
Period size: 80 Copynumber: 2.4 Consensus size: 78
627912 TATTATATAT
* *
627922 ATGTTTTCAAAAACTATATAATATATATTTGTTTTCAAAATATTTTCAAAAACCATATATTATAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATATTTTCAAAAACCATATATTATAT
627987 ATGTATATTTCCAAA
66 A--TATATTTCCAAA
* *
628002 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATGTTTTCAAAAACTATATATTATAT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATATTTTCAAAAACCATATATTATAT
*
628067 ATATATTTTCAAA
66 ATATATTTCCAAA
*
628080 CTGTTTTCAAAAACTATATATTATATATAT-TTTT
1 ATGTTTTCAAAAACTATATATTATATATATGTTTT
628114 GAAACAAATT
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
77 4 0.04
78 40 0.38
80 62 0.58
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (78 bp):
ATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAATATTTTCAAAAACCATATATTATAT
ATATATTTCCAAA
Found at i:628079 original size:108 final size:104
Alignment explanation
Indices: 627841--628041 Score: 287
Period size: 108 Copynumber: 1.9 Consensus size: 104
627831 ATTATATATT
*
627841 ATATATACTT-TCAAAATGTTTTTCAAAAACTATATATTATATATATTTCCAAAATGTTTTCAAA
1 ATATATA-TTATCAAAAT-ATTTTCAAAAACTATATATTATATATATTTCCAAAATGTTTTCAAA
*
627905 AACTATATATTATATATATGTTTTCAAAAACTATATAATAT
64 AACTATATATTATATATATGTTTTCAAAAACTATATAATAA
* * * *
627946 ATATTTGTTTTCAAAATATTTTCAAAAACCATATATTATATATGTATATTTCCAAAATGTTTTCA
1 ATATATATTATCAAAATATTTTCAAAAA-C-TATA-TAT-TATATATATTTCCAAAATGTTTTCA
628011 AAAACTATATATTATATATATGTTTTCAAAA
62 AAAACTATATATTATATATATGTTTTCAAAA
628042 TGTTTTCAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
104 12 0.14
105 13 0.15
106 4 0.05
107 3 0.03
108 55 0.63
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (104 bp):
ATATATATTATCAAAATATTTTCAAAAACTATATATTATATATATTTCCAAAATGTTTTCAAAAA
CTATATATTATATATATGTTTTCAAAAACTATATAATAA
Found at i:628112 original size:26 final size:28
Alignment explanation
Indices: 628083--628137 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
628073 TTTCAAACTG
*
628083 TTTTCAAA-AACTATATATTATATATAT
1 TTTTCAAACAAATATATATTATATATAT
* *
628110 TTTTGAAACAAATTTATATTATATATAT
1 TTTTCAAACAAATATATATTATATATAT
628138 ATATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTTCAAACAAATATATATTATATATAT
Found at i:630601 original size:38 final size:38
Alignment explanation
Indices: 630550--630626 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
630540 ATTTTGTGAA
630550 ATAGTCGATTGCTACAAGGATGAACAGATGACCATTTG
1 ATAGTCGATTGCTACAAGGATGAACAGATGACCATTTG
630588 ATAGTCGATTGCTACAAGGATGAACAGATGACCATTTG
1 ATAGTCGATTGCTACAAGGATGAACAGATGACCATTTG
630626 A
1 A
630627 AGCCTTCGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (38 bp):
ATAGTCGATTGCTACAAGGATGAACAGATGACCATTTG
Found at i:632426 original size:20 final size:20
Alignment explanation
Indices: 632401--632451 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
632391 GTCAAGGGAT
632401 GTACCGATACCATATAGAGG
1 GTACCGATACCATATAGAGG
*
632421 GTACCGATACCCTATAGAGG
1 GTACCGATACCATATAGAGG
*
632441 GTACCAATACC
1 GTACCGATACC
632452 TACTTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (20 bp):
GTACCGATACCATATAGAGG
Found at i:632994 original size:79 final size:79
Alignment explanation
Indices: 632794--633039 Score: 314
Period size: 79 Copynumber: 3.1 Consensus size: 79
632784 AAACTAATGA
* *
632794 ATAAAAGAATAATACATATAGGTGCATTAATGGCATGAAAGGATGCCTCAGCTGATATGTATATG
1 ATAAAAGAATAATGCATATAGGTGCATTAATGGCATGAAAGGATGCCTAAGCTGATATGTATAT-
632859 GGGTACATTATC-GAC
65 GGGTACATTATCAG-C
* * *
632874 ATAAAAGAAAAATGCATATATGTGCATTAATGGCATGAAAGGATGCCTTAGCTGATATGTATATG
1 ATAAAAGAATAATGCATATAGGTGCATTAATGGCATGAAAGGATGCCTAAGCTGATATGTATATG
632939 GGTACATTATCAGC
66 GGTACATTATCAGC
* * * * * * * * * *
632953 ATAACAGAATAATGCATATGGGTGCATTATTAGCATAAAAGGACGCCAAAGTTGAAATGCATATG
1 ATAAAAGAATAATGCATATAGGTGCATTAATGGCATGAAAGGATGCCTAAGCTGATATGTATATG
* *
633018 GGTGCATTATCAAC
66 GGTACATTATCAGC
633032 ATAAAAGA
1 ATAAAAGA
633040 GAAAATCATA
Statistics
Matches: 145, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 84 0.58
80 61 0.42
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATAGGTGCATTAATGGCATGAAAGGATGCCTAAGCTGATATGTATATG
GGTACATTATCAGC
Found at i:633142 original size:60 final size:59
Alignment explanation
Indices: 633042--633243 Score: 293
Period size: 60 Copynumber: 3.4 Consensus size: 59
633032 ATAAAAGAGA
* *
633042 AAATCATACTAAGTGTATAAATTTCTAGATAAGGGCACTTTGTGTGCTGAAATGATAAGG
1 AAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCT-AAATGATAAGG
* * *
633102 AAACCATACTAAGTGTATGAATTTCCAGTTAAGGGAACTTTGTGTGCTAAAATGATAAGG
1 AAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCT-AAATGATAAGG
* *
633162 AAATCATACTAAGTGTATGAATTTCCAGATAAGGGCTCTTTTTGTGCTAAATGAT-AGG
1 AAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAATGATAAGG
*
633220 AAATC--ACTAAGTGTATGACTTTCC
1 AAATCATACTAAGTGTATGAATTTCC
633244 GTATAGAAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
56 18 0.14
58 8 0.06
59 7 0.05
60 97 0.75
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (59 bp):
AAATCATACTAAGTGTATGAATTTCCAGATAAGGGCACTTTGTGTGCTAAATGATAAGG
Found at i:633437 original size:14 final size:14
Alignment explanation
Indices: 633420--633447 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
633410 AATTACCATG
633420 TGAGCATTAAGGGT
1 TGAGCATTAAGGGT
633434 TGAGCATTAAGGGT
1 TGAGCATTAAGGGT
633448 GCAATGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
TGAGCATTAAGGGT
Found at i:633830 original size:2 final size:2
Alignment explanation
Indices: 633823--633856 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
633813 TTAAGAGATA
633823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
633857 CAACAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:639069 original size:61 final size:60
Alignment explanation
Indices: 638953--639075 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 60
638943 GAAATAAGGG
638953 GCCTTTAGCGTTTGAACAAAGAGCTTCCGATTTCCTTCTCATTCAAGGGTGGATGAATTT
1 GCCTTTAGCGTTTGAACAAAGAGCTTCCGATTTCCTTCTCATTCAAGGGTGGATGAATTT
639013 GCCTTTAGCGTTTGAACAAAGAGCTTCCTGATTTCCTTCTCATTCAAGGGTGGATGAATTT
1 GCCTTTAGCGTTTGAACAAAGAGCTTCC-GATTTCCTTCTCATTCAAGGGTGGATGAATTT
639074 GC
1 GC
639076 ACAGTTAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 28 0.45
61 34 0.55
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (60 bp):
GCCTTTAGCGTTTGAACAAAGAGCTTCCGATTTCCTTCTCATTCAAGGGTGGATGAATTT
Found at i:642262 original size:33 final size:33
Alignment explanation
Indices: 642216--642283 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
642206 TTGAAAGTAA
* *
642216 TTTTGAAAAATTACTCGCCCTTACTATAACAAC
1 TTTTAAAAAATTACTCCCCCTTACTATAACAAC
642249 TTTTAAAAAATTACTCCCCCTTACTATAACAAC
1 TTTTAAAAAATTACTCCCCCTTACTATAACAAC
642282 TT
1 TT
642284 CTCCCCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (33 bp):
TTTTAAAAAATTACTCCCCCTTACTATAACAAC
Found at i:643406 original size:15 final size:15
Alignment explanation
Indices: 643386--643415 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
643376 TATTTCATTT
643386 TCATTATCTAATCCA
1 TCATTATCTAATCCA
643401 TCATTATCTAATCCA
1 TCATTATCTAATCCA
643416 AATGCATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (15 bp):
TCATTATCTAATCCA
Found at i:644542 original size:22 final size:22
Alignment explanation
Indices: 644446--644549 Score: 99
Period size: 23 Copynumber: 4.8 Consensus size: 22
644436 AACCAGAACC
*
644446 CAAAGAGGTATCGGTA-CC--T
1 CAAAGGGGTATCGGTACCCATT
* * *
644465 CATAGAGGGTATCGATACCAATT
1 CAAAG-GGGTATCGGTACCCATT
*
644488 CAAA-TGGTATCGGTACCCATT
1 CAAAGGGGTATCGGTACCCATT
*
644509 TAAAGGGGGTATCGGTACCCATT
1 CAAA-GGGGTATCGGTACCCATT
*
644532 CAAAGGGGTATCGATACC
1 CAAAGGGGTATCGGTACC
644550 TAGCGCATAG
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.06
20 9 0.13
21 18 0.27
22 13 0.19
23 23 0.34
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (22 bp):
CAAAGGGGTATCGGTACCCATT
Found at i:656162 original size:22 final size:23
Alignment explanation
Indices: 656137--656195 Score: 84
Period size: 22 Copynumber: 2.5 Consensus size: 23
656127 ACCTAAAAAT
656137 AAAAATAAAAAAT-AGTAAATAA
1 AAAAATAAAAAATAAGTAAATAA
*
656159 AAAAATAATAAATAAGTAAATAA
1 AAAAATAAAAAATAAGTAAATAA
656182 ATAATAATAAAAAA
1 A-AA-AATAAAAAA
656196 CTATATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 12 0.38
23 10 0.31
24 2 0.06
25 8 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (23 bp):
AAAAATAAAAAATAAGTAAATAA
Found at i:656163 original size:15 final size:15
Alignment explanation
Indices: 656131--656195 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
656121 ACTTGGACCT
656131 AAAAATAA-AAAT-A
1 AAAAATAATAAATAA
*
656144 AAAAATAGTAAATAA
1 AAAAATAATAAATAA
656159 AAAAATAATAAATAAGTA
1 AAAAATAATAAAT-A--A
656177 AATAAATAAT-AATAA
1 AA-AAATAATAAATAA
656192 AAAA
1 AAAA
656196 CTATATTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
13 7 0.16
14 6 0.14
15 16 0.36
16 1 0.02
17 1 0.02
18 6 0.14
19 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAAATAATAAATAA
Found at i:656292 original size:36 final size:37
Alignment explanation
Indices: 656252--656324 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
656242 TATGATGTAT
*
656252 TTTCAAAAACATTTT-AAAATTATATATTATATATAC
1 TTTCAAAAACATTTTAAAAACTATATATTATATATAC
***
656288 TTTCAAAATGTTTTTCAAAAACTATATATTATATATA
1 TTTCAAAAACATTTT-AAAAACTATATATTATATATA
656325 TGTTTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 12 0.39
38 19 0.61
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.45
Consensus pattern (37 bp):
TTTCAAAAACATTTTAAAAACTATATATTATATATAC
Found at i:656345 original size:31 final size:28
Alignment explanation
Indices: 656299--656356 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 28
656289 TTCAAAATGT
656299 TTTTCAAAAACTATA-TATTATATATATG
1 TTTTCAAAAACTATATTA-TATATATATG
656327 TTTTCAACAAACCATATATTATATATATAT
1 TTTTCAA-AAA-C-TATATTATATATATAT
656357 TTCCAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.27
29 3 0.12
30 1 0.04
31 13 0.50
32 2 0.08
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (28 bp):
TTTTCAAAAACTATATTATATATATATG
Found at i:656346 original size:67 final size:64
Alignment explanation
Indices: 656273--656458 Score: 239
Period size: 69 Copynumber: 2.8 Consensus size: 64
656263 TTTTAAAATT
656273 ATATATTATATATACTTTCAAAATGTTTTTCAAAAACTATATATTATATATATGTTTTCAACAAA
1 ATATATTATATATA-TTTCAAAATG-TTTTCAAAAACTATATATTATATATATGTTTTCAA-AAA
656338 CC
63 CC
*
656340 ATATATTATATATATATTTCCAAAATGTTTTCAAAAAAACTATATATTATTTATATGTTTTCAAA
1 ATATA-T-TATATATATTT-CAAAATGTTTTC--AAAAACTATATATTATATATATGTTTTCAAA
*
656405 AACT
61 AACC
* *
656409 ATATAATTTATATATATTT-AAAATATTTTCAAAAACCATATATTATATAT
1 ATAT-A-TTATATATATTTCAAAATGTTTTCAAAAACTATATATTATATAT
656459 TTCGAAAATG
Statistics
Matches: 108, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
65 18 0.17
67 15 0.14
68 9 0.08
69 34 0.31
70 32 0.30
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (64 bp):
ATATATTATATATATTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAAACC
Found at i:656351 original size:27 final size:28
Alignment explanation
Indices: 656299--656364 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
656289 TTCAAAATGT
*
656299 TTTTCAAAAACTATATATTATATATATG
1 TTTTCAAAAACCATATATTATATATATG
*
656327 TTTTCAACAAACCATATATTATATATATA
1 TTTTCAA-AAACCATATATTATATATATG
*
656356 TTTCCAAAA
1 TTTTCAAAA
656365 TGTTTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 25 0.74
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (28 bp):
TTTTCAAAAACCATATATTATATATATG
Found at i:656365 original size:69 final size:66
Alignment explanation
Indices: 656273--656458 Score: 252
Period size: 70 Copynumber: 2.8 Consensus size: 66
656263 TTTTAAAATT
*
656273 ATATATTATATATA-CTTTCAAAATGTTTTTCAAAAACTATATATTATATATATGTTTTCAACAA
1 ATATATTATATATATATTTCAAAATG-TTTTCAAAAACTATATATTATATATATGTTTTCAA-AA
656337 ACC
64 ACC
*
656340 ATATATTATATATATATTTCCAAAATGTTTTCAAAAAAACTATATATTATTTATATGTTTTCAAA
1 ATATATTATATATATATTT-CAAAATGTTTTC--AAAAACTATATATTATATATATGTTTTCAAA
*
656405 AACT
63 AACC
* *
656409 ATATAATT-TATATATATTT-AAAATATTTTCAAAAACCATATATTATATAT
1 ATAT-ATTATATATATATTTCAAAATGTTTTCAAAAACTATATATTATATAT
656459 TTCGAAAATG
Statistics
Matches: 108, Mismatches: 6, Indels: 12
0.86 0.05 0.10
Matches are distributed among these distances:
65 18 0.17
67 24 0.22
68 8 0.07
69 26 0.24
70 32 0.30
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (66 bp):
ATATATTATATATATATTTCAAAATGTTTTCAAAAACTATATATTATATATATGTTTTCAAAAAC
C
Found at i:656405 original size:28 final size:27
Alignment explanation
Indices: 656364--656421 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
656354 TATTTCCAAA
656364 ATGTTTTCAAAAAAACTATATATTATTTAT
1 ATGTTTTC-AAAAAACTATATA--ATTTAT
656394 ATGTTTTC-AAAAACTATATAATTTAT
1 ATGTTTTCAAAAAACTATATAATTTAT
656420 AT
1 AT
656422 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 8 0.29
28 12 0.43
30 8 0.29
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (27 bp):
ATGTTTTCAAAAAACTATATAATTTAT
Found at i:656425 original size:30 final size:29
Alignment explanation
Indices: 656364--656425 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
656354 TATTTCCAAA
*
656364 ATGTTTTCAAAAAAACTATATATTATTTAT
1 ATGTTTTC-AAAAAACTATATATTATATAT
656394 ATGTTTTC-AAAAACTATATAATTTATATAT
1 ATGTTTTCAAAAAACTATAT-A-TTATATAT
656424 AT
1 AT
656426 TTAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.38
29 1 0.03
30 17 0.59
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (29 bp):
ATGTTTTCAAAAAACTATATATTATATAT
Found at i:656431 original size:26 final size:27
Alignment explanation
Indices: 656374--656431 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 27
656364 ATGTTTTCAA
*
656374 AAAAACTATATATTATTTATATGTTTTC
1 AAAAACTATATA-TATTTATATATTTTC
656402 AAAAACTATATA-ATTTATATATATTT-
1 AAAAACTATATATATTTATATAT-TTTC
656428 AAAA
1 AAAA
656432 TATTTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 13 0.46
27 3 0.11
28 12 0.43
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (27 bp):
AAAAACTATATATATTTATATATTTTC
Found at i:656438 original size:37 final size:37
Alignment explanation
Indices: 656310--656498 Score: 150
Period size: 35 Copynumber: 5.2 Consensus size: 37
656300 TTTCAAAAAC
* *
656310 TATATATTATATATATGTTTTCAACAAACCATAT-ATTATA
1 TATATATT-TA-AAATGTTTTCAA-AAACTATATAATT-TA
656350 TATATATTTCCAAAATGTTTTCAAAAA--A-ACT-A--TA
1 TATATATTT--AAAATGTTTTCAAAAACTATA-TAATTTA
*
656384 TAT-TATTT-ATATGTTTTCAAAAACTATATAATTTA
1 TATATATTTAAAATGTTTTCAAAAACTATATAATTTA
* *
656419 TATATATTTAAAATATTTTCAAAAACCATAT-A-TTA
1 TATATATTTAAAATGTTTTCAAAAACTATATAATTTA
* *
656454 TATAT-TTCGAAAATGTTTTCAAAAACTATATATATATA
1 TATATATT-TAAAATGTTTTCAAAAACTATATA-ATTTA
656492 TATATAT
1 TATATAT
656499 ATATATATAT
Statistics
Matches: 124, Mismatches: 9, Indels: 33
0.75 0.05 0.20
Matches are distributed among these distances:
30 14 0.11
32 2 0.02
33 7 0.06
34 7 0.06
35 33 0.27
36 7 0.06
37 22 0.18
38 7 0.06
39 5 0.04
40 19 0.15
41 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (37 bp):
TATATATTTAAAATGTTTTCAAAAACTATATAATTTA
Found at i:656487 original size:2 final size:2
Alignment explanation
Indices: 656480--656512 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
656470 TTTCAAAAAC
656480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
656513 TCAAAGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:656493 original size:69 final size:65
Alignment explanation
Indices: 656267--656494 Score: 212
Period size: 69 Copynumber: 3.3 Consensus size: 65
656257 AAAACATTTT
* * * *
656267 AAAATTATATATTATATATACTTTCAAAATGTTTTTC--AAAAACTATATATTATATATATGTTT
1 AAAACTATATA-TATATATA-TTTCAAAAT-ATTTTCAAAAAAACTATATATTATTTAAATGTTT
656330 TCA
63 TCA
* *
656333 ACAAACCATATATTATATATATATTTCCAAAATGTTTTCAAAAAAACTATATATTATTTATATGT
1 A-AAA-C-TATA-TATATATATATTT-CAAAATATTTTCAAAAAAACTATATATTATTTAAATGT
656398 TTTCA
61 TTTCA
*
656403 AAAACTATATAATTTATATATATTT-AAAATATTTTC-AAAAACCATATATTATATATTTCGAAA
1 AAAACTATAT-A--TATATATATTTCAAAATATTTTCAAAAAAAC-TATA-TAT-TATTT---AA
656466 ATGTTTTCA
57 ATGTTTTCA
656475 AAAACTATATATATATATAT
1 AAAACTATATATATATATAT
656495 ATATATATAT
Statistics
Matches: 140, Mismatches: 6, Indels: 29
0.80 0.03 0.17
Matches are distributed among these distances:
66 8 0.06
67 22 0.16
68 12 0.09
69 46 0.33
70 31 0.22
71 1 0.01
72 20 0.14
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.44
Consensus pattern (65 bp):
AAAACTATATATATATATATTTCAAAATATTTTCAAAAAAACTATATATTATTTAAATGTTTTCA
Found at i:656523 original size:52 final size:50
Alignment explanation
Indices: 656446--656554 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 50
656436 TTCAAAAACC
656446 ATATATTATATATTTCGAAAATGTTTTCAAAAACTATATATATATATATAT
1 ATATATTATATATTTCGAAAATGTTTTCAAAAACTATATATAT-TATATAT
*
656497 ATATATATATATATATTC-AAAGTGTTTTCAAAAACTATATATATTATATAT
1 ATATAT-TATATAT-TTCGAAAATGTTTTCAAAAACTATATATATTATATAT
656548 ATATATT
1 ATATATT
656555 CAAAGTGGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
50 1 0.02
51 19 0.35
52 32 0.58
53 3 0.05
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (50 bp):
ATATATTATATATTTCGAAAATGTTTTCAAAAACTATATATATTATATAT
Found at i:658560 original size:13 final size:13
Alignment explanation
Indices: 658531--658559 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
658521 CTTACTTACG
658531 AAAATTAGAAATT
1 AAAATTAGAAATT
658544 AAAATTA-AAATT
1 AAAATTAGAAATT
658556 AAAA
1 AAAA
658560 AACTCGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAATTAGAAATT
Found at i:658647 original size:4 final size:4
Alignment explanation
Indices: 658638--658666 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
658628 CGTAAAATAG
658638 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
658667 TTTTAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:660603 original size:84 final size:84
Alignment explanation
Indices: 660419--661522 Score: 1256
Period size: 84 Copynumber: 13.1 Consensus size: 84
660409 ACTCAAAAAT
* ** ** * * ** *
660419 TTTTGTTGACAGATAGCTTTTCTTGAATTAAGCTATGTTGCAAATTTGACATGCCCTTGAGCTGA
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGA
* *
660484 GTGTAATTGAACTCAAAGGTC
64 GTGTAATCGAACTCGAAGGTC
* * * * *
660505 TTTTGTTGGCAGATAACCCTTCTTACCTTGAGTTATGCTGCAAATAATGTGCCTTTGATCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* *
660570 CTAATCGAACACGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * * * *
660589 TTTTATTAGAAGATAACCCTTCTTGCCTTGAGCTATGCTGAAAATAATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
660654 GTAATCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * *
660673 TTCTGATAGCAGATAGCCCTTCTTGCCTTGAGCTATGCGGCAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* **
660738 GTAATCAAACTCGAAAATC
66 GTAATCGAACTCGAAGGTC
* * * * * * * *
660757 TTTTATTAGTAGATAACCCTTTTTGCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGTTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* *
660822 GTAATCAAACTCGAAAGTC
66 GTAATCGAACTCGAAGGTC
* * * * *
660841 TTCTGTTGGTAGATAGCCCTTATTTCCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
*
660906 GTAATCAAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * * *
660925 TTCTGTTGGCAGATAGCCCCTTTTTTCCTTGAGCTATGCTCCAAATGATGTGCCTTTGACCTGAG
1 TTTTGTTGGCAGATAG-CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAG
* *
660990 TGTAATCGAAATCGAAGGTA
65 TGTAATCGAACTCGAAGGTC
* * ** * * ** *
661010 TTTTGCTGGCAGATAGCCCTTCTCGAATTAAGTTATGCTGCAAATTTGACATGCCCTTGAGCTGA
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGA
*
661075 GTGTAATTGAACTCGAAGGTC
64 GTGTAATCGAACTCGAAGGTC
* * * *
661096 TTTTGTTGGCAGATAGCCCTTCTTACCTTTAGTTATGCTGCAAATTATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
*
661161 GTAATCGAACTTGAAGGTC
66 GTAATCGAACTCGAAGGTC
* ** * **
661180 TTTTGTTGGCAGATAACCCTTCTCACCTTTAGCTATGCAACAAATGATGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
*
661245 GTAATCGAACTCGAA-GTA
66 GTAATCGAACTCGAAGGTC
* ** * * * * * * *
661263 TTTTGCTGAAAGATAACCCTTTTTGCCTTGAGTTATGCTACAAATTATGTGCATTTGAGCTAAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
*
661328 GTAATCGAACTAGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * *
661347 TTTTATTGGCATATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTTCTTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
661412 GTAATCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
* * * * * *
661431 TTTTGTTGGCATATAGCCCTTCTGGCCTTAAGCTATGCAGTAAATGTTGTGCCTTTGAGCTGAGT
1 TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
* *
661496 GTAATCGAACTTGAAGGAC
66 GTAATCGAACTCGAAGGTC
661515 TTTTGTTG
1 TTTTGTTG
661523 AAGGTGCTTG
Statistics
Matches: 872, Mismatches: 142, Indels: 10
0.85 0.14 0.01
Matches are distributed among these distances:
83 69 0.08
84 623 0.71
85 75 0.09
86 105 0.12
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (84 bp):
TTTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
GTAATCGAACTCGAAGGTC
Found at i:662502 original size:95 final size:95
Alignment explanation
Indices: 662339--662530 Score: 262
Period size: 95 Copynumber: 2.0 Consensus size: 95
662329 AGACAACTCA
* * * * * *
662339 ATATTATAATCACCTTTATTAGGCTAGCTGAATCTTATGCATAAATTCGGGACATTTAAGCAATT
1 ATATTAAAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGACATTTAACCAATT
*
662404 GCTTTAGAGGGA-TACTTCAAGCTTTATTGT
66 GCTTTAGAGGGACAAC-TCAAGCTTTATTGT
* **
662434 ATATTAAAATCATCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCAGGG-TGTTTAACCAAT
1 ATATTAAAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTC-GGGACATTTAACCAAT
662498 TGCTTTAGAGGGACAACTCAAGCTTTATTGT
65 TGCTTTAGAGGGACAACTCAAGCTTTATTGT
662529 AT
1 AT
662531 GTATATAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 80 0.94
96 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (95 bp):
ATATTAAAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGACATTTAACCAATT
GCTTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:665115 original size:8 final size:8
Alignment explanation
Indices: 665102--665147 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
665092 TTGGATTAAG
665102 AAAAAAAT
1 AAAAAAAT
665110 AAAAAAAT
1 AAAAAAAT
* *
665118 AATAAAGT
1 AAAAAAAT
665126 AAAGAAAAT
1 AAA-AAAAT
*
665135 AAAAATAT
1 AAAAAAAT
665143 AAAAA
1 AAAAA
665148 TATGTAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:665148 original size:8 final size:8
Alignment explanation
Indices: 665102--665166 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
665092 TTGGATTAAG
*
665102 AAAAAAAT
1 AAAAATAT
*
665110 AAAAAAAT
1 AAAAATAT
665118 AATAAAGTA-
1 AA-AAA-TAT
665127 AAGAAA-AT
1 AA-AAATAT
665135 AAAAATAT
1 AAAAATAT
665143 AAAAATAT
1 AAAAATAT
**
665151 GTAAATAT
1 AAAAATAT
665159 AAAAATAT
1 AAAAATAT
665167 GTATACATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 4 0.09
8 34 0.72
9 8 0.17
10 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:665178 original size:18 final size:16
Alignment explanation
Indices: 665137--665169 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
665127 AAGAAAATAA
665137 AAATATAAAAATATGT
1 AAATATAAAAATATGT
665153 AAATATAAAAATATGT
1 AAATATAAAAATATGT
665169 A
1 A
665170 TACATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATATAAAAATATGT
Found at i:667313 original size:25 final size:24
Alignment explanation
Indices: 667282--667348 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 24
667272 TTTATTTCTA
*
667282 TCATTTTGTTTTTCTCTAATTTTT
1 TCATTTTTTTTTTCTCTAATTTTT
667306 TCATTTTTTTTCTTCTCTAATTTTT
1 TCATTTTTTTT-TTCTCTAATTTTT
667331 TCATTTTTCATTTTTCTC
1 TCATTTTT--TTTTTCTC
667349 CCCCCTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 10 0.26
25 21 0.54
26 5 0.13
27 3 0.08
ACGTcount: A:0.12, C:0.16, G:0.01, T:0.70
Consensus pattern (24 bp):
TCATTTTTTTTTTCTCTAATTTTT
Found at i:667851 original size:262 final size:262
Alignment explanation
Indices: 667369--667937 Score: 771
Period size: 262 Copynumber: 2.2 Consensus size: 262
667359 ATCATTTTTT
** * *
667369 ATTT-ATTTT-TGAAAATTTTAAATGAGAAACTTTGAAAATCG-TTTTATCATTCTCTTACAAAT
1 ATTTCATTTTCTGAAAACATTAAATGAGAAACTTTGAAAATTGCTTTTATCATTCTCTTACAAAC
* * * *
667431 ACTATATGAAAACATCAAGCCCGAAGGTCTTATAGATGACTCAAATGACTTATCCTCTTGCTTGA
66 ACTATATGAAAACATCAAGCCCAAAGGTCTTATAGATGACCCAAAGGACTCATCCTCTTGCTTGA
* * *
667496 AAGATTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACAGATGGCCCAAAGG
131 AAGAATGACAGATGACCCAAAGGATTTAATCATCATGATCGAAAGACTTACAGATGGCCCAAAGG
667561 ACTTACCAATTTTGGAAATAGTCTACTGGGTAAGAAAC-TTTGGAAA-TCGCTTTCTTACTTTTC
196 ACTTACCAATTTTGGAAATAGTCTACTGGGTAAGAAACGTTT-GAAACT-GCTTTCTTACTTTTC
667624 AAAA
259 AAAA
*
667628 ATTTCATTTTCTGAAAAACATTAAATGAGAAACTTTGAAAATTGCTTTTATCATT-TTTTACAAA
1 ATTTCATTTTCTG-AAAACATTAAATGAGAAACTTTGAAAATTGCTTTTATCATTCTCTTACAAA
** * *
667692 CA-TCATATGAAAACATCTTGCCCAAAGGTCTTATAGATGGCCCAAAGGACTCATCGTCTTG-TT
65 CACT-ATATGAAAACATCAAGCCCAAAGGTCTTATAGATGACCCAAAGGACTCATCCTCTTGCTT
* * ** *
667755 CGAAAGACAT-ACTGATGACCTAAAGGATTTAATCATCAT-ATGCGAAAGACTTATTGATTGCCC
129 -GAAAGA-ATGACAGATGACCCAAAGGATTTAATCATCATGAT-CGAAAGACTTACAGATGGCCC
*
667818 GAAGGACTTACCAATTTTGGAAATAGTCTACTGGGTAAGAAACGTTTGAAACTGCTTTCTTACTT
191 AAAGGACTTACCAATTTTGGAAATAGTCTACTGGGTAAGAAACGTTTGAAACTGCTTTCTTACTT
667883 TTCAAAA
256 TTCAAAA
* ** *
667890 ATTTCATTTTCTGAAAATATTAAATGAGAAAAATTGAAAATTACTTTT
1 ATTTCATTTTCTGAAAACATTAAATGAGAAACTTTGAAAATTGCTTTT
667938 CTTGTTTTTT
Statistics
Matches: 274, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
259 4 0.01
260 5 0.02
261 37 0.14
262 213 0.78
263 15 0.05
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (262 bp):
ATTTCATTTTCTGAAAACATTAAATGAGAAACTTTGAAAATTGCTTTTATCATTCTCTTACAAAC
ACTATATGAAAACATCAAGCCCAAAGGTCTTATAGATGACCCAAAGGACTCATCCTCTTGCTTGA
AAGAATGACAGATGACCCAAAGGATTTAATCATCATGATCGAAAGACTTACAGATGGCCCAAAGG
ACTTACCAATTTTGGAAATAGTCTACTGGGTAAGAAACGTTTGAAACTGCTTTCTTACTTTTCAA
AA
Found at i:673986 original size:4 final size:4
Alignment explanation
Indices: 673977--674004 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
673967 TTTTAAGTGG
673977 AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT
674005 GTTGAGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:676288 original size:2 final size:2
Alignment explanation
Indices: 676281--676321 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
676271 ATGGATTTCT
676281 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
676322 TTAGTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:676560 original size:87 final size:87
Alignment explanation
Indices: 676401--676560 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
676391 AAATACAATC
* * * * * *
676401 ATGACAGACGAATGTGTGTTATCTTCATATATGACGGGGGCTTCAATGACATGCAATGTAAGCCA
1 ATGACACACAAATGTGTGTCATCTTCATATATGACAGGGCCTTCAATGACATGCAATGCAAGCCA
*
676466 TACATGTGTGTGTCATAAATTT
66 TAAATGTGTGTGTCATAAATTT
* * * *
676488 ATGACACACAAATGTGTGTCATCTTCATTTATGACAGGGCCTTCAATGACGCT-CAATGCACGTC
1 ATGACACACAAATGTGTGTCATCTTCATATATGACAGGGCCTTCAATGAC-ATGCAATGCAAGCC
676552 ATAAATGTG
65 ATAAATGTG
676561 ATTCATAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
87 60 0.98
88 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (87 bp):
ATGACACACAAATGTGTGTCATCTTCATATATGACAGGGCCTTCAATGACATGCAATGCAAGCCA
TAAATGTGTGTGTCATAAATTT
Found at i:676566 original size:13 final size:13
Alignment explanation
Indices: 676549--676584 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
676539 CTCAATGCAC
676549 GTCATAAATGTGAT
1 GTCATAAATGTG-T
676563 -TCATAAATGTGT
1 GTCATAAATGTGT
676575 GTCATAAATG
1 GTCATAAATG
676585 CGCGTTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (13 bp):
GTCATAAATGTGT
Found at i:689284 original size:14 final size:14
Alignment explanation
Indices: 689265--689312 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
689255 TTTAGTGTAT
689265 ATATATATAGATAG
1 ATATATATAGATAG
**
689279 ATATATAGATATTTAG
1 ATATAT--ATAGATAG
*
689295 ATATAGATAGATAG
1 ATATATATAGATAG
689309 ATAT
1 ATAT
689313 CTTTGATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 16 0.59
16 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.38
Consensus pattern (14 bp):
ATATATATAGATAG
Found at i:689286 original size:8 final size:8
Alignment explanation
Indices: 689263--689312 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
689253 TTTTTAGTGT
*
689263 ATATATAT
1 ATATATAG
*
689271 ATAGATAG
1 ATATATAG
689279 ATATATAG
1 ATATATAG
*
689287 ATATTTAG
1 ATATATAG
689295 --ATATAG
1 ATATATAG
*
689301 ATAGATAG
1 ATATATAG
689309 ATAT
1 ATAT
689313 CTTTGATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
6 5 0.15
8 28 0.85
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (8 bp):
ATATATAG
Found at i:690655 original size:21 final size:21
Alignment explanation
Indices: 690631--690672 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
690621 AAGGGTTAAG
690631 ACCTATCAATGAAAGGACTTA
1 ACCTATCAATGAAAGGACTTA
* *
690652 ACCTTTCAATTAAAGGACTTA
1 ACCTATCAATGAAAGGACTTA
690673 TCATTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (21 bp):
ACCTATCAATGAAAGGACTTA
Found at i:690699 original size:22 final size:21
Alignment explanation
Indices: 690642--690716 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
690632 CCTATCAATG
* * * *
690642 AAAGGACTTAACCTTTCAATT
1 AAAGGATTTAACATTTCTATA
* *
690663 AAAGGACTTATCATTT-TGATGA
1 AAAGGATTTAACATTTCT-AT-A
*
690685 AAAGGGTTTAACATTTCTATA
1 AAAGGATTTAACATTTCTATA
690706 AAAGGATTTAA
1 AAAGGATTTAA
690717 TCTTTTCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 27 0.63
22 15 0.35
23 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (21 bp):
AAAGGATTTAACATTTCTATA
Found at i:692276 original size:43 final size:42
Alignment explanation
Indices: 692109--692276 Score: 203
Period size: 43 Copynumber: 3.9 Consensus size: 42
692099 GTTTGTCAGA
* * * **
692109 AAAATGCCGTAATAGGTATTGATATTTAGCGGTGTTTGTCTGG
1 AAAATGCCGTAATAGGTGTTGATGTTTAGCGGTGTTTTTC-CC
* *
692152 AAAATGTCGCAATAGGTGTTGATGTTTAGCGGCT-TTTTTCCC
1 AAAATGCCGTAATAGGTGTTGATGTTTAGCGG-TGTTTTTCCC
* *
692194 ATAAAAGTCGTAATAGGTGTTGATGTTTAGCGGTGTTTTTCCC
1 A-AAATGCCGTAATAGGTGTTGATGTTTAGCGGTGTTTTTCCC
*
692237 ACAAATGCCGTAATAGGTGTTGATGTTTAGCGGTATTTTT
1 A-AAATGCCGTAATAGGTGTTGATGTTTAGCGGTGTTTTT
692277 ATCTCAAACG
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.02
43 106 0.97
44 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.39
Consensus pattern (42 bp):
AAAATGCCGTAATAGGTGTTGATGTTTAGCGGTGTTTTTCCC
Found at i:692302 original size:43 final size:43
Alignment explanation
Indices: 692159--692302 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
692149 TGGAAAATGT
* * * * * *
692159 CGCAATAGGTGTTGATGTTTAGCGGCT-TTTTTCCCATAAAAGT
1 CGCAATAAGCGTTGATGTTTAGCGG-TATTTTTACCACAAACGC
* * * * * *
692202 CGTAATAGGTGTTGATGTTTAGCGGTGTTTTTCCCACAAATGC
1 CGCAATAAGCGTTGATGTTTAGCGGTATTTTTACCACAAACGC
* * * * *
692245 CGTAATAGGTGTTGATGTTTAGCGGTATTTTTATCTCAAACGC
1 CGCAATAAGCGTTGATGTTTAGCGGTATTTTTACCACAAACGC
692288 CGCAATAAGCGTTGA
1 CGCAATAAGCGTTGA
692303 GATTTCTCGG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 87 0.99
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (43 bp):
CGCAATAAGCGTTGATGTTTAGCGGTATTTTTACCACAAACGC
Found at i:692302 original size:86 final size:85
Alignment explanation
Indices: 692127--692307 Score: 186
Period size: 86 Copynumber: 2.1 Consensus size: 85
692117 GTAATAGGTA
** * *
692127 TTGATATTTAGCGGTGTTTGTCTGGAAAATGTCGCAATAGGTGTTGATGTTTAGCGGCTTTTTTC
1 TTGATATTTAGCGGTGTTTGTCTCCAAAATGCCGCAATAGGTGTTGATGTTTAGCGGATTTTTTC
* * * *
692192 CCATAAAAGTCGTAATAGGTG
66 CCA-AAAAGCCGCAATAAGCG
* * *
692213 TTGATGTTTAGCGGTGTTTTTC-CCACAAATGCCGTAATAGGTGTTGATGTTTAGCGGTATTTTT
1 TTGATATTTAGCGGTGTTTGTCTCCA-AAATGCCGCAATAGGTGTTGATGTTTAGCGG-ATTTTT
* *
692277 ATCTC-AAACGCCGCAATAAGCG
64 -TCCCAAAAAGCCGCAATAAGCG
*
692299 TTGAGATTT
1 TTGATATTT
692308 CTCGGCATTT
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
85 1 0.01
86 68 0.88
87 5 0.06
88 3 0.04
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (85 bp):
TTGATATTTAGCGGTGTTTGTCTCCAAAATGCCGCAATAGGTGTTGATGTTTAGCGGATTTTTTC
CCAAAAAGCCGCAATAAGCG
Found at i:692373 original size:44 final size:44
Alignment explanation
Indices: 692320--692489 Score: 157
Period size: 44 Copynumber: 3.9 Consensus size: 44
692310 CGGCATTTTC
* * *
692320 ATACAAACGCCGCTAGAGGTCCGGTATATAGCGGCGTTTTTAGG
1 ATACAAACGCCACTAAAGGTCTGGTATATAGCGGCGTTTTTAGG
* * * * *
692364 ATACAAACGCCACTAAATGTATGGT-TATTGCGGCATTTTT--C
1 ATACAAACGCCACTAAAGGTCTGGTATATAGCGGCGTTTTTAGG
** * * *
692405 ATTTAAACGTCACTAAAGGTCTGATAAATAGCGGCGTTTTTAGG
1 ATACAAACGCCACTAAAGGTCTGGTATATAGCGGCGTTTTTAGG
* * * * *
692449 ATACAAACGCCGCTAAATGTATGGTATATTGCGGCATTTTT
1 ATACAAACGCCACTAAAGGTCTGGTATATAGCGGCGTTTTT
692490 TGTTACAAAC
Statistics
Matches: 95, Mismatches: 28, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
41 19 0.20
42 12 0.13
43 13 0.14
44 51 0.54
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (44 bp):
ATACAAACGCCACTAAAGGTCTGGTATATAGCGGCGTTTTTAGG
Found at i:692509 original size:43 final size:44
Alignment explanation
Indices: 692342--692489 Score: 158
Period size: 44 Copynumber: 3.4 Consensus size: 44
692332 CTAGAGGTCC
*
692342 GGTATATAGCGGCGTTTTTAGGATACAAACGCCACTAAATGTAT
1 GGTATATAGCGGCATTTTTAGGATACAAACGCCACTAAATGTAT
* * ** * * *
692386 GGT-TATTGCGGCATTTTT--CATTTAAACGTCACTAAAGGTCT
1 GGTATATAGCGGCATTTTTAGGATACAAACGCCACTAAATGTAT
* * * *
692427 GATAAATAGCGGCGTTTTTAGGATACAAACGCCGCTAAATGTAT
1 GGTATATAGCGGCATTTTTAGGATACAAACGCCACTAAATGTAT
*
692471 GGTATATTGCGGCATTTTT
1 GGTATATAGCGGCATTTTT
692490 TGTTACAAAC
Statistics
Matches: 78, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
41 19 0.24
42 12 0.15
43 13 0.17
44 34 0.44
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
GGTATATAGCGGCATTTTTAGGATACAAACGCCACTAAATGTAT
Found at i:695973 original size:42 final size:43
Alignment explanation
Indices: 695893--695973 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
695883 GCGTTTAATC
* *
695893 AAAATCGTCGCTATAAACTAACCCTATTACTGCGTTTTTACTA
1 AAAATCGTCGCTATAAACTAACCCTATTACGGCATTTTTACTA
* *
695936 AAAAT-GTTGCTATAAACTAACCCTATTGCGGCATTTTT
1 AAAATCGTCGCTATAAACTAACCCTATTACGGCATTTTT
695974 TTAGTTTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 29 0.85
43 5 0.15
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (43 bp):
AAAATCGTCGCTATAAACTAACCCTATTACGGCATTTTTACTA
Found at i:697697 original size:41 final size:42
Alignment explanation
Indices: 697624--697751 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 42
697614 GTAAACAACA
* *
697624 TATTCCGGCATTTGTGAGACAAACGA-CGCTAAATAACTACTC
1 TATTACGGTATTTGTGAGACAAAC-ACCGCTAAATAACTACTC
* *
697666 TATTGCGGTATTTGTGGGA-AAACACCGCTAAATAACTACTC
1 TATTACGGTATTTGTGAGACAAACACCGCTAAATAACTACTC
* * ** * * * *
697707 TATTATGGTGTTTGTTTGATAAACGCCGCTAAATTACTTCTC
1 TATTACGGTATTTGTGAGACAAACACCGCTAAATAACTACTC
697749 TAT
1 TAT
697752 AGCATCGTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 34 0.47
42 38 0.52
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (42 bp):
TATTACGGTATTTGTGAGACAAACACCGCTAAATAACTACTC
Found at i:702388 original size:12 final size:12
Alignment explanation
Indices: 702371--702398 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
702361 CCATCACCGC
702371 CACCTTCATCGG
1 CACCTTCATCGG
702383 CACCTTCATCGG
1 CACCTTCATCGG
702395 CACC
1 CACC
702399 GGTATCGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.46, G:0.14, T:0.21
Consensus pattern (12 bp):
CACCTTCATCGG
Found at i:707633 original size:148 final size:147
Alignment explanation
Indices: 707367--707637 Score: 418
Period size: 148 Copynumber: 1.8 Consensus size: 147
707357 ATGAAATGGA
* *
707367 AAAAAATGGGTTGATTTAGTCAATTTATCCACTATCACTTAGATCTAATTTTCCCCATAAACGTC
1 AAAAAATGGGTTGAATTAGTAAATTTATCCACTATCACTTAGATCTAATTTTCCCCATAAACGTC
* *
707432 ATGAGAACCCACTCATACAGTCCATTGTAACTCTTTCCACTTCGACTATATGAATTGACTTAGTC
66 ATGAGAACCCACTCATAAAGTCCATCGTAACTCTTTCCACTTCGACTATATGAATTGACTTAGTC
707497 AATTTATCCACTATATG
131 AATTTATCCACTATATG
* ** * *
707514 AAAAAATGGGTTGAATTAGTAAATTTATCTACTATCACTTAGATCTAATCTTTTTCCATGAGCGT
1 AAAAAATGGGTTGAATTAGTAAATTTATCCACTATCACTTAGATCTAAT-TTTCCCCATAAACGT
* *
707579 CATGAGAACCCACTCATAAAGTCCATCGTAACTC-TTCCTACTTCGATTGTATGAATTGA
65 CATGAGAACCCACTCATAAAGTCCATCGTAACTCTTTCC-ACTTCGACTATATGAATTGA
707638 ATAGGTTTTA
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
147 50 0.45
148 61 0.55
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (147 bp):
AAAAAATGGGTTGAATTAGTAAATTTATCCACTATCACTTAGATCTAATTTTCCCCATAAACGTC
ATGAGAACCCACTCATAAAGTCCATCGTAACTCTTTCCACTTCGACTATATGAATTGACTTAGTC
AATTTATCCACTATATG
Found at i:717347 original size:20 final size:20
Alignment explanation
Indices: 717322--717359 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
717312 TTTGGGTGTA
*
717322 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
717342 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
717360 TTTGAAGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:717997 original size:689 final size:689
Alignment explanation
Indices: 716680--718055 Score: 2734
Period size: 689 Copynumber: 2.0 Consensus size: 689
716670 AATTCCTTGG
716680 AAATATGATGATTTCTTGGTTTTTAAAGAAACAAAATTATGTTGCATTATCTACCACTGAAGCCA
1 AAATATGATGATTTCTTGGTTTTTAAAGAAACAAAATTATGTTGCATTATCTACCACTGAAGCCA
716745 AATACATTTCAGCTGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTAT
66 AATACATTTCAGCTGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTAT
716810 GGAATTGAAGTTGGTACCATTCCTATCAAGTGTGACAATACTAGTGTTATTTGTCTCACTAAAAA
131 GGAATTGAAGTTGGTACCATTCCTATCAAGTGTGACAATACTAGTGTTATTTGTCTCACTAAAAA
716875 TCTCATCCAACACTCTAGAACTAAGCACATTGAAATAAGACATCACTTCATTAGAGACCATGTCA
196 TCTCATCCAACACTCTAGAACTAAGCACATTGAAATAAGACATCACTTCATTAGAGACCATGTCA
*
716940 CTAAGGAATATGTAGTTCTAGAATTTGTTGATACTTTGCACCAACTAGTTGATATCTTTATAAAA
261 CTAAGGAATATGTAGTTCTAGAATTTGTTGATACTTTGCACCAACTAGTGGATATCTTTATAAAA
717005 CCTTTAGACAAGGAAAGATTTTGGACACTTAGGAGAAAATTAGGTTTGACCAACCTATCTTCACT
326 CCTTTAGACAAGGAAAGATTTTGGACACTTAGGAGAAAATTAGGTTTGACCAACCTATCTTCACT
717070 TAGTGTTTAAAATAATTTTAGAACTTTTAAGACTAAATGAAAAATGTTAATTTTTTATTGCATTC
391 TAGTGTTTAAAATAATTTTAGAACTTTTAAGACTAAATGAAAAATGTTAATTTTTTATTGCATTC
*
717135 ATTGCTATTAGTTAGGGGGAGTTTATGATTCTTGATGAAAAATTAATTTTATGTTCAAATGTCAT
456 ATTGCTATTAGTTAGGGGGAGTTTATGATTCTTGATGAAAAATTAATTTTATGTTCAAATATCAT
717200 TTAAAGAATAATTTGATTGTTTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
521 TTAAAGAATAATTTGATTGTTTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
717265 AGAAAATTAGTTTAGCATTTTGTGTGTTTAAAATCGGGTTTTATCATTTTGGGTGTAGAGGGAAT
586 AGAAAATTAGTTTAGCATTTTGTGTGTTTAAAATCGGGTTTTATCATTTTGGGTGTAGAGGGAAT
717330 CGATACCCCCATGAGGGAACCGATTCCCCCTTTGAAGCC
651 CGATACCCCCATGAGGGAACCGATTCCCCCTTTGAAGCC
717369 AAATATGATGATTTCTTGGTTTTTAAAGAAACAAAATTATGTTGCATTATCTACCACTGAAGCCA
1 AAATATGATGATTTCTTGGTTTTTAAAGAAACAAAATTATGTTGCATTATCTACCACTGAAGCCA
717434 AATACATTTCAGCTGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTAT
66 AATACATTTCAGCTGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTAT
717499 GGAATTGAAGTTGGTACCATTCCTATCAAGTGTGACAATACTAGTGTTATTTGTCTCACTAAAAA
131 GGAATTGAAGTTGGTACCATTCCTATCAAGTGTGACAATACTAGTGTTATTTGTCTCACTAAAAA
717564 TCTCATCCAACACTCTAGAACTAAGCACATTGAAATAAGACATCACTTCATTAGAGACCATGTCA
196 TCTCATCCAACACTCTAGAACTAAGCACATTGAAATAAGACATCACTTCATTAGAGACCATGTCA
717629 CTAAGGAATATGTAGTTCTAGAATTTGTTGATACTTTGCACCAACTAGTGGATATCTTTATAAAA
261 CTAAGGAATATGTAGTTCTAGAATTTGTTGATACTTTGCACCAACTAGTGGATATCTTTATAAAA
717694 CCTTTAGACAAGGAAAGATTTTGGACACTTAGGAGAAAATTAGGTTTGACCAACCTATCTTCACT
326 CCTTTAGACAAGGAAAGATTTTGGACACTTAGGAGAAAATTAGGTTTGACCAACCTATCTTCACT
717759 TAGTGTTTAAAATAATTTTAGAACTTTTAAGACTAAATGAAAAATGTTAATTTTTTATTGCATTC
391 TAGTGTTTAAAATAATTTTAGAACTTTTAAGACTAAATGAAAAATGTTAATTTTTTATTGCATTC
717824 ATTGCTATTAGTTAGGGGGAGTTTATGATTCTTGATGAAAAATTAATTTTATGTTCAAATATCAT
456 ATTGCTATTAGTTAGGGGGAGTTTATGATTCTTGATGAAAAATTAATTTTATGTTCAAATATCAT
717889 TTAAAGAATAATTTGATTGTTTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
521 TTAAAGAATAATTTGATTGTTTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
717954 AGAAAATTAGTTTAGCATTTTGTGTGTTTAAAATCGGGTTTTATCATTTTGGGTGTAGAGGGAAT
586 AGAAAATTAGTTTAGCATTTTGTGTGTTTAAAATCGGGTTTTATCATTTTGGGTGTAGAGGGAAT
718019 CGATACCCCCATGAGGGAACCGATTCCCCCTTTGAAG
651 CGATACCCCCATGAGGGAACCGATTCCCCCTTTGAAG
718056 GGGAACCGAT
Statistics
Matches: 685, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
689 685 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (689 bp):
AAATATGATGATTTCTTGGTTTTTAAAGAAACAAAATTATGTTGCATTATCTACCACTGAAGCCA
AATACATTTCAGCTGGTAGTTGTTGTGCACAAGTTTTATGGATGAAACAACAACTTTTTTATTAT
GGAATTGAAGTTGGTACCATTCCTATCAAGTGTGACAATACTAGTGTTATTTGTCTCACTAAAAA
TCTCATCCAACACTCTAGAACTAAGCACATTGAAATAAGACATCACTTCATTAGAGACCATGTCA
CTAAGGAATATGTAGTTCTAGAATTTGTTGATACTTTGCACCAACTAGTGGATATCTTTATAAAA
CCTTTAGACAAGGAAAGATTTTGGACACTTAGGAGAAAATTAGGTTTGACCAACCTATCTTCACT
TAGTGTTTAAAATAATTTTAGAACTTTTAAGACTAAATGAAAAATGTTAATTTTTTATTGCATTC
ATTGCTATTAGTTAGGGGGAGTTTATGATTCTTGATGAAAAATTAATTTTATGTTCAAATATCAT
TTAAAGAATAATTTGATTGTTTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAG
AGAAAATTAGTTTAGCATTTTGTGTGTTTAAAATCGGGTTTTATCATTTTGGGTGTAGAGGGAAT
CGATACCCCCATGAGGGAACCGATTCCCCCTTTGAAGCC
Found at i:718036 original size:20 final size:20
Alignment explanation
Indices: 718011--718071 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
718001 TTTGGGTGTA
*
718011 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
* *
718031 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC-AT
*
718052 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATACCCCC
718072 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:725332 original size:14 final size:14
Alignment explanation
Indices: 725313--725347 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
725303 AAACCCTTCC
725313 AGGCAAGGGAGCCG
1 AGGCAAGGGAGCCG
725327 AGGCAAGGGAGCCG
1 AGGCAAGGGAGCCG
725341 AGGCAAG
1 AGGCAAG
725348 TGACACCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.49, T:0.00
Consensus pattern (14 bp):
AGGCAAGGGAGCCG
Found at i:732494 original size:135 final size:134
Alignment explanation
Indices: 732245--732700 Score: 572
Period size: 135 Copynumber: 3.4 Consensus size: 134
732235 GATTCTATCA
* * ***
732245 ATTCTTGTTCTTTCAGATTTGGTCTTCCTGAATAGCAGCAAAGCAAATCAAGTTTGATTCAATCT
1 ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAATGAAGCAAATCAAGTTTGATTCAATCT
** * *
732310 TCCCTGAGGAGTAATGAAGTGGATCAAAATTTTTCTTGAGTTTGATCTCCCCTAAAGAGCAGCGG
66 TCCCTGAGGAGTAGCGAA-TTGATCAAAATTTTTCTTGAGTTTGATCTCCCCTAAAGAGTAGCGG
732375 AGCAG
130 AGCAG
* * *
732380 ATTATTCTTCTTTCAGATTTGGTCTTCCTGAAGAGTAATGAAGTAAATCAAGTTTGATTCAATCT
1 ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAATGAAGCAAATCAAGTTTGATTCAATCT
* * * * **
732445 TCCCTGAGAAGCAGCGAATTGTATCAAAATTTTTCTTGAGTCTGATCTCCCCTAAAGTGTAGCAT
66 TCCCTGAGGAGTAGCGAATTG-ATCAAAATTTTTCTTGAGTTTGATCTCCCCTAAAGAGTAGCGG
*
732510 AACAG
130 AGCAG
* *
732515 ATTCTTCTTCTTTCAGATTTGGTCTTCTTGAAGAGC-ATCGAAACAAATCAAGTTTGATTCAATC
1 ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAAT-GAAGCAAATCAAGTTTGATTCAATC
* * * ** * *
732579 TTCCCTAAGGAGTAGCGAAGTAGATCAAAAATTTTCTCAAGTTTGATATCCCCTAAAGAGTAGTG
65 TTCCCTGAGGAGTAGCGAA-TTGATCAAAATTTTTCTTGAGTTTGATCTCCCCTAAAGAGTAGCG
732644 GAGCAG
129 GAGCAG
* * * * *
732650 ATTCTTATTCTTTCAAATTTTGTCTTCCTGAATAGCAGTGAAGCAAATCAA
1 ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAATGAAGCAAATCAA
732701 ACCTCGATTC
Statistics
Matches: 272, Mismatches: 45, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
134 4 0.01
135 265 0.97
136 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (134 bp):
ATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAGAGCAATGAAGCAAATCAAGTTTGATTCAATCT
TCCCTGAGGAGTAGCGAATTGATCAAAATTTTTCTTGAGTTTGATCTCCCCTAAAGAGTAGCGGA
GCAG
Found at i:735203 original size:21 final size:20
Alignment explanation
Indices: 735179--735236 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
735169 CTCCTCGCTA
*
735179 TGTATCGATACACTATGAATG
1 TGTATCGATACACT-TAAATG
*
735200 TGTACCGATACATTCCTTAAATG
1 TGTATCGATACA---CTTAAATG
735223 TGTATCGATACACT
1 TGTATCGATACACT
735237 CAGGAGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 11 0.35
23 16 0.52
24 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (20 bp):
TGTATCGATACACTTAAATG
Found at i:735750 original size:12 final size:13
Alignment explanation
Indices: 735721--735753 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
735711 GTATTATGAT
*
735721 TTTTCAAACATTG
1 TTTTCAAACATAG
735734 TTTTCAAA-ATAG
1 TTTTCAAACATAG
735746 TTTTCAAA
1 TTTTCAAA
735754 TTTTTCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:737525 original size:13 final size:13
Alignment explanation
Indices: 737503--737536 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
737493 AGGGGGAGTA
*
737503 ATTTTCAAAATTG
1 ATTTTCAAAAATG
737516 A-TTTCAAAAATG
1 ATTTTCAAAAATG
737528 ATTTTCAAA
1 ATTTTCAAA
737537 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:738789 original size:3 final size:3
Alignment explanation
Indices: 738781--738826 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
738771 CGTCCCGCTA
*
738781 TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
738827 AATAATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:738808 original size:20 final size:20
Alignment explanation
Indices: 738783--738822 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
738773 TCCCGCTATA
*
738783 TTATTATTATTATTATTATT
1 TTATTATTATTATTAATATT
738803 TTATTATTATTATTAATATT
1 TTATTATTATTATTAATATT
738823 ATTAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATTATTATTAATATT
Found at i:738834 original size:23 final size:23
Alignment explanation
Indices: 738785--738834 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
738775 CCGCTATATT
* ** *
738785 ATTATTATTATTATTATTTTATT
1 ATTATTATTAATATTATTAAATA
738808 ATTATTATTAATATTATTAAATA
1 ATTATTATTAATATTATTAAATA
738831 ATTA
1 ATTA
738835 AATCTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTATTATTAATATTATTAAATA
Found at i:739233 original size:17 final size:16
Alignment explanation
Indices: 739204--739245 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
739194 AATGAAGATC
739204 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
739221 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
739236 AATTATTTTA
1 AATTATTTTA
739246 AAAGGTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:739692 original size:36 final size:34
Alignment explanation
Indices: 739625--739692 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
739615 ATATTACGAG
* * *
739625 GTATATTTATTTTTTATAGTTTCAATTTTTATGT
1 GTATATTTATATTTTATAGTTTAAATATTTATGT
*
739659 GTATATTTATATTTTATTATTTTAAATCATTTAT
1 GTATATTTATATTTTA-TAGTTTAAAT-ATTTAT
739693 TTCTTCCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 15 0.54
35 8 0.29
36 5 0.18
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (34 bp):
GTATATTTATATTTTATAGTTTAAATATTTATGT
Found at i:745780 original size:12 final size:13
Alignment explanation
Indices: 745750--745779 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
745740 TAAATATATC
*
745750 TTTTGAAAAATAA
1 TTTTTAAAAATAA
745763 TTTTTAAAAATAA
1 TTTTTAAAAATAA
745776 TTTT
1 TTTT
745780 ACGATATTTG
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTTTTAAAAATAA
Found at i:747138 original size:63 final size:62
Alignment explanation
Indices: 747017--747143 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 62
747007 GCATGTCTGA
* * * *
747017 AAATGCACTGTATATTCGAGCCATATTCGAGTGGTACTGTGATTTTGAGTCCATCATCAGCAT
1 AAATGCACTGTATATTCCAGCCATATCCGAGTGATACTGTAATTTTGAGTCCA-CATCAGCAT
747080 AAATGCACTGTATATTCCAGCCATA-CCGGAGCTGATACTGTAATTTTTTGAGT-C-CATCAGCA
1 AAATGCACTGTATATTCCAGCCATATCC-GAG-TGATACTGTAA--TTTTGAGTCCACATCAGCA
747142 T
62 T
747143 A
1 A
747144 TCATAGCGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.02
63 37 0.66
64 9 0.16
65 1 0.02
66 8 0.14
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (62 bp):
AAATGCACTGTATATTCCAGCCATATCCGAGTGATACTGTAATTTTGAGTCCACATCAGCAT
Found at i:748109 original size:6 final size:5
Alignment explanation
Indices: 748076--748158 Score: 66
Period size: 5 Copynumber: 16.4 Consensus size: 5
748066 AACTAGTAAG
* * *
748076 TAAAA T-AAA TAAATA AAAAA TAAAA -AAGA T-AAA GAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAA-A TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
748124 TGAAAA TAAAAA TGAAAA TAAAGA T-AAA TAAAA TA
1 T-AAAA T-AAAA T-AAAA TAAA-A TAAAA TAAAA TA
748159 GAGAAAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
4 11 0.17
5 31 0.49
6 21 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:748114 original size:33 final size:32
Alignment explanation
Indices: 748077--748158 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
748067 ACTAGTAAGT
748077 AAAATAAAT-AAATAAAAAATAAAAAAGATAAAG
1 AAAATAAATAAAAT-AAAAATAAAAAAGA-AAAG
* * *
748110 AAAATAAAATAAAATGAAAATAAAAATGAAAAT
1 AAAAT-AAATAAAATAAAAATAAAAAAGAAAAG
748143 AAAGATAAATAAAATA
1 AAA-ATAAATAAAATA
748159 GAGAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 20 0.48
34 18 0.43
35 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (32 bp):
AAAATAAATAAAATAAAAATAAAAAAGAAAAG
Found at i:748120 original size:34 final size:35
Alignment explanation
Indices: 748077--748168 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 35
748067 ACTAGTAAGT
748077 AAAAT-AAATAAAT-AAAA-AATAAA-AAAGATAAAG
1 AAAATAAAATAAATGAAAATAA-AAAGAAA-ATAAAG
748110 AAAATAAAATAAAATGAAAATAAAAATGAAAATAAAG
1 AAAATAAAAT-AAATGAAAATAAAAA-GAAAATAAAG
*
748147 ATAAATAAAATAGA-GAAAATAA
1 A-AAATAAAATAAATGAAAATAA
748169 TAGTAAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
33 5 0.10
34 4 0.08
35 4 0.08
36 15 0.29
37 11 0.22
38 12 0.24
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (35 bp):
AAAATAAAATAAATGAAAATAAAAAGAAAATAAAG
Found at i:748123 original size:43 final size:42
Alignment explanation
Indices: 748076--748158 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
748066 AACTAGTAAG
*
748076 TAAAAT-AAATAAATA-AAAAAT-AAA-AAAGATAAAGAAAA
1 TAAAATAAAATAAAAATAAAAATAAAATAAAGATAAAGAAAA
* *
748114 TAAAATAAAATGAAAATAAAAATGAAAATAAAGATAAATAAAA
1 TAAAATAAAATAAAAATAAAAAT-AAAATAAAGATAAAGAAAA
748157 TA
1 TA
748159 GAGAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 6 0.16
39 7 0.19
40 6 0.16
42 3 0.08
43 15 0.41
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (42 bp):
TAAAATAAAATAAAAATAAAAATAAAATAAAGATAAAGAAAA
Found at i:753454 original size:238 final size:235
Alignment explanation
Indices: 753007--753481 Score: 848
Period size: 238 Copynumber: 2.0 Consensus size: 235
752997 TATCTTTGAG
753007 TTCAGCCATGGCCTGACAATGCTGCGCTCGCAAACAAGGTCTGAAACCGGCCCGAATCCAATCGA
1 TTCAGCCATGGCCTGACAATGCT-CGCTCGCAAACAAGGTCTGAAACCGGCCCGAATCCAATCGA
753072 ATTCGTCTCTATGTCACCGTTTGTCTATCTTCACCTGTGACTGTCTTATCCTTTGCCACCTTCCG
65 ATTCGTCTCTATGTCACCGTTTGTCTATCTTCACCTGTGACTGTCTTATCCTTTGCCA-CTTCCG
753137 AGTTTATCTTCTGCCTCTTAATCTTGCACAAGAATGAATCGTCTAGTTTCCCCCAAATCGATCTG
129 AGTTTATCTTCTGCCTCTTAATCTTGCACAAGAATGAATCGTCTAGTTTCCCCCAAATCGATCTG
753202 ACATGTCCACACATTGCTCCTCTTTTGCCCAACAAACATCGA
194 ACATGTCCACACATTGCTCCTCTTTTGCCCAACAAACATCGA
*
753244 TTCAGCCATGGCCTGACAATGCT-GCTCGCAAACAAGGTCTGAAACCGGAGCCGAATCCAATCGA
1 TTCAGCCATGGCCTGACAATGCTCGCTCGCAAACAAGGTCTGAAACCGG-CCCGAATCCAATC--
753308 AGAATTCGGTCTCTATGTCACCGTTTGTCTATCTTCACCTGTGACTGTCTTATCCTTTGCCA-TT
63 -GAATTC-GTCTCTATGTCACCGTTTGTCTATCTTCACCTGTGACTGTCTTATCCTTTGCCACTT
753372 CCGAGTTTATCTTCTGCCTTCTTAATCTTGCACAAGAATGAATCGTCTAG-TTCCCCCAAATCGA
126 CCGAGTTTATCTTCTGCC-TCTTAATCTTGCACAAGAATGAATCGTCTAGTTTCCCCCAAATCGA
753436 TCTGACATGTCCACACATTGCTCCTCTTTTGCCCAACAAACATCGA
190 TCTGACATGTCCACACATTGCTCCTCTTTTGCCCAACAAACATCGA
753482 ACTTGAAGTA
Statistics
Matches: 231, Mismatches: 1, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
235 25 0.11
236 12 0.05
237 23 0.10
238 80 0.35
239 37 0.16
240 54 0.23
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (235 bp):
TTCAGCCATGGCCTGACAATGCTCGCTCGCAAACAAGGTCTGAAACCGGCCCGAATCCAATCGAA
TTCGTCTCTATGTCACCGTTTGTCTATCTTCACCTGTGACTGTCTTATCCTTTGCCACTTCCGAG
TTTATCTTCTGCCTCTTAATCTTGCACAAGAATGAATCGTCTAGTTTCCCCCAAATCGATCTGAC
ATGTCCACACATTGCTCCTCTTTTGCCCAACAAACATCGA
Found at i:755755 original size:137 final size:136
Alignment explanation
Indices: 755509--755782 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 136
755499 GCCAATTCCT
*
755509 CTTACCCAGCGGTTAATGCCTAGCAGCGTACCCTTATTTCCTTGTTTTTGAAATCTTCCACTGCC
1 CTTACCCAGCGGATAATGCCTAGCAGCGTACCCTTATTTCCTTGTTTTTGAAATCTTCCACTGCC
755574 CTGATTGTTGTATTGTACACTGCATGTGTTGTGTGGATGTGCCTGCTGCCACCCTCGATACACCA
66 CTGATTGTTGTATTGTACACTGCATGTGTTGTGTGGATGTGCCTGCTGCCA-CCTCGATACACCA
755639 ACTGCCC
130 ACTGCCC
755646 CTTACCCAGCGGATAATGCCTAGCAGCGTACCCTTATTTCCTTGTTTTTGAAA-CTTCCACTGCC
1 CTTACCCAGCGGATAATGCCTAGCAGCGTACCCTTATTTCCTTGTTTTTGAAATCTTCCACTGCC
755710 CTGATTGTTGTATTGTACACTGCATGTGTTGTGTGGGATGTGCCTGCTGCCACCTCGATACACCA
66 CTGATTGTTGTATTGTACACTGCATGTGTTGTGT-GGATGTGCCTGCTGCCACCTCGATACACCA
755775 ACTGCCC
130 ACTGCCC
755782 C
1 C
755783 CAATAAGATA
Statistics
Matches: 135, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
136 66 0.49
137 69 0.51
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (136 bp):
CTTACCCAGCGGATAATGCCTAGCAGCGTACCCTTATTTCCTTGTTTTTGAAATCTTCCACTGCC
CTGATTGTTGTATTGTACACTGCATGTGTTGTGTGGATGTGCCTGCTGCCACCTCGATACACCAA
CTGCCC
Found at i:756460 original size:23 final size:23
Alignment explanation
Indices: 756434--756481 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
756424 TTATAAAGTA
* *
756434 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
756457 ATAATTTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
756480 AT
1 AT
756482 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:756985 original size:23 final size:23
Alignment explanation
Indices: 756950--757022 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
756940 GATATTTACA
* *
756950 ATATAAGCACTACTTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
756973 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
756996 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
757019 ATAT
1 ATAT
757023 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:757402 original size:21 final size:21
Alignment explanation
Indices: 757377--757423 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
757367 GATAGATACT
757377 TTACAATATA-AGCACTACCTA
1 TTACAATATATA-CACTACCTA
* *
757398 TTACATTATATACGCTACCTA
1 TTACAATATATACACTACCTA
757419 TTACA
1 TTACA
757424 TCATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACAATATATACACTACCTA
Found at i:760745 original size:182 final size:183
Alignment explanation
Indices: 760168--762905 Score: 4848
Period size: 181 Copynumber: 15.2 Consensus size: 183
760158 ACTCCTATTG
* *
760168 TAAATTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760233 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* *
760297 AATGTTGATA-TTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
760349 TAAAATACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
760414 GTATATTTATACCGGTTATATTA-TAAATTATCTAATACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
760478 AATGTCGAC-CTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGATA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
760530 TAAAATACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760595 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
760660 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
760713 TAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760777 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
760842 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
760895 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760960 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA--TGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
761023 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
761076 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
761141 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
761206 AATGTCGACACTTTTTGAC-AGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
761258 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGG-TGTAGACCTATTCGCTCAT-AAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
761321 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
* * *
761386 AATGTTGATATTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
*
761439 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACTG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
761503 GTATATTTATACCGGTTATATTATAAAATTATCTAATACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
761568 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
761621 TAAAATACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
761686 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
761751 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
761804 TAAAGTACCGACACAATATT-AAAAGTGTCG--ATAGGTTGTAGACCTATTCGCTCATAAAACC-
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
*
761865 ATATA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
761929 AATGTCGACAC-TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
761981 TAAAGTATCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
762044 GTATATTTATACC-GTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
762108 AATGTCGATAC-TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
762160 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
762225 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-A-TCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
762288 AATGTCGACACTTTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
762340 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
762405 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
762470 AATGTCGACAC-TTTTGACAAGGTATCG--ACATTTTTCTTCCAATAT-GACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
762519 T-AAGTACCGACACAGTATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
762583 G--TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
762646 AATGTCGACACTTTTTGACAATGTATCGACACA-TTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
762698 T-AAGTACCGACACAATATT-AAAAGTGTTGATATAGGTTTTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
762761 GTATATTTATACCGGTTATA-TAC-AAATTATCTATTAC-TTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
*
762823 AATGTCGACACTTTTTGACAAGGTATCGACACCATTTTTCTTCCATTCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACA-CATTTTTCTTCCAATCTGGACA
** *
762877 TAAAGTACATACATAATATTAAAAAGTGT
1 TAAAGTACCGACACAATATTAAAAAGTGT
762906 AAAAACTTTG
Statistics
Matches: 2460, Mismatches: 66, Indels: 62
0.95 0.03 0.02
Matches are distributed among these distances:
176 71 0.03
177 139 0.06
178 208 0.08
179 209 0.08
180 380 0.15
181 573 0.23
182 558 0.23
183 322 0.13
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
Found at i:761074 original size:363 final size:365
Alignment explanation
Indices: 760168--762905 Score: 4783
Period size: 363 Copynumber: 7.6 Consensus size: 365
760158 ACTCCTATTG
* *
760168 TAAATTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760233 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTAT-ATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
* * *
760297 AATGTTGATA-TTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAATACCGAC
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
**
760361 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTTATAC
195 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
* *
760426 CGGTTATATTA-TAAATTATCTAATACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC-CT
260 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
*
760489 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGATA
325 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
760530 TAAAATACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760595 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
*
760660 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
760725 ACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
195 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
760789 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
260 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
760854 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
325 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
760895 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
760960 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-TGTAA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGAGTGTAA
*
761024 ATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTACCGACA
131 ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACA
761089 CAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATACC
196 CAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATACC
761154 GGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTT
261 GGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTT
761219 TTTGAC-AGGTATCGACACATTTTTCTTCCAATCTGGACA
326 TTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
761258 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGG-TGTAGACCTATTCGCTCAT-AAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
761321 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
* * *
761386 AATGTTGATATTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
**
761451 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACTGGTATATTTATAC
195 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
* *
761515 CGGTTATATTATAAAATTATCTAATACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
260 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
761580 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
325 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
761621 TAAAATACTGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
761686 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
*
761751 AATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
761816 ACAATATT-AAAAGTGTCG--ATAGGTTGTAGACCTATTCGCTCATAAAACCA-TATA-TTATAC
195 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
761876 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACAC-
260 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
761940 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
325 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
761981 TAAAGTATCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
762044 GTATATTTATACC-GTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
*
762108 AATGTCGATAC-TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
*
762172 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATAC
195 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
762237 CGGTTATATTACAAAATTATCTATTACATTAT-A-TCTGGGTTCCGATGTGTAAATGTCGACACT
260 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
762300 TTTTGACAAGGTATCGACACA-TTTTCTTCCAATCTGGACA
325 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
762340 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
* *
762405 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCAATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
*
762470 AATGTCGACAC-TTTTGACAAGGTATCG--ACATTTTTCTTCCAATAT-GACAT-AAGTACCGAC
130 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGAC
* * *
762530 ACAGTATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAACC-G-GTATTTATAC
195 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATAC
762593 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
260 CGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACT
*
762658 TTTTGACAATGTATCGACACA-TTTTCTTCCAATCTGGACA
325 TTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
* *
762698 T-AAGTACCGACACAATATT-AAAAGTGTTGATATAGGTTTTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
762761 GTATATTTATACCGGTTATA-TAC-AAATTATCTATTAC-TTATAATTCTGGGTTCCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA-GTGTA
* **
762823 AATGTCGACACTTTTTGACAAGGTATCGACACCATTTTTCTTCCATTCTGGACATAAAGTACATA
130 AATGTCGACACTTTTTGACAAGGTATCGACA-CATTTTTCTTCCAATCTGGACATAAAGTACCGA
*
762888 CATAATATTAAAAAGTGT
194 CACAATATTAAAAAGTGT
762906 AAAAACTTTG
Statistics
Matches: 2289, Mismatches: 59, Indels: 59
0.95 0.02 0.02
Matches are distributed among these distances:
353 34 0.01
354 30 0.01
355 3 0.00
356 164 0.07
357 106 0.05
358 153 0.07
359 163 0.07
360 138 0.06
361 189 0.08
362 315 0.14
363 425 0.19
364 265 0.12
365 304 0.13
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (365 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGAGTGTAA
ATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACA
CAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATACC
GGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTT
TTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACA
Found at i:763104 original size:15 final size:16
Alignment explanation
Indices: 763075--763104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
763065 ATATATACAC
763075 AATATAATCACACAAA
1 AATATAATCACACAAA
763091 AATATAAT-ACACAA
1 AATATAATCACACAA
763105 GAATGTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (16 bp):
AATATAATCACACAAA
Done.