Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_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: 1111368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:858546 original size:7 final size:8
Alignment explanation
Indices: 858509--858546 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
858499 CTTGAAGAAA
858509 AAAAAATG
1 AAAAAATG
858517 AAAGAAATG
1 AAA-AAATG
858526 AAAAAAATG
1 -AAAAAATG
858535 AAAAAATG
1 AAAAAATG
858543 AAAA
1 AAAA
858547 GAGAAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 15 0.54
9 10 0.36
10 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:859844 original size:240 final size:240
Alignment explanation
Indices: 859420--859981 Score: 955
Period size: 240 Copynumber: 2.3 Consensus size: 240
859410 AGGATGTGAA
*
859420 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTAACAGAGGGAGAAGAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTTCATA
* * *
859485 ATAAGAAGAGCTTCTTCGACCTATCACTTGATTCACGACATTTCGAATCAGTGACACATCGCTTG
65 ATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACATCGCTTG
* *
859550 AGGGATTGACATTTTCAAAAGAGTTCATAATGGGAAGAACTCATCCTAAAGGAGAAAGTTCATAA
130 AGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATAA
* * *
859615 TGAGAATAACTTGTTCCTTTCAAGTTCATCACAGAAAGAGATGGAT
195 TGAAAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGAT
*
859661 CAACATTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
*
859726 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACTG-CATTTCGAATCAGTGACACCTCGCTTG
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCAC-GACATTTCGAATCAGTGACACATCGCTTG
* *
859790 AGGGATTGACATTTTCAAAAGTGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATGA
130 AGGGATTGACATTTTCAAAAGAGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATAA
*
859855 TGAAAAGAACTTGTTCCTTTCAAGTCCATCACATAAAGAGATGGAT
195 TGAAAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGAT
*
859901 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
*
859966 TGAGAAGAACTTGTTC
66 TGAGAAGAGCTTGTTC
859982 AGCTTCGCAT
Statistics
Matches: 303, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
240 259 0.85
241 44 0.15
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (240 bp):
CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGACACATCGCTTGA
GGGATTGACATTTTCAAAAGAGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATAAT
GAAAAGAACTTGTTCCTTTCAAGTCCATCACAGAAAGAGATGGAT
Found at i:860014 original size:91 final size:92
Alignment explanation
Indices: 859899--860073 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 92
859889 AAAGAGATGG
*
859899 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCC-AACGAG-GAAGAAGAAGTTC
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAG-AGAAGAAGTTC
859962 ATAATGAGAAGAACTTGTTCAGCTTCGC
65 ATAATGAGAAGAACTTGTTCAGCTTCGC
* *
859990 ATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAATAAGTTCA
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAAGAAGTTCA
*
860055 TAATGAGAAGACCTTGTTC
66 TAATGAGAAGAACTTGTTC
860074 GACCTATCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
91 43 0.55
92 34 0.44
93 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (92 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAGCTTCGC
Found at i:860264 original size:332 final size:330
Alignment explanation
Indices: 859659--860313 Score: 994
Period size: 332 Copynumber: 2.0 Consensus size: 330
859649 AAAGAGATGG
* *
859659 ATCAACATTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAAGAAGTTCAT
*
859724 AATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACTGCATTTCGAATCAGTGACACCTCGCTT
66 AATGAGAAGACCTTGTTCGACCTATCACTCGATTCACTGCATTTCGAATCAGTGACACCTCGCTT
* * *
859789 GAGGGATTGACATTTTCAAAAGTGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATG
131 GAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATA
* * * * *
859854 ATGAAAAGAACTTGTTCCTTTCAAGTCCATCACATAAAGAGATGGATCAACATTTCCAATGGAGA
196 ATAAAAAGAACTTGTTCCATTCAAGTCCACCACAAAAAGAGATGGATCAACATTTCCAATGAAGA
859919 GTTCATAATGAGAAGAACTCATCCAACGAG-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
261 GTTCATAATGAGAAGAACTCATCC-ACGAGAG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCA
859983 GCTTCGC
324 GCTTCGC
* * *
859990 ATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAATAAGTTCA
1 ATCAACATTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCC-AAAGAGAGAGAAGAAGTTCA
* *
860055 TAATGAGAAGACCTTGTTCGACCTATCACTCGATTCAC-GATATTTCGAATCAGTGACGCCTCG-
65 TAATGAGAAGACCTTGTTCGACCTATCACTCGATTCACTG-CATTTCGAATCAGTGACACCTCGC
* ** *
860118 TTAGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTTGTCTTAAAGGAGAAAGTTC
129 TT-GAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTC
* * * * *
860183 ATAATAAAAAGAACTTGTTCCATTCAAGTCCACCACAAAAATAGGT-GACTCAATATTTTCAGTG
193 ATAATAAAAAGAACTTGTTCCATTCAAGTCCACCACAAAAAGAGATGGA-TCAACATTTCCAATG
*
860247 AAGAGTTCATAATGAGAAGAACTCATCCATGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTT
257 AAGAGTTCATAATGAGAAGAACTCATCCACGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTT
860312 CA
322 CA
860314 ATCCAACGAC
Statistics
Matches: 293, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
331 83 0.28
332 210 0.72
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (330 bp):
ATCAACATTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAAGAAGTTCAT
AATGAGAAGACCTTGTTCGACCTATCACTCGATTCACTGCATTTCGAATCAGTGACACCTCGCTT
GAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAAAACTCATCCTAAAGGAGAAAGTTCATA
ATAAAAAGAACTTGTTCCATTCAAGTCCACCACAAAAAGAGATGGATCAACATTTCCAATGAAGA
GTTCATAATGAGAAGAACTCATCCACGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAGC
TTCGC
Found at i:860456 original size:3 final size:3
Alignment explanation
Indices: 860441--860489 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
860431 GGTTAAAGAA
*
860441 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
860488 TA
1 TA
860490 AGTGTGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:863188 original size:30 final size:30
Alignment explanation
Indices: 863154--863236 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
863144 TTGTAAATAA
*
863154 TATTTTAGTCATTTGAGTTTTTGTTTATT-T
1 TATTTTAGTCCTTTGAGTTTTTGTTT-TTGT
*
863184 TA-TTTAGGTCCTTTGAGTTTCTGTTTTTGT
1 TATTTTA-GTCCTTTGAGTTTTTGTTTTTGT
* *
863214 TATTTTTGTCCTTTAAGTTTTTG
1 TATTTTAGTCCTTTGAGTTTTTG
863237 AAATTACTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.13
30 36 0.80
31 3 0.07
ACGTcount: A:0.13, C:0.07, G:0.16, T:0.64
Consensus pattern (30 bp):
TATTTTAGTCCTTTGAGTTTTTGTTTTTGT
Found at i:864055 original size:75 final size:75
Alignment explanation
Indices: 863932--864082 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
863922 TGCAGAAGAA
863932 AGCAACACGGCACTGGCTATGCATCGCATTTTCAAAATTCGTTTAAGAATCCAGCTTAAGTTATG
1 AGCAACACGGCACTGGCTATGCATCGCATTTTCAAAATTCGTTTAAGAATCCAGCTTAAGTTATG
863997 CGGTTCAGAC
66 CGGTTCAGAC
864007 AGCAACACGGCACTGGCTATGCATCGCATTTTCAAAATTCGTTTAAGAATCCAGCTTAAGTTATG
1 AGCAACACGGCACTGGCTATGCATCGCATTTTCAAAATTCGTTTAAGAATCCAGCTTAAGTTATG
864072 CGGTTCAGAC
66 CGGTTCAGAC
864082 A
1 A
864083 TAGTCCAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (75 bp):
AGCAACACGGCACTGGCTATGCATCGCATTTTCAAAATTCGTTTAAGAATCCAGCTTAAGTTATG
CGGTTCAGAC
Found at i:866611 original size:30 final size:30
Alignment explanation
Indices: 866535--866638 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 30
866525 TGTTTTTGCC
*
866535 ATTTTAGTCTTTTAAATTTCATCTTGTGAT
1 ATTTTAGTCTTTTAAATTTCATATTGTGAT
* ** * *
866565 A-TTTGGTCTTCAAAATTT-ATATTTTTACT
1 ATTTTAGTCTTTTAAATTTCATATTGTGA-T
* *
866594 ATTTTAGTCTTTTAAATTTC-TGTTTGTGTT
1 ATTTTAGTCTTTTAAATTTCAT-ATTGTGAT
*
866624 ATTTTAGTCCTTTAA
1 ATTTTAGTCTTTTAA
866639 TTTTTAAATT
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 6 0.11
29 16 0.29
30 31 0.55
31 3 0.05
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (30 bp):
ATTTTAGTCTTTTAAATTTCATATTGTGAT
Found at i:868818 original size:36 final size:36
Alignment explanation
Indices: 868751--869127 Score: 328
Period size: 36 Copynumber: 10.5 Consensus size: 36
868741 GTAAAAGATA
* **
868751 ATGCATATAACCACCAATAGCAAGCACATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* * *
868787 ATGCGTGTAATCATTAATATCAAGCACATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* **
868823 ATGTATATAATCATTGCTAGCGAA-CACATGTATATC
1 ATGCATATAATCATTAATAGC-AAGCACATGTATATC
*
868859 ATGCATATAATCATTAATAACAAGCACATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* * **
868895 -TGCATGTTATCATTAATATAAAGCACATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* * * *
868930 ATGTATATAATCATTAGTAGAAAACACATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* *
868966 ATACATATAATCATTAATAGCAAGAACATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* * * * ** * *
869002 ATACATATTATCATCAGTAGCAAGCGTATATATAAC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
* * * * * * **
869038 ATGCGTAT-TTCATCAGTAACGAGCGTATGTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
** * * ** *
869073 ATGCATATGTTCATCAGTAGCAAGTGCATCTATATC
1 ATGCATATAATCATTAATAGCAAGCACATGTATATC
*
869109 ATGCATATAATCATCAATA
1 ATGCATATAATCATTAATA
869128 TTTATGATTC
Statistics
Matches: 281, Mismatches: 56, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
35 62 0.22
36 217 0.77
37 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (36 bp):
ATGCATATAATCATTAATAGCAAGCACATGTATATC
Found at i:868938 original size:107 final size:108
Alignment explanation
Indices: 868751--869015 Score: 390
Period size: 107 Copynumber: 2.5 Consensus size: 108
868741 GTAAAAGATA
* ** * * *
868751 ATGCATATAACCACCAATAGCAAGCACATGTATATCATGCGTGTAATCATTAATATCAAGCACAT
1 ATGCATATAATCATTAATAGCAAGCACATGTATATCATGCATGTTATCATTAATATAAAGCACAT
**
868816 GTATATCATGTATATAATCATT-GCTAGCGAACACATGTATATC
66 GTATATCATGTATATAATCATTAG-TAGAAAACACATGTATATC
*
868859 ATGCATATAATCATTAATAACAAGCACATGTATATC-TGCATGTTATCATTAATATAAAGCACAT
1 ATGCATATAATCATTAATAGCAAGCACATGTATATCATGCATGTTATCATTAATATAAAGCACAT
868923 GTATATCATGTATATAATCATTAGTAGAAAACACATGTATATC
66 GTATATCATGTATATAATCATTAGTAGAAAACACATGTATATC
* * * *
868966 ATACATATAATCATTAATAGCAAGAACATGTATATCATACATATTATCAT
1 ATGCATATAATCATTAATAGCAAGCACATGTATATCATGCATGTTATCAT
869016 CAGTAGCAAG
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
107 97 0.69
108 44 0.31
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (108 bp):
ATGCATATAATCATTAATAGCAAGCACATGTATATCATGCATGTTATCATTAATATAAAGCACAT
GTATATCATGTATATAATCATTAGTAGAAAACACATGTATATC
Found at i:870007 original size:21 final size:21
Alignment explanation
Indices: 869945--870007 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
869935 TTTCTAACCT
* *
869945 AAAATTTGGTTTCCAACC--T
1 AAAATATGGTTTCCAACCAAA
* * *
869964 AATATCTGGTTTCCCA-CATAA
1 AAAATATGGTTTCCAACCA-AA
869985 AAAATATGGTTTCCAACCAAA
1 AAAATATGGTTTCCAACCAAA
870006 AA
1 AA
870008 TCTGGTTGCC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.39
21 17 0.52
22 2 0.06
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAATATGGTTTCCAACCAAA
Found at i:870026 original size:40 final size:40
Alignment explanation
Indices: 869945--870026 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
869935 TTTCTAACCT
* * * * *
869945 AAAATTTGGTTTCCAACCTAATATCTGGTTTCCCACATAA
1 AAAATATGGTTTCCAACCAAAAATCTGGTTGCCAACATAA
*
869985 AAAATATGGTTTCCAACCAAAAATCTGGTTGCCAACCTAA
1 AAAATATGGTTTCCAACCAAAAATCTGGTTGCCAACATAA
870025 AA
1 AA
870027 TCTGGTTATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (40 bp):
AAAATATGGTTTCCAACCAAAAATCTGGTTGCCAACATAA
Found at i:870031 original size:19 final size:19
Alignment explanation
Indices: 869916--870033 Score: 121
Period size: 19 Copynumber: 6.1 Consensus size: 19
869906 GAAAATCTAA
*
869916 TTTCCAA-CTGAAAATCTGA
1 TTTCCAACCT-AAAATCTGG
* *
869935 TTTCTAACCTAAAATTTGG
1 TTTCCAACCTAAAATCTGG
*
869954 TTTCCAACCTAATATCTGG
1 TTTCCAACCTAAAATCTGG
* * *
869973 TTTCCCACATAAAAAATATGG
1 TTTCCAACCT--AAAATCTGG
*
869994 TTTCCAACCAAAAATCTGG
1 TTTCCAACCTAAAATCTGG
*
870013 TTGCCAACCTAAAATCTGG
1 TTTCCAACCTAAAATCTGG
870032 TT
1 TT
870034 ATCGACACTT
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
19 64 0.80
20 2 0.03
21 14 0.17
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (19 bp):
TTTCCAACCTAAAATCTGG
Found at i:871300 original size:35 final size:35
Alignment explanation
Indices: 871260--871327 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
871250 ATAAAACCTG
*
871260 AATGCA-TCGATGCATGGT-AGTGCATCGATGCATAA
1 AATGCATTCGAT--ATGGTGAGTACATCGATGCATAA
871295 AATGCATTCGATATGGTGAGTACATCGATGCAT
1 AATGCATTCGATATGGTGAGTACATCGATGCAT
871328 CAATGAGTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 5 0.17
35 20 0.67
36 5 0.17
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (35 bp):
AATGCATTCGATATGGTGAGTACATCGATGCATAA
Found at i:871340 original size:20 final size:20
Alignment explanation
Indices: 871311--871348 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
871301 TTCGATATGG
871311 TGAGTACATCGATGCATCAA
1 TGAGTACATCGATGCATCAA
* *
871331 TGAGTGCATCGGTGCATC
1 TGAGTACATCGATGCATC
871349 CCTTCTCAAT
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:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
TGAGTACATCGATGCATCAA
Found at i:874037 original size:45 final size:44
Alignment explanation
Indices: 873954--874044 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
873944 GATGCACATG
* * *
873954 CACATTCAAGGCATGCATCGGTGCATCTTCAAGATGTATTGATA
1 CACATTCAAGGCATACATCGATGCATCTTCAAGATGTATCGATA
*
873998 CACATTCAAAGGGATACATCGATGCA-CTTTCATAG-TGTATCGATA
1 CACATTC-AAGGCATACATCGATGCATC-TTCA-AGATGTATCGATA
874043 CA
1 CA
874045 TTATGCACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 8 0.20
45 30 0.75
46 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
CACATTCAAGGCATACATCGATGCATCTTCAAGATGTATCGATA
Found at i:877898 original size:22 final size:21
Alignment explanation
Indices: 877856--877895 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
877846 GAGATTATTT
*
877856 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
877877 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
877896 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:879364 original size:20 final size:20
Alignment explanation
Indices: 879341--879381 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
879331 CAAGAATATA
879341 CCCCAATTCTTGAGAACACT
1 CCCCAATTCTTGAGAACACT
879361 CCCCAATTCTTGAGAACACT
1 CCCCAATTCTTGAGAACACT
879381 C
1 C
879382 TTTCTCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (20 bp):
CCCCAATTCTTGAGAACACT
Found at i:879868 original size:18 final size:19
Alignment explanation
Indices: 879822--879870 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
879812 TTGGACCCTT
*
879822 AGTGCATCGGTGCACTAAA
1 AGTGCATCGATGCACTAAA
879841 AGTGCATCGATGCA-TAAA
1 AGTGCATCGATGCACTAAA
879859 A-TGCATTCGATG
1 AGTGCA-TCGATG
879871 TTTTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 4 0.14
18 11 0.39
19 13 0.46
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAA
Found at i:879892 original size:64 final size:63
Alignment explanation
Indices: 879824--879998 Score: 174
Period size: 64 Copynumber: 2.7 Consensus size: 63
879814 GGACCCTTAG
* * * *
879824 TGCATCGGTGCACTAAAAGTGCATCGATGCATAAAATGCATTCGATGTTT-TA-AACAAGCCAGA
1 TGCATCGATGCA-TGAAAGTGCATCGATGCATAAAATGCATTCGATATTTCCATAA-AA-CCAGA
879887 A
63 A
*** * * *
879888 TGCATCGATGCATGGTCTGTGCATCGATGCATAAAATGTATTCAATATTTCCATAAAACCTGAA
1 TGCATCGATGCAT-GAAAGTGCATCGATGCATAAAATGCATTCGATATTTCCATAAAACCAGAA
* ** *
879952 TGTATCGATGCATGGTAGTGCATCGATGCATATAATGCATTCGATAT
1 TGCATCGATGCATGAAAGTGCATCGATGCATAAAATGCATTCGATAT
879999 GGTGAGTGCA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
63 29 0.32
64 57 0.63
65 3 0.03
66 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (63 bp):
TGCATCGATGCATGAAAGTGCATCGATGCATAAAATGCATTCGATATTTCCATAAAACCAGAA
Found at i:879978 original size:18 final size:18
Alignment explanation
Indices: 879955--880017 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
879945 ACCTGAATGT
879955 ATCGATGCATGGTAGTGC
1 ATCGATGCATGGTAGTGC
* *
879973 ATCGATGCAT-ATAATGC
1 ATCGATGCATGGTAGTGC
879990 ATTCGAT--ATGGTGAGTGC
1 A-TCGATGCATGGT-AGTGC
880008 ATCGATGCAT
1 ATCGATGCAT
880018 CAATGAGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 2 0.06
17 12 0.33
18 20 0.56
19 2 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (18 bp):
ATCGATGCATGGTAGTGC
Found at i:883097 original size:3 final size:3
Alignment explanation
Indices: 883091--883168 Score: 90
Period size: 3 Copynumber: 27.0 Consensus size: 3
883081 TTTTTTGTTT
* * * *
883091 TTA TTA TTA TTA ATA TTA ATA TTA ATA TTA -TA ATA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
883137 TTA TTA TTA TTA TTA TT- TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
883169 AATAATAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
2 6 0.09
3 58 0.91
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:883133 original size:25 final size:26
Alignment explanation
Indices: 883098--883146 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
883088 TTTTTATTAT
883098 TATTAATATTAATATTAATATTATAA
1 TATTAATATTAATATTAATATTATAA
* *
883124 TATT-ATATTATTATTATTATTAT
1 TATTAATATTAATATTAATATTAT
883147 TATTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTAATATTAATATTAATATTATAA
Found at i:884158 original size:18 final size:18
Alignment explanation
Indices: 884129--884168 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
884119 AATTATGAGC
*
884129 ATTTTAATTTGATCTTTTA
1 ATTTTAATTTGAT-TTATA
884148 ATTTT-ATTTGATTTATA
1 ATTTTAATTTGATTTATA
884165 ATTT
1 ATTT
884169 AGTCCCTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTTTAATTTGATTTATA
Found at i:884735 original size:2 final size:2
Alignment explanation
Indices: 884728--884755 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
884718 TAAAAACCTG
884728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
884756 TAAAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:886039 original size:28 final size:28
Alignment explanation
Indices: 885989--886176 Score: 157
Period size: 29 Copynumber: 6.5 Consensus size: 28
885979 TAAAAGTCTA
* *
885989 TTTTT-TAAATATCACAATCAATACTAAAC
1 TTTTTATAAAT-T-ACAATAAATACAAAAC
* * *
886018 TTTTTATAAATTATAATAAATACCAAAT
1 TTTTTATAAATTACAATAAATACAAAAC
*
886046 TTTTTATAAATTATAATAAATATCAAAAC
1 TTTTTATAAATTACAATAAATA-CAAAAC
* *
886075 TTTATGTAAATTACAATAAATACCAAAA-
1 TTTTTATAAATTACAATAAATA-CAAAAC
* *
886103 TTTTCTAAAAATTACAATAAACACCAAAAC
1 TTTT-TATAAATTACAATAAATA-CAAAAC
* *
886133 TTTTTATATATTACAATCAAAGGA-AAAAC
1 TTTTTATAAATTACAAT-AAA-TACAAAAC
* *
886162 TTCTCATAAATTACA
1 TTTTTATAAATTACA
886177 GTAATGGCAT
Statistics
Matches: 133, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
28 37 0.28
29 83 0.62
30 12 0.09
31 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (28 bp):
TTTTTATAAATTACAATAAATACAAAAC
Found at i:886050 original size:29 final size:29
Alignment explanation
Indices: 885989--886149 Score: 168
Period size: 29 Copynumber: 5.6 Consensus size: 29
885979 TAAAAGTCTA
* *
885989 TTTTT-TAAATATCACAATCAATA-CTAAAC
1 TTTTTATAAAT-T-ACAATAAATACCAAAAC
* *
886018 TTTTTATAAATTATAATAAATACC-AAAT
1 TTTTTATAAATTACAATAAATACCAAAAC
* *
886046 TTTTTATAAATTATAATAAATATCAAAAC
1 TTTTTATAAATTACAATAAATACCAAAAC
* *
886075 TTTATGTAAATTACAATAAATACCAAAA-
1 TTTTTATAAATTACAATAAATACCAAAAC
* *
886103 TTTTCTAAAAATTACAATAAACACCAAAAC
1 TTTT-TATAAATTACAATAAATACCAAAAC
*
886133 TTTTTATATATTACAAT
1 TTTTTATAAATTACAAT
886150 CAAAGGAAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
28 37 0.33
29 66 0.59
30 9 0.08
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.39
Consensus pattern (29 bp):
TTTTTATAAATTACAATAAATACCAAAAC
Found at i:887378 original size:13 final size:13
Alignment explanation
Indices: 887360--887387 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
887350 TGGAACTATA
887360 ACAGTGTCTGGCT
1 ACAGTGTCTGGCT
887373 ACAGTGTCTGGCT
1 ACAGTGTCTGGCT
887386 AC
1 AC
887388 TGGGGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.29
Consensus pattern (13 bp):
ACAGTGTCTGGCT
Found at i:887975 original size:3 final size:3
Alignment explanation
Indices: 887967--887994 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
887957 AATTAAAAAA
887967 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
887995 TTCTCTAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:888107 original size:12 final size:12
Alignment explanation
Indices: 888090--888122 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
888080 GAATTTTTAA
888090 AAAATTTAAAAG
1 AAAATTTAAAAG
888102 AAAA-TTAAAAG
1 AAAATTTAAAAG
888113 AAAATATTAA
1 AAAAT-TTAA
888123 TTATTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 4 0.21
13 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (12 bp):
AAAATTTAAAAG
Found at i:888201 original size:15 final size:15
Alignment explanation
Indices: 888183--888212 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
888173 AAAATTATTT
*
888183 AAATATTTAAAAATA
1 AAATATCTAAAAATA
888198 AAATATCTAAAAATA
1 AAATATCTAAAAATA
888213 TATAGTCAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATCTAAAAATA
Found at i:888397 original size:16 final size:17
Alignment explanation
Indices: 888368--888402 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
888358 TTTAATAAAG
*
888368 TTTTAATATTTTTATAT
1 TTTTAATATATTTATAT
888385 TTTTAATA-ATTTATAT
1 TTTTAATATATTTATAT
888401 TT
1 TT
888403 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTAATATATTTATAT
Found at i:888646 original size:30 final size:30
Alignment explanation
Indices: 888612--888671 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
888602 ATTTTTTAAT
888612 ATTTTAAAAATAA-TATTGTAAGATTTTATA
1 ATTTTAAAAATAATTA-TGTAAGATTTTATA
* * *
888642 ATTTTTAAAGTAATTATGTAATATTTTATA
1 ATTTTAAAAATAATTATGTAAGATTTTATA
888672 TTAAACAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (30 bp):
ATTTTAAAAATAATTATGTAAGATTTTATA
Found at i:902164 original size:122 final size:122
Alignment explanation
Indices: 901947--902732 Score: 1329
Period size: 122 Copynumber: 6.4 Consensus size: 122
901937 CACTCGATGG
*
901947 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATATGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
902012 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
902069 ATCAACGTTTCCAGAGGAGTTTATAATAAGAATAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
*
902134 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAAC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
902191 ATCAACATTTCTAGAGGAGTCCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
902256 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACGGAATGACATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
* *
902313 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAATAAAAAGTTCATAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
902378 TGAGAAGAACTTGTTCAACCTTTTACTCGACTCTATCACATAAGGAGATAGATCAAC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
*
902435 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTAATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
902500 TGAGAAGAACTTGTTCAACCTTTTACTCGACTTTATCACAGAAGTAGATAGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
902557 ATCAATATTTCTAGAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTAATAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
*
902622 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATGGATCAGC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
902679 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA
1 ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA
902733 TAACTAATCC
Statistics
Matches: 617, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 617 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (122 bp):
ATCAACATTTCCAGAGGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:902906 original size:15 final size:15
Alignment explanation
Indices: 902897--902988 Score: 58
Period size: 15 Copynumber: 6.3 Consensus size: 15
902887 CATTTGTTTT
902897 TTATTTATTTATTTA
1 TTATTTATTTATTTA
902912 TTA-TTA-TTATCATTA
1 TTATTTATTTAT--TTA
902927 TTA-TTA-TTA-TTA
1 TTATTTATTTATTTA
902939 TTATTT-TATTATATTA
1 TTATTTAT-TTAT-TTA
*
902955 TTA-TTATTAATATTA
1 TTATTTATTTAT-TTA
902970 TTA-TTA-TTATTTTA
1 TTATTTATTTA-TTTA
902984 TTATT
1 TTATT
902989 ATTATTAAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 20
0.75 0.02 0.23
Matches are distributed among these distances:
12 6 0.09
13 6 0.09
14 14 0.22
15 32 0.49
16 7 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTTATTTATTTA
Found at i:902917 original size:3 final size:3
Alignment explanation
Indices: 902909--902995 Score: 135
Period size: 3 Copynumber: 30.0 Consensus size: 3
902899 ATTTATTTAT
*
902909 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TT- TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
902955 TTA TTA TTA ATA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
902996 AATAATAATT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
2 6 0.08
3 71 0.92
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:902956 original size:43 final size:43
Alignment explanation
Indices: 902895--902993 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 43
902885 TCCATTTGTT
902895 TTTTA-TTTATT-TATTTATTATTATT-ATCATTATTATTATTA
1 TTTTATTTTATTATATTTATTATTATTAAT-ATTATTATTATTA
902936 TTATTATTTTATTATA-TTATTATTATTAATATTATTATTATTA
1 TT-TTATTTTATTATATTTATTATTATTAATATTATTATTATTA
902979 TTTTATTATTATTAT
1 TTTTATT-TTATTAT
902994 TAAATAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
41 2 0.04
42 8 0.15
43 39 0.74
44 4 0.08
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (43 bp):
TTTTATTTTATTATATTTATTATTATTAATATTATTATTATTA
Found at i:904296 original size:8 final size:8
Alignment explanation
Indices: 904283--904311 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
904273 TTCAGTATCT
904283 TAATTTAA
1 TAATTTAA
904291 TAATTTAA
1 TAATTTAA
904299 TAATTTAA
1 TAATTTAA
904307 TAATT
1 TAATT
904312 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TAATTTAA
Found at i:904634 original size:145 final size:145
Alignment explanation
Indices: 904364--904634 Score: 341
Period size: 145 Copynumber: 1.9 Consensus size: 145
904354 TATTAAATAA
*
904364 TAATATATATTTATTTTTTAATATTAAGAAAATGGTTGTCTTAAAACAACTAGATATCCTTTTAT
1 TAATATATATTTATTTTTTAATATTAAGAAAAGGGTTGTCTTAAAACAACTAGATATCCTTTTAT
* * * * ** * *
904429 GATATTTTTAAATAAATAAATATCCTACTTTTATAAATTATATATTTATTTTATTTTATTATTTT
66 GATATTTCTAAATAAATAAATATCCTACTTTTAAAAATAAAATAAATATTATATTATATTATTTT
904494 TAGGAAATGTTTTAT
131 TAGGAAATGTTTTAT
* * * * * *
904509 TAATATTTATTTATTTTTTAATATTAAGAAAGGGGTTGTTTTAAAGCAACTAGATGTCCTTTTCT
1 TAATATATATTTATTTTTTAATATTAAGAAAAGGGTTGTCTTAAAACAACTAGATATCCTTTTAT
* *
904574 GATATTTCTAAGTAAATAAATATCTTA-TTTATAAAAACCTAAAATAAATA-TATA-TATATTA
66 GATATTTCTAAATAAATAAATATCCTACTTT-TAAAAA--TAAAATAAATATTATATTATATTA
904635 AAAATATAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
144 3 0.03
145 93 0.88
146 3 0.03
147 7 0.07
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (145 bp):
TAATATATATTTATTTTTTAATATTAAGAAAAGGGTTGTCTTAAAACAACTAGATATCCTTTTAT
GATATTTCTAAATAAATAAATATCCTACTTTTAAAAATAAAATAAATATTATATTATATTATTTT
TAGGAAATGTTTTAT
Found at i:904644 original size:28 final size:29
Alignment explanation
Indices: 904587--904656 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
904577 ATTTCTAAGT
* * *
904587 AAATAAATATCTTATTTATAAAAACCT-A
1 AAATAAATATATTATATATAAAAACATAA
*
904615 AAATAAATATA-TATATATTAAAAATATAA
1 AAATAAATATATTATATA-TAAAAACATAA
*
904644 AAATTAATATATT
1 AAATAAATATATT
904657 TTCTTATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 5 0.15
28 17 0.50
29 11 0.32
30 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (29 bp):
AAATAAATATATTATATATAAAAACATAA
Found at i:905847 original size:36 final size:36
Alignment explanation
Indices: 905758--905961 Score: 151
Period size: 36 Copynumber: 5.7 Consensus size: 36
905748 AAACAAACAA
* * * ** *
905758 ATGTATATCATGCATATTATCATTAATACCAAGAAC
1 ATGTATATCATGCATATAATCATCAGTAGAAAGCAC
* * * *
905794 GT-TCATATCATGTATATAATCATCGGTAGAAAACAC
1 ATGT-ATATCATGCATATAATCATCAGTAGAAAGCAC
* * * *
905830 ATGTATATTATGCATATAATCATTAATAGCAAGCAC
1 ATGTATATCATGCATATAATCATCAGTAGAAAGCAC
* * * * * *
905866 GTGTATATTATACATATTATCATTAGTAGAAAGCGC
1 ATGTATATCATGCATATAATCATCAGTAGAAAGCAC
* * * * *
905902 ATATATATCATGCATAT-TTCATAAGTAGCAAGCGC
1 ATGTATATCATGCATATAATCATCAGTAGAAAGCAC
*
905937 ATTTATATCATGCATATAATCATCA
1 ATGTATATCATGCATATAATCATCA
905962 ATATTTATGA
Statistics
Matches: 131, Mismatches: 34, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
35 32 0.24
36 98 0.75
37 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (36 bp):
ATGTATATCATGCATATAATCATCAGTAGAAAGCAC
Found at i:905888 original size:72 final size:71
Alignment explanation
Indices: 905752--905961 Score: 208
Period size: 72 Copynumber: 2.9 Consensus size: 71
905742 GTATATAAAC
* * * **
905752 AAACAAATGTATATCATGCATATTATCATTAATACCAAGAACGTTCATATCATGTATATAATCAT
1 AAACACATGTATATCATGCATA-TATCATTAATAGCAAGCACGTTCATATCATACATATAATCAT
*
905817 CGGTAGA
65 CAGTAGA
* * *
905824 AAACACATGTATATTATGCATATAATCATTAATAGCAAGCACGTGT-ATATTATACATATTATCA
1 AAACACATGTATATCATGCATAT-ATCATTAATAGCAAGCACGT-TCATATCATACATATAATCA
*
905888 TTAGTAGA
64 TCAGTAGA
* * * * * * * *
905896 AAGCGCATATATATCATGCATATTTCA-TAAGTAGCAAGCGCATTTATATCATGCATATAATCAT
1 AAACACATGTATATCATGCATATATCATTAA-TAGCAAGCACGTTCATATCATACATATAATCAT
905960 CA
65 CA
905962 ATATTTATGA
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
70 4 0.04
71 31 0.27
72 77 0.68
73 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (71 bp):
AAACACATGTATATCATGCATATATCATTAATAGCAAGCACGTTCATATCATACATATAATCATC
AGTAGA
Found at i:911904 original size:205 final size:206
Alignment explanation
Indices: 911551--911965 Score: 823
Period size: 205 Copynumber: 2.0 Consensus size: 206
911541 CTGTACTGGA
911551 GCTTGCTCGGGTTGCGTCAGGCTGGAGTGAAATCCTCATCGGTGAATAAGTTGGGTAGAATCTCT
1 GCTTGCTCGGGTTGCGTCAGGCTGGAGTGAAATCCTCATCGGTGAATAAGTTGGGTAGAATCTCT
911616 TGAGTGCTTTCAGAGGTTGAGAAGGAGGAGGAGCTGAGGAATTCGTCTGTGTCGCCATGGCCTTT
66 TGAGTGCTTTCAGAGGTTGAGAAGGAGGAGGAGCTGAGGAATTCGTCTGTGTCGCCATGGCCTTT
911681 CTCTGGTATAGGCGAGACATGAGTGGCTAGTGGTGGGACATCTGTGGGTACCTTTGGGAGAACAT
131 CTCTGGTATAGGCGAGACATGAGTGGCTAGTGGTGGGACATCTGTGGGTACCTTTGGGAGAACAT
911746 TCGATGTTGAG
196 TCGATGTTGAG
911757 GCTTGCTCGGGTTGCGTCAGGCTGGAGTGAAATCCTCATCGGTGAATAAG-TGGGTAGAATCTCT
1 GCTTGCTCGGGTTGCGTCAGGCTGGAGTGAAATCCTCATCGGTGAATAAGTTGGGTAGAATCTCT
911821 TGAGTGCTTTCAGAGGTTGAGAAGGAGGAGGAGCTGAGGAATTCGTCTGTGTCGCCATGGCCTTT
66 TGAGTGCTTTCAGAGGTTGAGAAGGAGGAGGAGCTGAGGAATTCGTCTGTGTCGCCATGGCCTTT
911886 CTCTGGTATAGGCGAGACATGAGTGGCTAGTGGTGGGACATCTGTGGGTACCTTTGGGAGAACAT
131 CTCTGGTATAGGCGAGACATGAGTGGCTAGTGGTGGGACATCTGTGGGTACCTTTGGGAGAACAT
911951 TCGATGTTGAG
196 TCGATGTTGAG
911962 GCTT
1 GCTT
911966 CATTTATCAA
Statistics
Matches: 209, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
205 159 0.76
206 50 0.24
ACGTcount: A:0.20, C:0.16, G:0.35, T:0.28
Consensus pattern (206 bp):
GCTTGCTCGGGTTGCGTCAGGCTGGAGTGAAATCCTCATCGGTGAATAAGTTGGGTAGAATCTCT
TGAGTGCTTTCAGAGGTTGAGAAGGAGGAGGAGCTGAGGAATTCGTCTGTGTCGCCATGGCCTTT
CTCTGGTATAGGCGAGACATGAGTGGCTAGTGGTGGGACATCTGTGGGTACCTTTGGGAGAACAT
TCGATGTTGAG
Found at i:913310 original size:220 final size:220
Alignment explanation
Indices: 912928--913369 Score: 884
Period size: 220 Copynumber: 2.0 Consensus size: 220
912918 TCCCTAGGGT
912928 TTCTCTTCCTTTTATGTGTGAACTATCTCCCCATGCTGCCACGTGTACTCTGCATGCCTACAATA
1 TTCTCTTCCTTTTATGTGTGAACTATCTCCCCATGCTGCCACGTGTACTCTGCATGCCTACAATA
912993 AATAAAGAAAAACTAAAATAAAGCAAAACGGATAATGGGTACATAAAATAACTTAATTTATTTAT
66 AATAAAGAAAAACTAAAATAAAGCAAAACGGATAATGGGTACATAAAATAACTTAATTTATTTAT
913058 GTTCATAATTCAAATTTTCGTTGCCTATGCAACAAATTTTATTCAAGTAAGTAAGGTAAACTCTT
131 GTTCATAATTCAAATTTTCGTTGCCTATGCAACAAATTTTATTCAAGTAAGTAAGGTAAACTCTT
913123 GGGCATCATGTGTCGTTGATGCCGG
196 GGGCATCATGTGTCGTTGATGCCGG
913148 TTCTCTTCCTTTTATGTGTGAACTATCTCCCCATGCTGCCACGTGTACTCTGCATGCCTACAATA
1 TTCTCTTCCTTTTATGTGTGAACTATCTCCCCATGCTGCCACGTGTACTCTGCATGCCTACAATA
913213 AATAAAGAAAAACTAAAATAAAGCAAAACGGATAATGGGTACATAAAATAACTTAATTTATTTAT
66 AATAAAGAAAAACTAAAATAAAGCAAAACGGATAATGGGTACATAAAATAACTTAATTTATTTAT
913278 GTTCATAATTCAAATTTTCGTTGCCTATGCAACAAATTTTATTCAAGTAAGTAAGGTAAACTCTT
131 GTTCATAATTCAAATTTTCGTTGCCTATGCAACAAATTTTATTCAAGTAAGTAAGGTAAACTCTT
913343 GGGCATCATGTGTCGTTGATGCCGG
196 GGGCATCATGTGTCGTTGATGCCGG
913368 TT
1 TT
913370 TGTCCCACAT
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 222 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (220 bp):
TTCTCTTCCTTTTATGTGTGAACTATCTCCCCATGCTGCCACGTGTACTCTGCATGCCTACAATA
AATAAAGAAAAACTAAAATAAAGCAAAACGGATAATGGGTACATAAAATAACTTAATTTATTTAT
GTTCATAATTCAAATTTTCGTTGCCTATGCAACAAATTTTATTCAAGTAAGTAAGGTAAACTCTT
GGGCATCATGTGTCGTTGATGCCGG
Found at i:914573 original size:66 final size:66
Alignment explanation
Indices: 914423--914554 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
914413 ATACGGTGAC
914423 GAGTGACATTGAAGTAGAATTTCTTTGTACTCTTCTTCAGGAATGCATCTTTGGATTATTTGGTC
1 GAGTGACATTGAAGTAGAATTTCTTTGTACTCTTCTTCAGGAATGCATCTTTGGATTATTTGGTC
914488 T
66 T
914489 GAGTGACATTGAAGTAGAATTTCTTTGTACTCTTCTTCAGGAATGCATCTTTGGATTATTTGGTC
1 GAGTGACATTGAAGTAGAATTTCTTTGTACTCTTCTTCAGGAATGCATCTTTGGATTATTTGGTC
914554 T
66 T
914555 CCATATTGCT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (66 bp):
GAGTGACATTGAAGTAGAATTTCTTTGTACTCTTCTTCAGGAATGCATCTTTGGATTATTTGGTC
T
Found at i:917520 original size:30 final size:30
Alignment explanation
Indices: 917462--917560 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
917452 GAAGGACCTA
* *
917462 TCCAGAGGTCACAAAGA-CCCCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
* *
917491 TCCAGAGTTCATAAAGATCCTCAGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
* *
917521 TCCATAGGTCATAAAGATACTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
917551 TCCATAGGTC
1 TCCAGAGGTC
917561 CCGAAGAACC
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
29 15 0.25
30 46 0.75
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:917577 original size:30 final size:30
Alignment explanation
Indices: 917483--917596 Score: 88
Period size: 30 Copynumber: 3.8 Consensus size: 30
917473 CAAAGACCCC
* * ** *
917483 GGTAACTGTCCAGAGTTCATAAAGATCCTCA
1 GGTAACTGTCCATAGGTCACGAAGATACT-A
** *
917514 -GTAACTGTCCATAGGTCATAAAGATACTC
1 GGTAACTGTCCATAGGTCACGAAGATACTA
*
917543 GGTAACTGTCCATAGGTCCCGAAGA-ACCTA
1 GGTAACTGTCCATAGGTCACGAAGATA-CTA
* *
917573 GGTAAACTGTCCATATGTCTCGAA
1 GGT-AACTGTCCATAGGTCACGAA
917597 AGACATAGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.01
30 51 0.73
31 18 0.26
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (30 bp):
GGTAACTGTCCATAGGTCACGAAGATACTA
Found at i:917584 original size:31 final size:32
Alignment explanation
Indices: 917516--917610 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 32
917506 GATCCTCAGT
** * *
917516 AACTGTCCATAGGTCATAAAGATA-CTCGGT-
1 AACTGTCCATAGGTCACGAAGAGACCTAGGTA
*
917546 AACTGTCCATAGGTCCCGAAGA-ACCTAGGTA
1 AACTGTCCATAGGTCACGAAGAGACCTAGGTA
* * *
917577 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCACGAAGAGACCTAGGTA
917608 AAC
1 AAC
917611 CCTCGACTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
29 1 0.02
30 25 0.45
31 29 0.53
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (32 bp):
AACTGTCCATAGGTCACGAAGAGACCTAGGTA
Found at i:922617 original size:30 final size:30
Alignment explanation
Indices: 922558--922656 Score: 137
Period size: 30 Copynumber: 3.3 Consensus size: 30
922548 GAAGGACCTA
* * **
922558 TCCAGAGGTCACAAAGA-CCCCTGTAACTG
1 TCCAGAGGTCATAAAGATCCTCAATAACTG
922587 TCCAGAGGTCATAAAGATCCTCAATAACTG
1 TCCAGAGGTCATAAAGATCCTCAATAACTG
*
922617 TCCAGAGGTCATAAAGATCCTCAATAACTT
1 TCCAGAGGTCATAAAGATCCTCAATAACTG
*
922647 TCCATAGGTC
1 TCCAGAGGTC
922657 CCGAAGAACC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
29 16 0.25
30 47 0.75
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCAATAACTG
Found at i:922682 original size:31 final size:31
Alignment explanation
Indices: 922642--922706 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
922632 GATCCTCAAT
* *
922642 AACTTTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTATCCATAGGTCCCGAAAG-ACATAGGTA
* *
922673 AACTATCCATATGTCTCGAAAGACATAGGTA
1 AACTATCCATAGGTCCCGAAAGACATAGGTA
922704 AAC
1 AAC
922707 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 26 0.90
32 3 0.10
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (31 bp):
AACTATCCATAGGTCCCGAAAGACATAGGTA
Found at i:927174 original size:21 final size:20
Alignment explanation
Indices: 927148--927187 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
927138 GCATCAAGGT
*
927148 TTTTGTTGAAGCCATGAAATC
1 TTTTGTCGAAGCCAT-AAATC
*
927169 TTTTGTCGAGGCCATAAAT
1 TTTTGTCGAAGCCATAAAT
927188 TCCTGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTTGTCGAAGCCATAAATC
Found at i:932439 original size:14 final size:14
Alignment explanation
Indices: 932420--932448 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
932410 AGTTATTTTC
932420 TGCATAAATAAAGT
1 TGCATAAATAAAGT
932434 TGCATAAATAAAGT
1 TGCATAAATAAAGT
932448 T
1 T
932449 TGTTTTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (14 bp):
TGCATAAATAAAGT
Found at i:934615 original size:38 final size:38
Alignment explanation
Indices: 934573--934649 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
934563 ATTATTGGGG
*
934573 TAACGGAATGCTGATATTAAGTGTTAAACCAGCTGACC
1 TAACGGAATGCTGATATGAAGTGTTAAACCAGCTGACC
934611 TAACGGAATGCTGATATGAAGTGTTAAACCAGCTGACC
1 TAACGGAATGCTGATATGAAGTGTTAAACCAGCTGACC
934649 T
1 T
934650 GACATCATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (38 bp):
TAACGGAATGCTGATATGAAGTGTTAAACCAGCTGACC
Found at i:945428 original size:21 final size:21
Alignment explanation
Indices: 945396--945441 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
945386 AGTCGAGGGT
945396 TATACGAAGTCCTTCGGGACA
1 TATACGAAGTCCTTCGGGACA
945417 TATAC-AAGGTCCTTCGGGACA
1 TATACGAA-GTCCTTCGGGACA
945438 TATA
1 TATA
945442 TGATGTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
TATACGAAGTCCTTCGGGACA
Found at i:946269 original size:23 final size:23
Alignment explanation
Indices: 946211--946277 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
946201 ACACAAAGTG
946211 CCATAGTACACAAAGTACTAC-TA
1 CCATAGTACACAAAGTACT-CTTA
946234 -CA-AGTACACAAAGTACTCTTA
1 CCATAGTACACAAAGTACTCTTA
*
946255 CCATAGTACATAAAGTACTCTTA
1 CCATAGTACACAAAGTACTCTTA
946278 TGAAAATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.43
22 4 0.10
23 18 0.45
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (23 bp):
CCATAGTACACAAAGTACTCTTA
Found at i:949213 original size:20 final size:21
Alignment explanation
Indices: 949190--949240 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
949180 GCTCTAAATC
*
949190 GTTTTTTAAAATTTC-ATTTT
1 GTTTTTTAAAATTCCAATTTT
*
949210 GTTTTTTCAAATTCCAATTTT
1 GTTTTTTAAAATTCCAATTTT
*
949231 -TCTTTTAAAA
1 GTTTTTTAAAA
949241 GAAAATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.59
Consensus pattern (21 bp):
GTTTTTTAAAATTCCAATTTT
Found at i:951064 original size:143 final size:140
Alignment explanation
Indices: 950890--951255 Score: 510
Period size: 143 Copynumber: 2.6 Consensus size: 140
950880 CATTTATTTT
950890 CCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACTCATTTCAGCAAACTTTTCAATG
1 CCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACTCATTTCAGCAAACTTTTCAATG
*
950955 GTGATATATCACTTCATATAAAAAAAATG-TGCATTTCTAATAGGCAAAATAATGCACCATGGCA
66 GTGATATATCACTTCATATAAAAAAAATGTTGC-TTTCTAATAGGCAAAATAAT--A-CATGGAA
951019 TAAA-ATTTTCAATG
127 TAAACA-TTTCAATG
* * *
951033 TCCAATTAATTATATTAAGCAACTTTTCAGTGATATATCAACTCATTTC-GAAAAACTTTTCAAT
1 CCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACTCATTTCAG-CAAACTTTTCAAT
* *
951097 GGTGATATATCACTTCATATCAAAAAAATGTTTCTTTCTAATAGGCAAAATAATACATGGAATAA
65 GGTGATATATCACTTCATATAAAAAAAATGTTGCTTTCTAATAGGCAAAATAATACATGGAATAA
*
951162 ACATTTCAGTG
130 ACATTTCAATG
* * * * *
951173 CCCAGTTAATTATCTTCAA-CAA-TTTTTAGTGATATATCAACTCATTTCATCAAGCTTTTCAGC
1 CCCAATTAATTATCTT-AAGCAACTTTTCAGTGATATATCAACTCATTTCAGCAAACTTTTCA-A
951236 T-GTGATATATCACTTCATAT
64 TGGTGATATATCACTTCATAT
951256 CAAGAAACAT
Statistics
Matches: 202, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
139 53 0.26
140 34 0.17
141 4 0.02
142 1 0.00
143 108 0.53
144 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (140 bp):
CCCAATTAATTATCTTAAGCAACTTTTCAGTGATATATCAACTCATTTCAGCAAACTTTTCAATG
GTGATATATCACTTCATATAAAAAAAATGTTGCTTTCTAATAGGCAAAATAATACATGGAATAAA
CATTTCAATG
Found at i:958118 original size:19 final size:19
Alignment explanation
Indices: 958082--958124 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
958072 TTAATTGCGA
*
958082 AAATTTAAAATTTAAATTT
1 AAATTTAAAATTTAAATTC
*
958101 AAATTTAAAGA-TTCAATTC
1 AAATTTAAA-ATTTAAATTC
958120 AAATT
1 AAATT
958125 AATTATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTTAAAATTTAAATTC
Found at i:958221 original size:13 final size:13
Alignment explanation
Indices: 958191--958228 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
958181 AATCCAAGGA
958191 AAAATAA-AAAA-
1 AAAATAAGAAAAT
958202 AATAATAAGAAAAT
1 AA-AATAAGAAAAT
958216 AAAATAAGAAAAT
1 AAAATAAGAAAAT
958229 CCAAACGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 5 0.21
13 15 0.62
14 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAATAAGAAAAT
Found at i:959424 original size:24 final size:24
Alignment explanation
Indices: 959395--959453 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
959385 TGGTTTAGTG
959395 GGTATGTAGTGTGGTTGAGATAAT
1 GGTATGTAGTGTGGTTGAGATAAT
959419 GGTATGTAGTGTGGTTGAGATAAT
1 GGTATGTAGTGTGGTTGAGATAAT
*
959443 GGTAGGTAGTG
1 GGTATGTAGTG
959454 GTGAGATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.36
Consensus pattern (24 bp):
GGTATGTAGTGTGGTTGAGATAAT
Found at i:959460 original size:21 final size:23
Alignment explanation
Indices: 959395--959463 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
959385 TGGTTTAGTG
*
959395 GGTATGTAGTGTGGTTGAGATAAT
1 GGTAGGTAG-GTGGTTGAGATAAT
*
959419 GGTATGTAGTGTGGTTGAGATAAT
1 GGTAGGTAG-GTGGTTGAGATAAT
959443 GGTAGGTA-GTGG-TGAGATAAT
1 GGTAGGTAGGTGGTTGAGATAAT
959464 AGTGGGCTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
21 9 0.20
22 4 0.09
24 31 0.70
ACGTcount: A:0.26, C:0.00, G:0.39, T:0.35
Consensus pattern (23 bp):
GGTAGGTAGGTGGTTGAGATAAT
Found at i:959490 original size:4 final size:4
Alignment explanation
Indices: 959472--959527 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
959462 ATAGTGGGCT
*
959472 TAAA AAAA T-AA TAAA TAAA TAAA TAAA T-AA T-AA TAGTAA T-AA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA--AA TAAA TAAA
959518 TAAA TAAA TA
1 TAAA TAAA TA
959528 TTTTTGTGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
3 12 0.27
4 30 0.67
6 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:959873 original size:43 final size:44
Alignment explanation
Indices: 959803--960005 Score: 136
Period size: 43 Copynumber: 4.7 Consensus size: 44
959793 TGCCATACAA
* * * *
959803 GGGTGATAACACAGTTCCTACGAGATGAGGATGACTGGTTATCT
1 GGGTGTTAACACGGCTCCTACGTGATGAGGATGACTGGTTATCT
* * *
959847 GGG-GTTGACATGGCTCCTACGTGATGAGGA-GATCAGG---TC-
1 GGGTGTTAACACGGCTCCTACGTGATGAGGATGA-CTGGTTATCT
* * * **
959886 GGGTGTTAACACGGTTCCTACGTGATGAGGACGGCAT-GCCATCT
1 GGGTGTTAACACGGCTCCTACGTGATGAGGATGAC-TGGTTATCT
* ** *
959930 AAGGGTGATAACATAGTTCCTACGTGATGAGGATGGA-TGGTTATCT
1 --GGGTGTTAACACGGCTCCTACGTGATGAGGAT-GACTGGTTATCT
* *
959976 GGG-GTTGACACGGCTCCTACGTGACGAGGA
1 GGGTGTTAACACGGCTCCTACGTGATGAGGA
960006 GATCAGGTCA
Statistics
Matches: 122, Mismatches: 25, Indels: 25
0.71 0.15 0.15
Matches are distributed among these distances:
39 3 0.02
40 28 0.23
41 1 0.01
42 2 0.02
43 47 0.39
44 6 0.05
45 1 0.01
46 33 0.27
47 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (44 bp):
GGGTGTTAACACGGCTCCTACGTGATGAGGATGACTGGTTATCT
Found at i:959910 original size:40 final size:41
Alignment explanation
Indices: 959723--960045 Score: 144
Period size: 40 Copynumber: 7.6 Consensus size: 41
959713 GTCTAAGGGT
* * *
959723 TGACAAGGCTCCTACGTGATGAGGA-GATCAAGTCGGGTGA
1 TGACACGGTTCCTACGTGATGAGGAGGATCAGGTCGGGTGA
* *
959763 TGACATGGTTCTTACGTGATGAGGATGGCATGCCA--TACAAGGGTGA
1 TGACACGGTTCCTACGTGATGAGGA-GG-AT--CAGGT-C--GGGTGA
* * * * * *
959809 TAACACAGTTCCTACGAGATGAGGATGA-CTGGTTATCTGGG-GT
1 TGACACGGTTCCTACGTGATGAGGAGGATCAGG---TC-GGGTGA
* * *
959852 TGACATGGCTCCTACGTGATGAGGA-GATCAGGTCGGGTGT
1 TGACACGGTTCCTACGTGATGAGGAGGATCAGGTCGGGTGA
* ** *
959892 TAACACGGTTCCTACGTGATGAGGACGGCATGCCATCTAAGGGTGA
1 TGACACGGTTCCTACGTGATGAGGA-GG-AT--CAGGT-CGGGTGA
* ** *
959938 TAACATAGTTCCTACGTGATGAGGATGGAT--GGTTATCTGGG-GT
1 TGACACGGTTCCTACGTGATGAGGA-GGATCAGG---TC-GGGTGA
* * **
959981 TGACACGGCTCCTACGTGACGAGGA-GATCAGGTCAAGTGA
1 TGACACGGTTCCTACGTGATGAGGAGGATCAGGTCGGGTGA
*
960021 TGATACGGTTCCTACGTGATGAGGA
1 TGACACGGTTCCTACGTGATGAGGA
960046 TGGCAGACCA
Statistics
Matches: 212, Mismatches: 43, Indels: 56
0.68 0.14 0.18
Matches are distributed among these distances:
39 4 0.02
40 73 0.34
41 4 0.02
42 4 0.02
43 52 0.25
44 9 0.04
45 9 0.04
46 57 0.27
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (41 bp):
TGACACGGTTCCTACGTGATGAGGAGGATCAGGTCGGGTGA
Found at i:959949 original size:129 final size:129
Alignment explanation
Indices: 959719--960075 Score: 513
Period size: 129 Copynumber: 2.8 Consensus size: 129
959709 GGTCGTCTAA
* * *
959719 GGGTTGACAAGGCTCCTACGTGATGAGGAGATCAAGTCGGGTGATGACATGGTTCTTACGTGATG
1 GGGTTGACAAGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
959784 AGGATGGCATGCCATAC-AAGGGTGATAACACAGTTCCTACGAGATGAGGAT-GACTGGTTATCT
66 AGGATGGCATGCCAT-CTAAGGGTGATAACACAGTTCCTACGAGATGAGGATGGA-TGGTTATCT
959847 G
129 G
* * *
959848 GGGTTGACATGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGTTAACACGGTTCCTACGTGATG
1 GGGTTGACAAGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
* * *
959913 AGGACGGCATGCCATCTAAGGGTGATAACATAGTTCCTACGTGATGAGGATGGATGGTTATCTG
66 AGGATGGCATGCCATCTAAGGGTGATAACACAGTTCCTACGAGATGAGGATGGATGGTTATCTG
* * ** *
959977 GGGTTGACACGGCTCCTACGTGACGAGGAGATCAGGTCAAGTGATGATACGGTTCCTACGTGATG
1 GGGTTGACAAGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
*
960042 AGGATGGCA-GACCATCATTAGGGATGATAACACA
66 AGGATGGCATG-CCATC-TAAGGG-TGATAACACA
960076 ATTTCAAGAG
Statistics
Matches: 204, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
128 2 0.01
129 186 0.91
130 7 0.03
131 9 0.04
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (129 bp):
GGGTTGACAAGGCTCCTACGTGATGAGGAGATCAGGTCGGGTGATGACACGGTTCCTACGTGATG
AGGATGGCATGCCATCTAAGGGTGATAACACAGTTCCTACGAGATGAGGATGGATGGTTATCTG
Found at i:959953 original size:46 final size:45
Alignment explanation
Indices: 959757--959965 Score: 164
Period size: 46 Copynumber: 4.8 Consensus size: 45
959747 AGATCAAGTC
* * *
959757 GGGTGATGACATGGTTCTTACGTGATGAGGATGGCATGCCATACAA
1 GGGTGATAACATGGTTCCTACGTGATGAGGATGGCATGCCAT-CTA
** * * **
959803 GGGTGATAACACAGTTCCTACGAGATGAGGATGAC-TGGTTATCT-
1 GGGTGATAACATGGTTCCTACGTGATGAGGATGGCAT-GCCATCTA
* * * ** *
959847 GGG-GTTGACATGGCTCCTACGTGATGAGGA--G-AT--CAGGTC
1 GGGTGATAACATGGTTCCTACGTGATGAGGATGGCATGCCATCTA
* * *
959886 GGGTGTTAACACGGTTCCTACGTGATGAGGACGGCATGCCATCTAA
1 GGGTGATAACATGGTTCCTACGTGATGAGGATGGCATGCCATCT-A
*
959932 GGGTGATAACATAGTTCCTACGTGATGAGGATGG
1 GGGTGATAACATGGTTCCTACGTGATGAGGATGG
959966 ATGGTTATCT
Statistics
Matches: 124, Mismatches: 29, Indels: 20
0.72 0.17 0.12
Matches are distributed among these distances:
38 2 0.02
39 3 0.02
40 24 0.19
41 1 0.01
42 1 0.01
43 23 0.19
44 3 0.02
45 5 0.04
46 62 0.50
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (45 bp):
GGGTGATAACATGGTTCCTACGTGATGAGGATGGCATGCCATCTA
Found at i:960605 original size:37 final size:35
Alignment explanation
Indices: 960515--960623 Score: 157
Period size: 36 Copynumber: 3.0 Consensus size: 35
960505 ATATCAAAGT
960515 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TTTTGTTTCAA-GGAAACTGTCTCAAGAGAGACAAA
*
960551 ATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAGA
1 TTTTGTTTCAAG-GAAACTGTCTCAAGAGAGACAA-A
*
960588 TTTTGTTTTAACGGAAACTGTCTCAAGAGAGA-AAA
1 TTTTGTTTCAA-GGAAACTGTCTCAAGAGAGACAAA
960623 T
1 T
960624 GGTGAGCACG
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
35 3 0.04
36 34 0.51
37 29 0.43
38 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (35 bp):
TTTTGTTTCAAGGAAACTGTCTCAAGAGAGACAAA
Found at i:962954 original size:12 final size:12
Alignment explanation
Indices: 962937--962970 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
962927 TTTCTTTTTA
962937 TTTTCTCTTTGC
1 TTTTCTCTTTGC
962949 TTTTCTCTTTGC
1 TTTTCTCTTTGC
962961 TTTTCTCTTT
1 TTTTCTCTTT
962971 TTTATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.24, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTCTCTTTGC
Found at i:969551 original size:3 final size:3
Alignment explanation
Indices: 969543--969592 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
969533 TCAGTTTAAA
* *
969543 ATT ATT ATT ATT ATT AAT ATAT ATT ATT ATT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
969589 ATT A
1 ATT A
969593 AATAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:969593 original size:9 final size:9
Alignment explanation
Indices: 969538--969593 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
969528 ATTTTTCAGT
*
969538 TTAAAATTA
1 TTAATATTA
*
969547 TTATTATTA
1 TTAATATTA
969556 TTAATA-TA
1 TTAATATTA
*
969564 -TATTATTA
1 TTAATATTA
*
969572 TTATTATTA
1 TTAATATTA
969581 TTAATATTA
1 TTAATATTA
969590 TTAA
1 TTAA
969594 ATAAAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 4 0.10
8 4 0.10
9 32 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATATTA
Found at i:970623 original size:20 final size:20
Alignment explanation
Indices: 970594--970635 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
970584 TAATTTTATA
*
970594 TTATAGTCATTAAAATTAAT
1 TTATAATCATTAAAATTAAT
* *
970614 TTATAATCATTTAAATTCAT
1 TTATAATCATTAAAATTAAT
970634 TT
1 TT
970636 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (20 bp):
TTATAATCATTAAAATTAAT
Found at i:970954 original size:2 final size:2
Alignment explanation
Indices: 970947--970988 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
970937 AGTCATGCTA
970947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
970989 GCATATGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:972390 original size:16 final size:14
Alignment explanation
Indices: 972354--972396 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 14
972344 AGATACTAAC
972354 CATTTTATTTTTTT
1 CATTTTATTTTTTT
972368 CTTATTTTATTTTTTAT
1 C--ATTTTATTTTTT-T
972385 ACATTTTATTTT
1 -CATTTTATTTT
972397 GCTCTAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.04
16 22 0.88
17 1 0.04
18 1 0.04
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTATTTTTTT
Found at i:978535 original size:79 final size:78
Alignment explanation
Indices: 978435--978585 Score: 198
Period size: 78 Copynumber: 1.9 Consensus size: 78
978425 AAGAAAATAT
* *
978435 TGGGGCATCTCGAAAGCCCATTTGAGA-CAGAAATGATCAATG-TGGGGCATTTTGAAGGTCTAA
1 TGGGACATCTCGAAAGCCCATTTCA-ACCAGAAAT-A-CAATGTTGGGGCATTTTGAAGGTCTAA
*
978498 TTCAGACAGATCCATG
63 TTCAAACAGATCCATG
* * * *
978514 TGGGACATCTTGAAAGTCCATTTCAACCAGAAATAGAATGTTGGGGCATTTTGAATGTCTAATTC
1 TGGGACATCTCGAAAGCCCATTTCAACCAGAAATACAATGTTGGGGCATTTTGAAGGTCTAATTC
978579 AAACAGA
66 AAACAGA
978586 AATGATTCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
77 4 0.06
78 31 0.49
79 28 0.44
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (78 bp):
TGGGACATCTCGAAAGCCCATTTCAACCAGAAATACAATGTTGGGGCATTTTGAAGGTCTAATTC
AAACAGATCCATG
Found at i:978580 original size:41 final size:38
Alignment explanation
Indices: 978470--978588 Score: 107
Period size: 37 Copynumber: 3.1 Consensus size: 38
978460 GACAGAAATG
*
978470 ATCAATGTGGGGCATTTTGAAGGTCTAATTCAGACAG--
1 ATCAATGTGGGGCATTTTGAAAGTCTAATTCA-ACAGAA
* * * * *
978507 ATCCATGTGGGACATCTTGAAAGTCCATTTCAACCAGAA
1 ATCAATGTGGGGCATTTTGAAAGTCTAATTCAA-CAGAA
* *
978546 ATAGAATGTTGGGGCATTTTGAATGTCTAATTCAAACAGAA
1 AT-CAATG-TGGGGCATTTTGAAAGTCTAATTC-AACAGAA
978587 AT
1 AT
978589 GATTCATGTG
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
36 1 0.02
37 29 0.46
39 2 0.03
40 3 0.05
41 26 0.41
42 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (38 bp):
ATCAATGTGGGGCATTTTGAAAGTCTAATTCAACAGAA
Found at i:979467 original size:54 final size:54
Alignment explanation
Indices: 979380--979541 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
979370 TTGATGAGAA
* * *
979380 ATCTAGGCAGAAGCCACAATAAAAT-ATTAATGTATTGTCAAATGTTTTACGAAC
1 ATCTGGGCAGAAGCCAC-ATGAAATGATGAATGTATTGTCAAATGTTTTACGAAC
*
979434 ATCTGGGCAGAAGCCACATGAAATGATGAATGTATTGTCAAATGTTTTACAAAC
1 ATCTGGGCAGAAGCCACATGAAATGATGAATGTATTGTCAAATGTTTTACGAAC
* * * * *
979488 ATCTGGGCAGGAGCCACATGAAAGGATGAATATGTTGTCAAATGTTTTATGAAC
1 ATCTGGGCAGAAGCCACATGAAATGATGAATGTATTGTCAAATGTTTTACGAAC
979542 CAGTGATTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 6 0.06
54 91 0.94
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (54 bp):
ATCTGGGCAGAAGCCACATGAAATGATGAATGTATTGTCAAATGTTTTACGAAC
Found at i:980718 original size:47 final size:47
Alignment explanation
Indices: 980656--980761 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
980646 TGATATTTTC
** * * *
980656 AAAGCCTTCGGGTCATCTGTAAGACCTATAGTGCATGGTGTTTTCAA
1 AAAGCCTTCGGGTCATCCATAAGACATATAGTGCATGATGTTTTAAA
980703 AAAGCCTTCGGGTCATCCATAAGACATATAGTGCATGATGTTTTAAA
1 AAAGCCTTCGGGTCATCCATAAGACATATAGTGCATGATGTTTTAAA
980750 AAAGCCTTCGGG
1 AAAGCCTTCGGG
980762 AGCTTTTTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (47 bp):
AAAGCCTTCGGGTCATCCATAAGACATATAGTGCATGATGTTTTAAA
Found at i:980840 original size:45 final size:45
Alignment explanation
Indices: 980769--980882 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
980759 GGGAGCTTTT
* * * * *
980769 TGATATTTTCAAAGCCTTCAGTTCATCTATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
980814 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
980859 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
980883 AGCTTTTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 49 0.80
46 4 0.07
47 8 0.13
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:980889 original size:121 final size:122
Alignment explanation
Indices: 980603--981121 Score: 791
Period size: 121 Copynumber: 4.3 Consensus size: 122
980593 CATCTGTAAT
* * * *
980603 ACCTACAGCGCAGGATGTTTTCAAAAAGCCTTTGGGAGCATTTTGATATTTTCAAAGCCTTCGGG
1 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCAGG
* *
980668 TCATCTGTAAGACCTATAGTGCATGGTGTTTTCAAAAAGCCTTCGGGTCATCCATAAG
66 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAA-CCTTCGGGTCATCCATAAG
* * * * *
980726 ACATATAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCAGT
1 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCAGG
*
980791 TCATCTATAAGACCTACAGTGCATGATGTTTTC-AAAACCTTCGGGTCATCCATAAG
66 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCCATAAG
*
980847 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGG
1 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCAGG
*
980912 TCATCTGTAAGACCTACAGTGCATGATGTTTTC-AAAACCTTCGGGTCATTCATAAG
66 TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCCATAAG
* *
980968 ACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC-GA
1 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCAG-
**
981032 GTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGT-A-
65 GTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCCATAAG
* *
981088 ACCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
981122 TCATCTGTAA
Statistics
Matches: 366, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
118 8 0.02
119 4 0.01
120 20 0.05
121 227 0.62
122 21 0.06
123 86 0.23
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (122 bp):
ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCAGG
TCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCCATAAG
Found at i:980945 original size:76 final size:74
Alignment explanation
Indices: 980814--980956 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 74
980804 CTACAGTGCA
*
980814 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAA-CCTT
980879 CGGGAGCTTTT
64 CGGGAGCTTTT
* ** *
980890 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAACCTTCG
980955 GG
66 GG
980957 TCATTCATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 8 0.13
75 4 0.06
76 50 0.81
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:980959 original size:45 final size:45
Alignment explanation
Indices: 980890--981003 Score: 149
Period size: 45 Copynumber: 2.5 Consensus size: 45
980880 GGGAGCTTTT
* * * *
980890 TGATATTTTCAAAGCCTTCGGGTCA-TCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATTC-ATAAGACCTACAGTACA
980935 TGATGTTTTCAAAACCTTCGGGTCATTCATAAGACCTACAGTACA
1 TGATGTTTTCAAAACCTTCGGGTCATTCATAAGACCTACAGTACA
*
980980 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
981004 AGCTTTTTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
45 47 0.77
46 6 0.10
47 8 0.13
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATTCATAAGACCTACAGTACA
Found at i:981016 original size:76 final size:75
Alignment explanation
Indices: 980935--981078 Score: 218
Period size: 76 Copynumber: 1.9 Consensus size: 75
980925 CTACAGTGCA
*
980935 TGATGTTTTCAAAACCTTCGGGTCAT-TCATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGAGTCATCT-ATAAGACCTACAGTACAGGATGTTTTCAAAAA-CCT
980999 TCGGGAGCTTTT
64 TCGGGAGCTTTT
* * * *
981011 TGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTC
1 TGATGTTTTCAAAACCTTCGAGTCATCTATAAGACCTACAGTACAGGATGTTTTCAAAAACCTTC
981076 GGG
66 GGG
981079 TCATCTGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 8 0.13
76 53 0.85
77 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (75 bp):
TGATGTTTTCAAAACCTTCGAGTCATCTATAAGACCTACAGTACAGGATGTTTTCAAAAACCTTC
GGGAGCTTTT
Found at i:981109 original size:44 final size:45
Alignment explanation
Indices: 981011--981210 Score: 232
Period size: 42 Copynumber: 4.5 Consensus size: 45
981001 GGGAGCTTTT
* *
981011 TGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
*
981056 TGATGTTTTCAAAAACCTTCGGGTCATCTGT-A-ACCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
981100 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* * * ** *
981145 AGATG--AT-AAGACC-TCAGGACCATCTATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGACCTACAGTGCA
*
981187 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
981211 AGCTTTTTGA
Statistics
Matches: 131, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.24
43 21 0.16
44 23 0.18
45 26 0.20
46 21 0.16
47 4 0.03
48 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:981154 original size:22 final size:22
Alignment explanation
Indices: 981129--981191 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 22
981119 GGGTCATCTG
981129 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGCAAGATGA
** *
981151 TAAGACCT-CAG-G-ACCATCTA
1 TAAGACCTACAGTGCAAGAT-GA
*
981171 TAAGACCTACAGTGCAGGATG
1 TAAGACCTACAGTGCAAGATG
981192 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 3 0.10
20 10 0.32
21 6 0.19
22 9 0.29
23 3 0.10
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (22 bp):
TAAGACCTACAGTGCAAGATGA
Found at i:981207 original size:89 final size:88
Alignment explanation
Indices: 981012--981210 Score: 228
Period size: 89 Copynumber: 2.2 Consensus size: 88
981002 GGAGCTTTTT
* * *
981012 GATGTTTTC-AAAGCCTTCGAGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTC
1 GATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATG-TAT-AAAAACCTTC
** * * *
981076 GGGTCATCTGTAACCTTCAGTGCAT
64 GGACCATCTATAACCTACAGTGCAG
*
981101 GATGTTTTCAAAA-CCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATG-AT-AAGACC-TCAG
1 GATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTATAAAAACCTTC-G
981162 GACCATCTATAAGACCTACAGTGCAG
65 GACCATCTAT-A-ACCTACAGTGCAG
981188 GATGTTTTCAAAAAGCCTTCGGG
1 GATGTTTTC-AAAAGCCTTCGGG
981211 AGCTTTTTGA
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
84 2 0.02
85 13 0.14
86 1 0.01
87 21 0.22
88 4 0.04
89 51 0.54
90 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (88 bp):
GATGTTTTCAAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTATAAAAACCTTCGG
ACCATCTATAACCTACAGTGCAG
Found at i:981213 original size:207 final size:207
Alignment explanation
Indices: 980890--981265 Score: 562
Period size: 207 Copynumber: 1.8 Consensus size: 207
980880 GGGAGCTTTT
* * *
980890 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATG-TATCAAAACCTTCG
** *
980955 GGTCATTCATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT
65 GACCATTCATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT
* * *
981020 CAAAGCCTTCGAGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCT
129 -AAAACCTCCGAGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAACCTTCGGGTCATCT
981085 GTAACCTTCAGTGCA
193 GTAACCTTCAGTGCA
* *
981100 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATG-AT-AAGACC-TCAG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTATCAAAACCTTC-G
*
981162 GACCA-TCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTT
65 GACCATTC-ATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTT
*
981226 AAAACCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATG
129 AAAACCTCCGAGTCATCTGTAAGACCTACAGTGCAAGATG
981266 ATAAGACCTC
Statistics
Matches: 151, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
205 36 0.24
206 7 0.05
207 60 0.40
208 1 0.01
210 47 0.31
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (207 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGTATCAAAACCTTCGG
ACCATTCATAAGACCTACAGTACAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAA
AACCTCCGAGTCATCTGTAAGACCTACAGTGCAAGATGTTTTCAAAAACCTTCGGGTCATCTGTA
ACCTTCAGTGCA
Found at i:981513 original size:3 final size:3
Alignment explanation
Indices: 981439--981501 Score: 92
Period size: 3 Copynumber: 21.3 Consensus size: 3
981429 TTATTTTAAA
** *
981439 ATT ATT ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT AAT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
981486 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
981502 ATGATATTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:984185 original size:27 final size:27
Alignment explanation
Indices: 984146--984235 Score: 162
Period size: 27 Copynumber: 3.3 Consensus size: 27
984136 CCAAGAAATA
984146 AACAAGATGAAGAATAAACTTTAGATT
1 AACAAGATGAAGAATAAACTTTAGATT
*
984173 TACAAGATGAAGAATAAACTTTAGATT
1 AACAAGATGAAGAATAAACTTTAGATT
*
984200 AACAAGATGAAGTATAAACTTTAGATT
1 AACAAGATGAAGAATAAACTTTAGATT
984227 AACAAGATG
1 AACAAGATG
984236 GCTTTGGAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.27
Consensus pattern (27 bp):
AACAAGATGAAGAATAAACTTTAGATT
Found at i:986249 original size:59 final size:59
Alignment explanation
Indices: 986174--986526 Score: 584
Period size: 59 Copynumber: 6.0 Consensus size: 59
986164 TATATTTCCC
*
986174 ATACGGAAATTCATACA-TCTAGTATGAATTTCTTAACATGTTT-GCACACAAAGTGCCCA
1 ATACGGAAATTCATACACT-TAGTATGAATTTCTTAACAT-TTTAGCACACATAGTGCCCA
* * *
986233 ATATGGAAATTCATACACTTAGTATGATTTTCTTAACATTTTAGCACACATACTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
986292 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
*
986351 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
* * *
986410 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATATAGTTCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
*
986469 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACAATTTTAGCACACTTAGTGCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAC-ATTTTAGCACACATAGTGCC
986527 ATTTGGTAAT
Statistics
Matches: 275, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
58 3 0.01
59 254 0.92
60 18 0.07
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCA
Found at i:986974 original size:20 final size:21
Alignment explanation
Indices: 986946--986995 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
986936 TTTCAAAATG
* *
986946 GTATTGATATCTTCCA-TTCA
1 GTATCGATATCTCCCACTTCA
*
986966 GTATCGATA-CTCCCACTTCG
1 GTATCGATATCTCCCACTTCA
986986 GTATCGATAT
1 GTATCGATAT
986996 TGATTGAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (21 bp):
GTATCGATATCTCCCACTTCA
Found at i:988787 original size:13 final size:13
Alignment explanation
Indices: 988769--988800 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
988759 CGATCACAAC
988769 ACTTCAAAATACA
1 ACTTCAAAATACA
988782 ACTTC--AATACA
1 ACTTCAAAATACA
988793 ACTTCAAA
1 ACTTCAAA
988801 TCCTTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (13 bp):
ACTTCAAAATACA
Found at i:991274 original size:26 final size:26
Alignment explanation
Indices: 991238--991290 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
991228 TTTTTATTCA
* * *
991238 ACCTCCCATTTTAGAAATGACTGGTG
1 ACCTCCAATTTTAAAAATAACTGGTG
*
991264 ACCTCCAATTTTAAAAATAATTGGTG
1 ACCTCCAATTTTAAAAATAACTGGTG
991290 A
1 A
991291 TGATCCTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (26 bp):
ACCTCCAATTTTAAAAATAACTGGTG
Found at i:994602 original size:15 final size:15
Alignment explanation
Indices: 994582--994614 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
994572 CGTAGGACCC
994582 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
994597 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
994612 CTA
1 CTA
994615 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:994763 original size:23 final size:26
Alignment explanation
Indices: 994726--994778 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 26
994716 TTCTCTTGTG
994726 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
994750 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
994775 ATCA
1 ATCA
994779 CATGAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.41
24 8 0.30
25 8 0.30
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.40
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:995198 original size:64 final size:64
Alignment explanation
Indices: 995130--995251 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 64
995120 CATAAAAGGT
* * * *
995130 ATTCGATGTATT-ATTATT-GCTGAGATGCATCTATGCACT-CCTTATGCATCGATGCACCAATT
1 ATTCGATGT-TTCATTATTAAC-GAGATGCATCGATGCACTACC-AATGCATCGATACACCAATT
995192 GC
63 GC
*
995194 ATTCGATGTTTCATTATTAACGGGATGCATCGATGCACTACCAATGCATCGATACACC
1 ATTCGATGTTTCATTATTAACGAGATGCATCGATGCACTACCAATGCATCGATACACC
995252 TTCAAACAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
63 2 0.04
64 45 0.90
65 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (64 bp):
ATTCGATGTTTCATTATTAACGAGATGCATCGATGCACTACCAATGCATCGATACACCAATTGC
Found at i:1000279 original size:30 final size:30
Alignment explanation
Indices: 1000203--1000282 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
1000193 GCCTTGAGAA
* * *
1000203 GACCACGCTCTGA-TACAACTGATTCTGCTG
1 GACCACGCCCT-ACTACAGCTGATTCTACTG
* * *
1000233 AACCACGCCCTGCTACAGCTGATTTTACTG
1 GACCACGCCCTACTACAGCTGATTCTACTG
1000263 GACCACGCCCTACTACAGCT
1 GACCACGCCCTACTACAGCT
1000283 TGATCTTGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (30 bp):
GACCACGCCCTACTACAGCTGATTCTACTG
Found at i:1003131 original size:23 final size:23
Alignment explanation
Indices: 1003108--1003194 Score: 111
Period size: 23 Copynumber: 3.8 Consensus size: 23
1003098 CAACTCATAT
* * *
1003108 AATTACACTGAAGTGCCACGTAT
1 AATTACACCGGAGTGCCACGTAG
*
1003131 AATTGCACCGGAGTGCCACGTAG
1 AATTACACCGGAGTGCCACGTAG
*
1003154 AATTACATCGGAGTGCCACGTAG
1 AATTACACCGGAGTGCCACGTAG
* *
1003177 AATTGCACCGTAGTGCCA
1 AATTACACCGGAGTGCCA
1003195 TATAATAATG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
AATTACACCGGAGTGCCACGTAG
Found at i:1003383 original size:103 final size:103
Alignment explanation
Indices: 1003210--1003427 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
1003200 TAATGTCCAT
* *
1003210 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1003275 TACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
1003313 AAGGACCACATATCATTCTTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1003378 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1003416 AAGGACCACATA
1 AAGGACCACATA
1003428 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1004303 original size:19 final size:19
Alignment explanation
Indices: 1004279--1004330 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
1004269 TATTACTGGG
1004279 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
1004298 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
1004317 ATGCATCGATGCAT
1 ATGCATCGATGCAT
1004331 CAATTGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (19 bp):
ATGCATCGATGCATGCCTT
Found at i:1008880 original size:23 final size:23
Alignment explanation
Indices: 1008854--1008920 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
1008844 TCACAGCTCA
1008854 TATAATTGCACCGAAGTGCCACG
1 TATAATTGCACCGAAGTGCCACG
* *
1008877 TATAATTGCACCGGAGTGCCGCG
1 TATAATTGCACCGAAGTGCCACG
*
1008900 TAGAATTGCACCGAAGTGCCA
1 TATAATTGCACCGAAGTGCCA
1008921 TATAGTAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.21
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCACG
Found at i:1009107 original size:103 final size:103
Alignment explanation
Indices: 1008939--1009153 Score: 367
Period size: 103 Copynumber: 2.1 Consensus size: 103
1008929 TGTCCATAAG
* *
1008939 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
1009004 TTCACACATGTTCCAAAGAATACATATATGTCCCAAAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCAAAA
* *
1009042 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGTATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
* * *
1009107 TTTACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCAAAA
1009145 GACCACATA
1 GACCACATA
1009154 GACCCTCGAC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCAAAA
Found at i:1010093 original size:64 final size:64
Alignment explanation
Indices: 1009945--1010097 Score: 157
Period size: 64 Copynumber: 2.4 Consensus size: 64
1009935 CTATCGGTGG
* * * * ** *
1009945 ATCGATGCACTACATGTGCATCGGTGCATAAAATACATTCGATGTTTGTATATTACTGGGATGC
1 ATCGATGCACTACTTGTGCATCGATGCACAAAATACATTCGATGTTTGTAGATTAAAGAGATGC
* * * * * *
1010009 ATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAA-AGAGTG
1 ATCGATGCACT-ACTTGTGCATCGATGCACAAAATACATTCGATGTTTGTAGATTAAAGAGA-TG
1010072 C
64 C
1010073 ATCGATGCACTACTTGTGCATCGAT
1 ATCGATGCACTACTTGTGCATCGAT
1010098 ATACCTTCAA
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
63 3 0.04
64 67 0.94
65 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (64 bp):
ATCGATGCACTACTTGTGCATCGATGCACAAAATACATTCGATGTTTGTAGATTAAAGAGATGC
Found at i:1016404 original size:182 final size:182
Alignment explanation
Indices: 1016097--1016460 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 182
1016087 AAGAATTAGG
1016097 TCGAAGGTTGGTTCTCTTCTTTAGATAGACTTAACAATAATTCTGGCCTAAGCAATCAAATTATG
1 TCGAAGGTTGGTTCTCTTCTTTAGATAGACTTAACAATAATTCTGGCCTAAGCAATCAAATTATG
1016162 CATTCATCATCGGGCATCCCTAATTCATTCCAAACAATAATCTTAACATGCTTATGTCATGAAAA
66 CATTCATCATCGGGCATCCCTAATTCATTCCAAACAATAATCTTAACATGCTTATGTCATGAAAA
1016227 CCAAAATTTTCAACCAATTATCATCAACTGCTTTTTAACAAGGTATGAAAAA
131 CCAAAATTTTCAACCAATTATCATCAACTGCTTTTTAACAAGGTATGAAAAA
1016279 TCGAAGGTTGGTTCTCTTCTTTAGATAGACTTAACAATAATTCTGGCCTAAGCAATCAAATTATG
1 TCGAAGGTTGGTTCTCTTCTTTAGATAGACTTAACAATAATTCTGGCCTAAGCAATCAAATTATG
1016344 CATTCATCATCGGGCATCCCTAATTCATTCCAAACAATAATCTTAACATGCTTATGTCATGAAAA
66 CATTCATCATCGGGCATCCCTAATTCATTCCAAACAATAATCTTAACATGCTTATGTCATGAAAA
1016409 CCAAAATTTTCAACCAATTATCATCAACTGCTTTTTAACAAGGTATGAAAAA
131 CCAAAATTTTCAACCAATTATCATCAACTGCTTTTTAACAAGGTATGAAAAA
1016461 ATTTGGTACA
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 182 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (182 bp):
TCGAAGGTTGGTTCTCTTCTTTAGATAGACTTAACAATAATTCTGGCCTAAGCAATCAAATTATG
CATTCATCATCGGGCATCCCTAATTCATTCCAAACAATAATCTTAACATGCTTATGTCATGAAAA
CCAAAATTTTCAACCAATTATCATCAACTGCTTTTTAACAAGGTATGAAAAA
Found at i:1022936 original size:21 final size:19
Alignment explanation
Indices: 1022903--1022943 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
1022893 TGCATCAAGG
*
1022903 TCTTTGTGGAGGCCATGAAA
1 TCTTTGTCGAGGCCAT-AAA
1022923 TCTTTCGTCGAGGCCATAAA
1 TCTTT-GTCGAGGCCATAAA
1022943 T
1 T
1022944 TCCTACAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (19 bp):
TCTTTGTCGAGGCCATAAA
Found at i:1027403 original size:23 final size:24
Alignment explanation
Indices: 1027345--1027403 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
1027335 TTCAGGACAT
*
1027345 TTCTACGTGGCACTTCAGTGCATA
1 TTCTACGTGGTACTTCAGTGCATA
** *
1027369 TTCTACACGGTACTTCGGTGCA-A
1 TTCTACGTGGTACTTCAGTGCATA
*
1027392 TTCTATGTGGTA
1 TTCTACGTGGTA
1027404 GTTTCGACTG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (24 bp):
TTCTACGTGGTACTTCAGTGCATA
Found at i:1036222 original size:55 final size:55
Alignment explanation
Indices: 1036164--1036764 Score: 540
Period size: 51 Copynumber: 11.3 Consensus size: 55
1036154 TGACGAGCTT
* *
1036164 GCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTC-ATAAAAAGTGTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCAAT-AAACGTGTCC
* * * * *
1036219 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-AAACGTGTCC
* * *
1036275 GCTCTCTCTTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAATAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAATAAACGTGTCC
* * ** *
1036330 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * * *
1036381 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAGCAATCTT-AATAAAACGGGTTC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-AAACGTGTCC
* * *
1036436 GCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAATGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAATAAACGTGTCC
* ** *
1036491 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * ** *
1036542 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* ** *
1036593 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* ** *
1036644 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
* * ** *
1036695 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
*
1036746 GCTCCCTATTCTTTCAGAG
1 GCTCCCTATTCCTTCAGAG
1036765 GGACTCAATC
Statistics
Matches: 496, Mismatches: 38, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
51 288 0.58
54 3 0.01
55 151 0.30
56 54 0.11
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAACGTGTCC
Found at i:1036383 original size:51 final size:51
Alignment explanation
Indices: 1036271--1036764 Score: 711
Period size: 51 Copynumber: 9.5 Consensus size: 51
1036261 AATAAAACGG
* * * **
1036271 GTCCGCTCTCTCTTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTT
*
1036326 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
** **
1036377 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAGCAATCTT-AATAAAACGG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTT
* * * *
1036432 GTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTT
1036487 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
1036538 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1036589 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1036640 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
1036691 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
1036742 GTCCGCTCCCTATTCTTTCAGAG
1 GTCCGCTCCCTATTCCTTCAGAG
1036765 GGACTCAATC
Statistics
Matches: 407, Mismatches: 26, Indels: 16
0.91 0.06 0.04
Matches are distributed among these distances:
51 288 0.71
54 2 0.00
55 115 0.28
56 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (51 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:1036450 original size:161 final size:160
Alignment explanation
Indices: 1036214--1036725 Score: 779
Period size: 161 Copynumber: 3.2 Consensus size: 160
1036204 TCATAAAAAG
* * * *
1036214 TGTCTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGTCCGCTC
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCG-ACAATC-TTAATAAAACGGGTCCGCTC
* * *
1036279 TCTCTTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCGCTCCCTATTCATT
64 TCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATGAACTTGTCCGCTCCCTATTCCTT
1036344 CAGAGAGTATAGGACTCAATCTTCAACGAACT
129 CAGAGAGTATAGGACTCAATCTTCAACGAACT
* *
1036376 TGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAGCAATCTTAATAAAACGGGTTCGCTCT
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCGA-CAATCTTAATAAAACGGGTCCGCTCT
1036441 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATGAACTTGTCCGCTCCCTATTCCTTC
65 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATGAACTTGTCCGCTCCCTATTCCTTC
1036506 AGAGAGTATAGGACTCAATCTTCAACGAACT
130 AGAGAGTATAGGACTCAATCTTCAACGAACT
** ** *
1036537 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT---CAATCTTCAA-CGAACTTGTCCGCTCC
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCGACAATCTT-AATAAAACGGGTCCGCTCT
* *
1036598 CTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTC
65 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATGAACTTGTCCGCTCCCTATTCCTTC
1036659 AGAGAGTATAGGACTCAATCTTCAACGAACT
130 AGAGAGTATAGGACTCAATCTTCAACGAACT
*
1036690 TGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTC
1 TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC
1036726 AATCTTCAAC
Statistics
Matches: 328, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
153 100 0.30
157 41 0.12
158 2 0.01
161 148 0.45
162 37 0.11
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (160 bp):
TGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCGACAATCTTAATAAAACGGGTCCGCTCTC
TATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATGAACTTGTCCGCTCCCTATTCCTTCA
GAGAGTATAGGACTCAATCTTCAACGAACT
Found at i:1038129 original size:16 final size:15
Alignment explanation
Indices: 1038109--1038215 Score: 65
Period size: 16 Copynumber: 6.5 Consensus size: 15
1038099 TTATTTCTCT
1038109 TTTTTTTCATTTTTC
1 TTTTTTTCATTTTTC
1038124 TCTTTTTTCATTTTTC
1 T-TTTTTTCATTTTTC
*
1038140 ATTTTTTTCTTCCATTTTC
1 -TTTTTTTCAT---TTTTC
**
1038159 CATTTTT--TTTTTC
1 TTTTTTTCATTTTTC
1038172 GTTTTTTCCATCATTTTTC
1 -TTTTTT---TCATTTTTC
1038191 TTTTTTCTCATTTTTTC
1 TTTTTT-TCA-TTTTTC
*
1038208 TTCTTTTC
1 TTTTTTTC
1038216 TCTTTTATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
13 5 0.07
14 4 0.05
15 1 0.01
16 28 0.38
17 13 0.18
18 11 0.15
19 11 0.15
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTTTTCATTTTTC
Found at i:1038177 original size:20 final size:20
Alignment explanation
Indices: 1038126--1038182 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1038116 CATTTTTCTC
1038126 TTTTTTCATTTTT-CATTTT
1 TTTTTTCATTTTTCCATTTT
*
1038145 TTTCTTCCA-TTTTCCATTTT
1 TTT-TTTCATTTTTCCATTTT
*
1038165 TTTTTTCGTTTTTTCCAT
1 TTTTTTC-ATTTTTCCAT
1038183 CATTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.32
20 13 0.42
21 8 0.26
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTTCATTTTTCCATTTT
Found at i:1038188 original size:19 final size:16
Alignment explanation
Indices: 1038166--1038221 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 16
1038156 TTCCATTTTT
1038166 TTTTTCGTTTTTTCCATCA
1 TTTTTC-TTTTTT-C-TCA
1038185 TTTTTCTTTTTTCTCA
1 TTTTTCTTTTTTCTCA
1038201 TTTTTTCTTCTTTTCTC-
1 -TTTTTCTT-TTTTCTCA
1038218 TTTT
1 TTTT
1038222 ATTTCTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.20
17 9 0.26
18 13 0.37
19 6 0.17
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTTCTTTTTTCTCA
Found at i:1038226 original size:19 final size:18
Alignment explanation
Indices: 1038185--1038231 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
1038175 TTTTCCATCA
1038185 TTTTTCTT-TTTTCTCAT
1 TTTTTCTTCTTTTCTCAT
*
1038202 TTTTTCTTCTTTTCTCTT
1 TTTTTCTTCTTTTCTCAT
1038220 TTATTTCTTCTT
1 TT-TTTCTTCTT
1038232 CAAGCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 8 0.30
18 10 0.37
19 9 0.33
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTCTTCTTTTCTCAT
Found at i:1050383 original size:23 final size:24
Alignment explanation
Indices: 1050357--1050449 Score: 77
Period size: 23 Copynumber: 4.0 Consensus size: 24
1050347 GGTTCTATGT
1050357 GGTCCTTCGGTACAT-TTCTACGC
1 GGTCCTTCGGTACATATTCTACGC
* * *
1050380 GGTCCTTCGGGACATATT-TATGT
1 GGTCCTTCGGTACATATTCTACGC
* *
1050403 GGTCCTTCAGG-ACAT-TTATACGT
1 GGTCCTTC-GGTACATATTCTACGC
* * *
1050426 GGTACTTCAGTGCATATTCTACGC
1 GGTCCTTCGGTACATATTCTACGC
1050450 AACACTTCGG
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.05
23 43 0.77
24 10 0.18
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (24 bp):
GGTCCTTCGGTACATATTCTACGC
Found at i:1069092 original size:9 final size:9
Alignment explanation
Indices: 1069078--1069125 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
1069068 CTCACTCTCA
1069078 TCATCATCG
1 TCATCATCG
1069087 TCATCATCG
1 TCATCATCG
*
1069096 CCATCAT--
1 TCATCATCG
1069103 T-ATCATCG
1 TCATCATCG
1069111 TCATCATCG
1 TCATCATCG
1069120 TCATCA
1 TCATCA
1069126 GGAGCAGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.15
8 1 0.03
9 28 0.82
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.33
Consensus pattern (9 bp):
TCATCATCG
Found at i:1069107 original size:24 final size:24
Alignment explanation
Indices: 1069075--1069125 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
1069065 CTCCTCACTC
1069075 TCATCATCATCGTCATCATCGCCA
1 TCATCATCATCGTCATCATCGCCA
* *
1069099 TCATTATCATCGTCATCATCGTCA
1 TCATCATCATCGTCATCATCGCCA
1069123 TCA
1 TCA
1069126 GGAGCAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.33
Consensus pattern (24 bp):
TCATCATCATCGTCATCATCGCCA
Found at i:1071181 original size:19 final size:19
Alignment explanation
Indices: 1071141--1071182 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1071131 AAATAATAAA
*
1071141 TAATAAATATAATATAATT
1 TAATAAATATAATAAAATT
*
1071160 TAATAAA-ATACTAAAATAT
1 TAATAAATATAATAAAAT-T
1071179 TAAT
1 TAAT
1071183 TTATTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAATATAATAAAATT
Found at i:1073082 original size:18 final size:16
Alignment explanation
Indices: 1073047--1073077 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1073037 ACTTTTAATT
1073047 TTACTTTTAAAATTTG
1 TTACTTTTAAAATTTG
*
1073063 TTACTTTTTAAATTT
1 TTACTTTTAAAATTT
1073078 TTGTTGGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (16 bp):
TTACTTTTAAAATTTG
Found at i:1077810 original size:40 final size:42
Alignment explanation
Indices: 1077765--1077845 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
1077755 CTATTCATAA
*
1077765 TTGTGATG-AAAAT-ATTTTGTCACTAGTCTTAGTTGGTGAC
1 TTGTGACGTAAAATGATTTTGTCACTAGTCTTAGTTGGTGAC
* * *
1077805 TTGTGACGTTAATTGTTTTTGTCACTAGTCTTAGTTGGTGA
1 TTGTGACGTAAAATGATTTTGTCACTAGTCTTAGTTGGTGA
1077846 TTTATAACGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 7 0.20
41 3 0.09
42 25 0.71
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (42 bp):
TTGTGACGTAAAATGATTTTGTCACTAGTCTTAGTTGGTGAC
Found at i:1077866 original size:42 final size:42
Alignment explanation
Indices: 1077779--1077873 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
1077769 GATGAAAATA
* * ** **
1077779 TTTTGTCACTAGTCTTAGTTGGTGACTTGTGACGTTAATTGT
1 TTTTGTCACTAGTCTTAGTTGGTGACTTATAACGACAATAAT
*
1077821 TTTTGTCACTAGTCTTAGTTGGTGATTTATAACGACAATAAT
1 TTTTGTCACTAGTCTTAGTTGGTGACTTATAACGACAATAAT
*
1077863 TTTTATCACTA
1 TTTTGTCACTA
1077874 TTTGTAACAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTGGTGACTTATAACGACAATAAT
Found at i:1079530 original size:19 final size:19
Alignment explanation
Indices: 1079506--1079555 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1079496 GAAACGTTTT
*
1079506 TATGAATAGTACTATATGG
1 TATGAATAGTACTATACGG
*
1079525 TATGAATAGTAGTATACGG
1 TATGAATAGTACTATACGG
*
1079544 TATGAACAGTAC
1 TATGAATAGTAC
1079556 CCTGAACAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (19 bp):
TATGAATAGTACTATACGG
Done.