Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005397.1 Hibiscus syriacus cultivar Beakdansim tig00012370_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: 1218879
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:834369 original size:40 final size:39
Alignment explanation
Indices: 834324--834517 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
834314 GATTTTCAAT
* ** *
834324 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
834364 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
834404 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
834444 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
834485 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
834518 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:834407 original size:60 final size:60
Alignment explanation
Indices: 834324--834516 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
834314 GATTTTCAAT
* ** * *
834324 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
834384 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
834444 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
834505 AATCGCAACGCG
1 AATCGCAACGCG
834517 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:834936 original size:33 final size:33
Alignment explanation
Indices: 834897--834967 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
834887 TTCACTTAGA
*
834897 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
834930 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
834963 TTTCA
1 TTTCA
834968 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:835107 original size:14 final size:14
Alignment explanation
Indices: 835088--835142 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
835078 AGAATGACTG
835088 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
835102 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
835121 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
835135 TCGCAACG
1 TCGCAACG
835143 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:835125 original size:33 final size:33
Alignment explanation
Indices: 835088--835158 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
835078 AGAATGACTG
**
835088 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
835121 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
835154 TCGCA
1 TCGCA
835159 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:835176 original size:19 final size:19
Alignment explanation
Indices: 835154--835218 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
835144 GAAACCAAAA
*
835154 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
835173 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
835187 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
835206 TCGCGTTGCGATT
1 TCGCGTTGCGATT
835219 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:835195 original size:14 final size:14
Alignment explanation
Indices: 835176--835265 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
835166 TTTCATTTCG
835176 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
835190 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
835209 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
835223 CGTTGCGGTTGTCATCT
1 CGTTGC-GAT-TC-TCT
835240 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
835256 CGTTGCGATT
1 CGTTGCGATT
835266 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 26 0.42
15 2 0.03
16 8 0.13
17 8 0.13
18 2 0.03
19 16 0.26
ACGTcount: A:0.08, C:0.26, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:835201 original size:33 final size:33
Alignment explanation
Indices: 835159--835273 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
835149 CAAAATCGCA
835159 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
835192 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* * *
835225 TTGCGGTTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
835258 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
835274 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:837178 original size:92 final size:93
Alignment explanation
Indices: 836972--837350 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
836962 TAGATTGCTT
*
836972 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
837037 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
837065 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
837129 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
837157 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
837221 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
837249 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
837314 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
837342 AGTAAATTT
1 AGTAAATTT
837351 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:837202 original size:185 final size:185
Alignment explanation
Indices: 836972--837352 Score: 737
Period size: 185 Copynumber: 2.1 Consensus size: 185
836962 TAGATTGCTT
836972 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
837037 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
837102 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
837157 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
837222 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
837287 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
837342 AGTAAATTTAT
1 AGTAAATTTAT
837353 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 101 0.52
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:837434 original size:19 final size:19
Alignment explanation
Indices: 837394--837522 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
837384 TAGTTTACTT
* *
837394 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
837414 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
837433 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
837452 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
837466 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
837485 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
837499 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
837518 TCGCA
1 TCGCA
837523 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:837473 original size:33 final size:32
Alignment explanation
Indices: 837430--837522 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
837420 CGCGAAACCA
**
837430 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
837462 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
837495 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
837523 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:837520 original size:52 final size:52
Alignment explanation
Indices: 837394--837522 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
837384 TAGTTTACTT
**
837394 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
837446 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
837499 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
837523 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:837540 original size:19 final size:19
Alignment explanation
Indices: 837518--837652 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
837508 GAAACCAAAA
*
837518 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
837537 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
837553 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
837570 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
837586 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
837603 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
837622 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
837642 TCGTGTTGCGA
1 TCGCGTTGCGA
837653 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:837559 original size:14 final size:14
Alignment explanation
Indices: 837540--837596 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
837530 TTTCATTTCG
837540 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
837554 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
837571 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
837587 CGTTGCGATT
1 CGTTGCGATT
837597 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:837565 original size:33 final size:33
Alignment explanation
Indices: 837523--837615 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
837513 CAAAATCGCA
*
837523 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
837556 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
837589 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
837616 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:839569 original size:14 final size:14
Alignment explanation
Indices: 839550--839585 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
839540 ATTGTTTAAT
839550 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
839564 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
839578 TGATTTGT
1 TGATTTGT
839586 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:839760 original size:20 final size:19
Alignment explanation
Indices: 839692--839774 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
839682 AAAAATGACT
839692 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
839711 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
839725 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
839744 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
839764 ATCGCAATGCG
1 ATCGCAATGCG
839775 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:839833 original size:19 final size:19
Alignment explanation
Indices: 839803--840056 Score: 307
Period size: 19 Copynumber: 14.4 Consensus size: 19
839793 GATTATCTCG
839803 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
839821 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
839840 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
839854 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
839873 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
839892 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
839911 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
839930 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
839949 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
839963 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
839982 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
839996 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
840016 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
840030 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
840049 TTGCGATT
1 TTGCGATT
840057 GTATTTTCCG
Statistics
Matches: 206, Mismatches: 8, Indels: 43
0.80 0.03 0.17
Matches are distributed among these distances:
14 29 0.14
16 24 0.12
17 21 0.10
18 9 0.04
19 111 0.54
20 12 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:839861 original size:33 final size:33
Alignment explanation
Indices: 839803--840056 Score: 296
Period size: 33 Copynumber: 7.2 Consensus size: 33
839793 GATTATCTCG
839803 TTGCGATTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGA-TTC-TTTCG--TTGCGATTTTCATTTCGCA
839840 TTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
*
839873 TTGCGATTTTCATTTCGCATTGCGATTTCCATTTCGCA
1 TTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCA
839911 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCA
*
839949 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
*
839982 TTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTCTTTCGTTGCGATTTTCATTT-CGCA
* *
840016 TTGCGA-T-TTTCATGTTGGGATTTTCATTTCGCG
1 TTGCGATTCTTTC--GTTGCGATTTTCATTTCGCA
840049 TTGCGATT
1 TTGCGATT
840057 GTATTTTCCG
Statistics
Matches: 202, Mismatches: 6, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
32 3 0.01
33 83 0.41
34 26 0.13
35 12 0.06
36 11 0.05
37 6 0.03
38 61 0.30
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
Found at i:839887 original size:52 final size:52
Alignment explanation
Indices: 839781--839989 Score: 339
Period size: 52 Copynumber: 3.9 Consensus size: 52
839771 TGCGTTTATA
*
839781 ATTTCGCATTGCGATTATCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
839832 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
839884 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
839941 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
839990 CTCTCGTTGC
Statistics
Matches: 149, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
51 26 0.17
52 64 0.43
53 2 0.01
54 5 0.03
55 6 0.04
56 2 0.01
57 44 0.30
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:842355 original size:12 final size:12
Alignment explanation
Indices: 842338--842362 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
842328 TCTTCGGGGA
842338 CTTTTTCTTCTT
1 CTTTTTCTTCTT
842350 CTTTTTCTTCTT
1 CTTTTTCTTCTT
842362 C
1 C
842363 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:842571 original size:24 final size:24
Alignment explanation
Indices: 842537--842583 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
842527 CTGAAACATC
842537 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
842561 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
842584 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:843288 original size:20 final size:20
Alignment explanation
Indices: 843260--843649 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
843250 AAATTTCAGT
* * * *
843260 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
843280 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
843300 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
843320 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
843340 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
843360 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
843380 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
843400 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
843420 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
843440 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
843460 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
843480 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
843501 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
843521 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
843541 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
843561 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
843581 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
843601 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
843621 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
843641 GTTGCGATT
1 GTTGCGATT
843650 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:847313 original size:3 final size:3
Alignment explanation
Indices: 847300--847340 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
847290 AAATTATTTG
847300 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
847341 TTATTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:847345 original size:3 final size:3
Alignment explanation
Indices: 847339--847380 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
847329 ATAATAATAA
847339 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
847381 GGGAGCGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:848991 original size:12 final size:13
Alignment explanation
Indices: 848968--848996 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
848958 AGTTCGTGCG
848968 ATTTTCGTTATAA
1 ATTTTCGTTATAA
848981 ATTTT-GTTATAA
1 ATTTTCGTTATAA
848993 ATTT
1 ATTT
848997 GAGAGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (13 bp):
ATTTTCGTTATAA
Found at i:852895 original size:30 final size:30
Alignment explanation
Indices: 852861--852952 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 30
852851 CAGAGTTCTT
852861 GAAAGAAAATGAAAAGAAGGTTGAAAGGAA
1 GAAAGAAAATGAAAAGAAGGTTGAAAGGAA
*
852891 GAAAGAAAATG---ATAA---T-AAA-G--
1 GAAAGAAAATGAAAAGAAGGTTGAAAGGAA
852911 GAAAGAAAATGAAAAGAAGGTTGAAAGGAA
1 GAAAGAAAATGAAAAGAAGGTTGAAAGGAA
852941 GAAAGAAAATGA
1 GAAAGAAAATGA
852953 TAATATTTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
20 11 0.22
22 1 0.02
23 6 0.12
24 1 0.02
26 1 0.02
27 6 0.12
28 1 0.02
30 23 0.46
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.11
Consensus pattern (30 bp):
GAAAGAAAATGAAAAGAAGGTTGAAAGGAA
Found at i:852915 original size:50 final size:50
Alignment explanation
Indices: 852861--852957 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
852851 CAGAGTTCTT
852861 GAAAGAAAATGAAAAGAAGGTTGAAAGGAAGAAAGAAAATGATAATAAAG
1 GAAAGAAAATGAAAAGAAGGTTGAAAGGAAGAAAGAAAATGATAATAAAG
852911 GAAAGAAAATGAAAAGAAGGTTGAAAGGAAGAAAGAAAATGATAATA
1 GAAAGAAAATGAAAAGAAGGTTGAAAGGAAGAAAGAAAATGATAATA
852958 TTTTGCTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (50 bp):
GAAAGAAAATGAAAAGAAGGTTGAAAGGAAGAAAGAAAATGATAATAAAG
Found at i:853635 original size:21 final size:20
Alignment explanation
Indices: 853606--853644 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
853596 TTTTAAATGT
* *
853606 TTTTCAAACTTATTCAAACC
1 TTTTCAAACATAATCAAACC
853626 TTTTCAAAACATAATCAAA
1 TTTTC-AAACATAATCAAA
853645 TTTTTTGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTTCAAACATAATCAAACC
Found at i:853720 original size:20 final size:19
Alignment explanation
Indices: 853686--853743 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
853676 TTTTCTGGCT
853686 CAAAAGATCGATCCCTTAG
1 CAAAAGATCGATCCCTTAG
* *
853705 CAAAAGGATTGATCCCTTTGAC
1 CAAAA-GATCGATCCC-TT-AG
853727 CAAAAGATCGATCCCTT
1 CAAAAGATCGATCCCTT
853744 GGACAACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 11 0.33
22 6 0.18
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (19 bp):
CAAAAGATCGATCCCTTAG
Found at i:853741 original size:21 final size:20
Alignment explanation
Indices: 853686--853743 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
853676 TTTTCTGGCT
*
853686 CAAAAGATCGATCCC-TTAG
1 CAAAAGATCGATCCCTTTAC
*
853705 CAAAAGGATTGATCCCTTTGAC
1 CAAAA-GATCGATCCCTTT-AC
853727 CAAAAGATCGATCCCTT
1 CAAAAGATCGATCCCTT
853744 GGACAACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 5 0.15
20 9 0.27
21 13 0.39
22 6 0.18
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
CAAAAGATCGATCCCTTTAC
Found at i:867651 original size:51 final size:51
Alignment explanation
Indices: 867596--867717 Score: 190
Period size: 51 Copynumber: 2.4 Consensus size: 51
867586 AAGTTCCGAT
* * * * *
867596 CCATCACCCCGGTTCCATGAAGCAAATAACCTGCATTCTGGTGATATTCGA
1 CCATCACCTCAGTTCCATGAAGCAAATAACCAGCATTCTGGTAATATTCCA
*
867647 CCATCACCTCATTTCCATGAAGCAAATAACCAGCATTCTGGTAATATTCCA
1 CCATCACCTCAGTTCCATGAAGCAAATAACCAGCATTCTGGTAATATTCCA
867698 CCATCACCTCAGTTCCATGA
1 CCATCACCTCAGTTCCATGA
867718 TAAGATCGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (51 bp):
CCATCACCTCAGTTCCATGAAGCAAATAACCAGCATTCTGGTAATATTCCA
Found at i:868759 original size:44 final size:46
Alignment explanation
Indices: 868683--868773 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 46
868673 GTTATTGTTA
*
868683 ATTTTTTTAACGGTGGAGGATGATGAAAATG-AAATCAAAACGTAATT
1 ATTTTTTTAACGGT-G-GGATAATGAAAATGAAAATCAAAACGTAATT
*
868730 ATTTTTTTAACGGT-GGATAATCG-AAATGAAAATCAAAATGTAAT
1 ATTTTTTTAACGGTGGGATAAT-GAAAATGAAAATCAAAACGTAAT
868774 GTTAGATTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
44 11 0.28
45 15 0.38
47 14 0.35
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (46 bp):
ATTTTTTTAACGGTGGGATAATGAAAATGAAAATCAAAACGTAATT
Found at i:869587 original size:107 final size:107
Alignment explanation
Indices: 869377--869693 Score: 489
Period size: 106 Copynumber: 3.0 Consensus size: 107
869367 ACATCGTTTT
* * **
869377 GCTGAAAATTTTATTTTTCTAAAACGACGTCATTT--AACGAGTTAGATATTTAACGGCTAAGTG
1 GCTG-AAATTTTATTTTTCTAAAATGACGTCATTTAAAAC-CGTTAGATATTTAATAGCTAAGTG
* * * *
869440 AC-CAAAATATTAATTGTATTAAATTCAGTGATAAAATTGAATG
64 ACAAAAAATACTAATTGTATTAATTTCAGTGAGAAAATTGAATG
*
869483 GCTGAAATTTTATTTTTCTAAAATGACGTTATTTAAAACCGTTAGATATTTAATAGCTAAGTGAC
1 GCTGAAATTTTATTTTTCTAAAATGACGTCATTTAAAACCGTTAGATATTTAATAGCTAAGTGAC
869548 AAAAAATACTAATTGTATTAATTTCAGTGAGAAAATTGAATG
66 AAAAAATACTAATTGTATTAATTTCAGTGAGAAAATTGAATG
* *
869590 GCTGAAAATTTATTTTTCTAAAATGACGTCATTTAAAA-CGTTAGATATTTAATAGCTAAGTGAT
1 GCTGAAATTTTATTTTTCTAAAATGACGTCATTTAAAACCGTTAGATATTTAATAGCTAAGTGAC
869654 AAAAAATACTAATTGTATTAATTTCAGTGAGAAAATTGAA
66 AAAAAATACTAATTGTATTAATTTCAGTGAGAAAATTGAA
869694 CGGATTTAAA
Statistics
Matches: 196, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
105 28 0.14
106 92 0.47
107 76 0.39
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (107 bp):
GCTGAAATTTTATTTTTCTAAAATGACGTCATTTAAAACCGTTAGATATTTAATAGCTAAGTGAC
AAAAAATACTAATTGTATTAATTTCAGTGAGAAAATTGAATG
Found at i:871464 original size:60 final size:59
Alignment explanation
Indices: 871393--871547 Score: 161
Period size: 59 Copynumber: 2.6 Consensus size: 59
871383 TGAATTCGAT
* * *
871393 GTCCCTAAACTTTTGATTATTCTAATTTCATCCTCAAACTATAATACTCACTCTAAATTA
1 GTCCTTAAACTTTTGAATATTCTAATTTCATCCTCAAACTAT-AGACTCACTCTAAATTA
* * * * * *
871453 GTTCTTAAACTTTTGAATATT-TCAATTTTATCTTCAAACTATGGACTCATTCTAAATTG
1 GTCCTTAAACTTTTGAATATTCT-AATTTCATCCTCAAACTATAGACTCACTCTAAATTA
* * * *
871512 GTCCTCAAACTTTTAAATCTTCCAATTTCAT-CTCAA
1 GTCCTTAAACTTTTGAATATTCTAATTTCATCCTCAA
871548 GTTCATTCAA
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
58 4 0.05
59 38 0.49
60 35 0.45
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (59 bp):
GTCCTTAAACTTTTGAATATTCTAATTTCATCCTCAAACTATAGACTCACTCTAAATTA
Found at i:876500 original size:20 final size:20
Alignment explanation
Indices: 876418--876606 Score: 226
Period size: 20 Copynumber: 9.6 Consensus size: 20
876408 GATTTTCAAG
* ** *
876418 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
876438 AATCGCAACGCG-AACACAT-
1 AATCGCAACGCGTATC-CGTA
876457 AATCGCAACGC-TATCCGT-
1 AATCGCAACGCGTATCCGTA
*
876475 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
876495 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
876515 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
876535 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
876555 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
876575 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
876595 AATCGCAACGCG
1 AATCGCAACGCG
876607 ATTTTTAAAG
Statistics
Matches: 146, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.08
19 22 0.15
20 111 0.76
21 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:877025 original size:33 final size:33
Alignment explanation
Indices: 876986--877056 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
876976 TTCACTTAGA
*
876986 TTTCATTTCGCGTTACGATTCTCTCGTTGCGGT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
877019 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
877052 TTTCA
1 TTTCA
877057 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:877162 original size:21 final size:20
Alignment explanation
Indices: 877136--877209 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 20
877126 TGCAGAAGAG
877136 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
877157 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
*
877177 TCTGTAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
877199 TCGCAACGAGA
1 TCGCAACGAGA
877210 GAATCGCAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 10 0.23
21 23 0.53
22 10 0.23
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.16
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:877272 original size:14 final size:14
Alignment explanation
Indices: 877253--877309 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
877243 TTTCATTTCG
877253 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
877267 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
877286 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
877300 CGTTGCGATT
1 CGTTGCGATT
877310 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:877278 original size:33 final size:33
Alignment explanation
Indices: 877236--877358 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
877226 CCAAATCGCA
877236 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
877269 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
877302 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
877343 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
877359 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:877320 original size:21 final size:21
Alignment explanation
Indices: 877294--877358 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
877284 CGCGTTGCGA
877294 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
877315 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
877335 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
877356 TTC
1 TTC
877359 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:879383 original size:93 final size:92
Alignment explanation
Indices: 879034--879347 Score: 601
Period size: 92 Copynumber: 3.4 Consensus size: 92
879024 TAGATTGCTT
* *
879034 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTC
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
879099 TTTGTCTTTGTTTTGTCTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTGGTTGAA
879126 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
879191 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
879219 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
879284 TTTGTCTTTGTTTTGTCTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTGGTTGAA
879311 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
879348 AATACCCTGA
Statistics
Matches: 219, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 127 0.58
93 92 0.42
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (92 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTGGTTGAA
Found at i:879537 original size:19 final size:18
Alignment explanation
Indices: 879476--879566 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 18
879466 GCAACGAGAG
*
879476 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAA-CAA
*
879495 AATCGCAA--CG--ACAG
1 AATCGCAACGCGAAACAA
*
879509 AATCGTAACGCGAAACCAA
1 AATCGCAACGCGAAA-CAA
879528 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAACAA
*
879542 AATCGCAACGCGAAACCA
1 AATCGCAACGCGAAACAA
879560 AATCGCA
1 AATCGCA
879567 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
14 19 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 11 0.19
19 17 0.30
ACGTcount: A:0.47, C:0.27, G:0.16, T:0.09
Consensus pattern (18 bp):
AATCGCAACGCGAAACAA
Found at i:879557 original size:33 final size:33
Alignment explanation
Indices: 879444--879566 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
879434 TAGTTTACTT
* * *
879444 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
879478 TCGCAACGCGAAATAAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
* *
879511 TCGTAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
879544 TCGCAACGCGAAACC-AAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
879567 TTGCGATTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 8 0.10
33 60 0.75
34 12 0.15
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:879602 original size:14 final size:14
Alignment explanation
Indices: 879583--879639 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
879573 TTTCATTTCG
879583 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
879597 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
879614 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
879630 CGTTGCGATT
1 CGTTGCGATT
879640 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:879614 original size:33 final size:33
Alignment explanation
Indices: 879567--879696 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 33
879557 CCAAATCGCA
879567 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
879599 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
879632 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGA---T--TCTCTCG
*
879670 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
879697 TTAAGTTTCG
Statistics
Matches: 86, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
32 6 0.07
33 49 0.57
35 1 0.01
36 1 0.01
38 29 0.34
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:879623 original size:19 final size:19
Alignment explanation
Indices: 879562--879714 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
879552 CGAAACCAAA
*
879562 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
879580 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
879594 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
879613 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
879629 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
879646 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
879665 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
879684 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
879704 TCGTGTTGCGA
1 TCGCGTTGCGA
879715 AAGTAAACTA
Statistics
Matches: 107, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
14 17 0.16
16 8 0.07
17 8 0.07
18 10 0.09
19 52 0.49
20 12 0.11
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:881222 original size:12 final size:12
Alignment explanation
Indices: 881205--881229 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
881195 TTCTTCGGGA
881205 CTTTTTCTTCTT
1 CTTTTTCTTCTT
881217 CTTTTTCTTCTT
1 CTTTTTCTTCTT
881229 C
1 C
881230 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:881437 original size:24 final size:24
Alignment explanation
Indices: 881403--881449 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
881393 CTGAAACATC
881403 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
881427 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
881450 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:882164 original size:20 final size:20
Alignment explanation
Indices: 882136--882384 Score: 259
Period size: 20 Copynumber: 12.4 Consensus size: 20
882126 AAATTTCAGT
* * *
882136 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
882156 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
882176 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
882196 GTTGCGATTTACTGATTATC
1 GTTGCGATTTACGGATTCGC
*
882216 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
882236 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
882256 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
882276 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
882296 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
882316 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
*
882336 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
882356 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
882376 GTTGCGATT
1 GTTGCGATT
882385 CTGTAAAATC
Statistics
Matches: 204, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 203 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:882402 original size:21 final size:20
Alignment explanation
Indices: 882378--882448 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
882368 ATATTCGCGT
882378 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
882399 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
**
882420 TGCGA-TTGTCAAGAATCGCGT
1 TGCGATTTGT-AA-AATCGCAA
882441 TGCGATTT
1 TGCGATTT
882449 TGGAAACTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 29 0.73
22 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:882858 original size:43 final size:43
Alignment explanation
Indices: 882810--882898 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
882800 CACTCTCTGT
882810 TACAACAATAAAACGGAACACAATTTTCTTCATAGATGAACCC
1 TACAACAATAAAACGGAACACAATTTTCTTCATAGATGAACCC
882853 TACAACAATAAAACGGAACACAATTTTCTTCATAGATGAACCC
1 TACAACAATAAAACGGAACACAATTTTCTTCATAGATGAACCC
882896 TAC
1 TAC
882899 CTAGAATGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.24
Consensus pattern (43 bp):
TACAACAATAAAACGGAACACAATTTTCTTCATAGATGAACCC
Found at i:884626 original size:2 final size:2
Alignment explanation
Indices: 884619--884645 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
884609 AAATCAAACC
884619 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
884646 ATCAGTCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:888885 original size:2 final size:2
Alignment explanation
Indices: 888878--888933 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
888868 AGACAGAAAG
888878 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
888920 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
888934 GCATATAGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:893305 original size:23 final size:24
Alignment explanation
Indices: 893260--893307 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
893250 GAATTTAGAG
*
893260 AATTTGAGTTTTTAAAAAATATAAT
1 AATTTAAGTTTTT-AAAAATATAAT
893285 AATTTAAGTTTTT-AAAATATAAT
1 AATTTAAGTTTTTAAAAATATAAT
893308 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
25 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
AATTTAAGTTTTTAAAAATATAAT
Found at i:911854 original size:24 final size:24
Alignment explanation
Indices: 911824--911887 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
911814 ATAGTTGAAA
*
911824 TAATATATTTTATAATAATATA-TT
1 TAATATATTTTATAATAAT-TACAT
* *
911848 TATTATATTTTA-AACAATTACAT
1 TAATATATTTTATAATAATTACAT
911871 TAATATATTTTATAATA
1 TAATATATTTTATAATA
911888 TTTTTAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 2 0.06
23 17 0.52
24 14 0.42
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (24 bp):
TAATATATTTTATAATAATTACAT
Found at i:911880 original size:32 final size:32
Alignment explanation
Indices: 911837--911908 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 32
911827 TATATTTTAT
*
911837 AATAATATA-TTTATTATATTTTAAACAATTA
1 AATAATATATTTTATAATATTTTAAACAATTA
* * *
911868 CATTAATATATTTTATAATATTTTTAATAATTA
1 -AATAATATATTTTATAATATTTTAAACAATTA
911901 AATAATAT
1 AATAATAT
911909 TATTAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 15 0.44
33 19 0.56
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
AATAATATATTTTATAATATTTTAAACAATTA
Found at i:911889 original size:33 final size:31
Alignment explanation
Indices: 911837--911917 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 31
911827 TATATTTTAT
*
911837 AATAATATATTTATTATATTTTAAACAATTA
1 AATAATATATTTATAATATTTTAAACAATTA
* * *
911868 CATTAATATATTTTATAATATTTTTAATAATTA
1 -AATAATATA-TTTATAATATTTTAAACAATTA
*
911901 AATAATATTATTAATAA
1 AATAATA-TATTTATAA
911918 AATAAAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 20 0.49
33 21 0.51
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
AATAATATATTTATAATATTTTAAACAATTA
Found at i:911964 original size:67 final size:67
Alignment explanation
Indices: 911893--912023 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
911883 TAATATTTTT
*
911893 AATAATTAAATAATATTATTAATAAAATAAAAACAAAAATTCTTAAAATATTAAATATAGTAAAA
1 AATAATTAAATAATATTATTAATAAAATAAAAACAAAAATTCTTAAAATATTAAATATAATAAAA
911958 AA
66 AA
* *
911960 AATAATTAAATAATATTATTAATAAAATAAAAATAAATATTCTTAAAATATTAAATATAATAAA
1 AATAATTAAATAATATTATTAATAAAATAAAAACAAAAATTCTTAAAATATTAAATATAATAAA
912024 TATAAGTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (67 bp):
AATAATTAAATAATATTATTAATAAAATAAAAACAAAAATTCTTAAAATATTAAATATAATAAAA
AA
Found at i:912005 original size:24 final size:24
Alignment explanation
Indices: 911893--912005 Score: 78
Period size: 21 Copynumber: 4.9 Consensus size: 24
911883 TAATATTTTT
911893 AATAATTAAATAATATTATTAATAA
1 AATAA-TAAATAATATTATTAATAA
* * **
911918 AATAA-AAACAA-A-AATTCTTAA
1 AATAATAAATAATATTATTAATAA
* * *
911939 AATATTAAAT-ATAGTA--AAAAA
1 AATAATAAATAATATTATTAATAA
911960 AATAATTAAATAATATTATTAATAA
1 AATAA-TAAATAATATTATTAATAA
*
911985 AATAA-AAATAAATATTCTTAA
1 AATAATAAAT-AATATTATTAA
912006 AATATTAAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
21 17 0.26
22 10 0.15
23 15 0.23
24 10 0.15
25 14 0.21
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.34
Consensus pattern (24 bp):
AATAATAAATAATATTATTAATAA
Found at i:912010 original size:35 final size:33
Alignment explanation
Indices: 911909--912028 Score: 120
Period size: 33 Copynumber: 3.6 Consensus size: 33
911899 TAAATAATAT
* *
911909 TATT-AATAAAATAAAAACAAAAATTCTTAAAA
1 TATTAAATAAAATAAAAATAAATATTCTTAAAA
* * * *
911941 TATTAAATATAGTAAAAA-AAATAAT-TAAATAA
1 TATTAAATAAAATAAAAATAAATATTCTTAA-AA
911973 TATTATTAATAAAATAAAAATAAATATTCTTAAAA
1 TATTA--AATAAAATAAAAATAAATATTCTTAAAA
* *
912008 TATTAAATATAATAAATATAA
1 TATTAAATAAAATAAAAATAA
912029 GTAAAAATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
31 3 0.04
32 16 0.23
33 25 0.35
34 11 0.15
35 13 0.18
36 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (33 bp):
TATTAAATAAAATAAAAATAAATATTCTTAAAA
Found at i:922208 original size:37 final size:37
Alignment explanation
Indices: 922167--922244 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
922157 TACAAAAAAT
922167 ATATATAATCACTGATATTCAATCTATTGACCAACTA
1 ATATATAATCACTGATATTCAATCTATTGACCAACTA
* *
922204 ATATATAATCACTGATATTCAATGTATTGATCAACTA
1 ATATATAATCACTGATATTCAATCTATTGACCAACTA
922241 ATAT
1 ATAT
922245 TATTAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.37
Consensus pattern (37 bp):
ATATATAATCACTGATATTCAATCTATTGACCAACTA
Found at i:923865 original size:31 final size:31
Alignment explanation
Indices: 923797--923868 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
923787 AAAAATCTTA
923797 TAATATATT-TTAAAACTAACATATAAATAT
1 TAATATATTATTAAAACTAACATATAAATAT
* *
923827 TAA-ATATTATTAATAATTTAACTTA-AAAT-T
1 TAATATATTATTAA-AA-CTAACATATAAATAT
923857 TAATATATTATT
1 TAATATATTATT
923869 TTTTTAGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
29 5 0.14
30 11 0.31
31 14 0.39
32 6 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATATATTATTAAAACTAACATATAAATAT
Found at i:924927 original size:21 final size:21
Alignment explanation
Indices: 924901--924945 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
924891 TATCATCCAT
*
924901 CGTGGACCATCATATTGACAC
1 CGTGGACCATCATATCGACAC
*
924922 CGTGGACTATCATATCGACAC
1 CGTGGACCATCATATCGACAC
924943 CGT
1 CGT
924946 AACAGTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
CGTGGACCATCATATCGACAC
Found at i:925642 original size:29 final size:30
Alignment explanation
Indices: 925604--925670 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
925594 CAAATTGAAA
* *
925604 ATTTTGGGTATCTAGTTTGACCAAAAA-AT
1 ATTTTAGGTACCTAGTTTGACCAAAAAGAT
* *
925633 ATTTTAGGTACCTATTTTGATCAAAAAGAT
1 ATTTTAGGTACCTAGTTTGACCAAAAAGAT
925663 ATGTTTAG
1 AT-TTTAG
925671 ACGCTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 23 0.72
30 4 0.12
31 5 0.16
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (30 bp):
ATTTTAGGTACCTAGTTTGACCAAAAAGAT
Found at i:933352 original size:10 final size:10
Alignment explanation
Indices: 933337--933365 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
933327 AAAGATCAGG
933337 AAACAGAGAC
1 AAACAGAGAC
933347 AAACAGAGAC
1 AAACAGAGAC
933357 AAACAGAGA
1 AAACAGAGA
933366 TGAAGCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.17, G:0.21, T:0.00
Consensus pattern (10 bp):
AAACAGAGAC
Found at i:934477 original size:19 final size:20
Alignment explanation
Indices: 934453--934499 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
934443 CTATCTCAAT
*
934453 TTGATATAATTTATT-TTAC
1 TTGATATAATTTATTATTAA
934472 TTG--ATAA-TTATTATTAA
1 TTGATATAATTTATTATTAA
934489 TTGATATAATT
1 TTGATATAATT
934500 AAAGTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
19 7 0.30
20 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
TTGATATAATTTATTATTAA
Found at i:938492 original size:43 final size:43
Alignment explanation
Indices: 938423--938522 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
938413 TTTTGTTCGG
* * * *
938423 GTCGAGTCGGG-TTTTTTAAGTATGATATTCGTGTCGGGTCGA
1 GTCGGGTCGGGTTTTTTTAAGTATGATATTCGGGTCAGATCGA
* *
938465 GTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGATCGG
1 GTCGGGTCGGGTTTTTTTAAGTATGATATTCGGGTCAGATCGA
938508 GTCGGGTTCGGGTTT
1 GTCGGG-TCGGGTTT
938523 AGGGTGAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 10 0.20
43 32 0.64
44 8 0.16
ACGTcount: A:0.13, C:0.12, G:0.37, T:0.38
Consensus pattern (43 bp):
GTCGGGTCGGGTTTTTTTAAGTATGATATTCGGGTCAGATCGA
Found at i:939376 original size:27 final size:27
Alignment explanation
Indices: 939338--939390 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
939328 TTCTCAGCTC
939338 ACTGGTAAAGTGCAAAATGCATTTTGT
1 ACTGGTAAAGTGCAAAATGCATTTTGT
939365 ACTGGTAAAGTGCAAAATGCATTTTG
1 ACTGGTAAAGTGCAAAATGCATTTTG
939391 CACTTTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (27 bp):
ACTGGTAAAGTGCAAAATGCATTTTGT
Found at i:941622 original size:5 final size:5
Alignment explanation
Indices: 941612--941637 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
941602 ATGCTTAACG
941612 AGTCC AGTCC AGTCC AGTCC AGTCC A
1 AGTCC AGTCC AGTCC AGTCC AGTCC A
941638 TTTCCTCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.19
Consensus pattern (5 bp):
AGTCC
Found at i:944849 original size:18 final size:19
Alignment explanation
Indices: 944819--944861 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
944809 TAAGGAATCC
944819 AAAA-TAAAAATATA-ATT
1 AAAACTAAAAATATATATT
* *
944836 TAAACTAAATATATATATT
1 AAAACTAAAAATATATATT
944855 AAAACTA
1 AAAACTA
944862 CCGAGTCGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 9 0.43
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAACTAAAAATATATATT
Found at i:945996 original size:30 final size:30
Alignment explanation
Indices: 945962--946023 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
945952 ATATTAGAGA
945962 TTCTATGTAGTTGTAATAAATATACATTAG
1 TTCTATGTAGTTGTAATAAATATACATTAG
*
945992 TTCTATGTAGTTGTAATAAATATATATTAG
1 TTCTATGTAGTTGTAATAAATATACATTAG
946022 TT
1 TT
946024 GTAGGTAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (30 bp):
TTCTATGTAGTTGTAATAAATATACATTAG
Found at i:954731 original size:22 final size:24
Alignment explanation
Indices: 954683--954737 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
954673 TTGTGTTTTC
* **
954683 TTTTTTAAAAAATATATAATTTTA
1 TTTTTTAAAAAATATATAAATAAA
954707 TTTTTTAAAAAAT-T-TAAATAAA
1 TTTTTTAAAAAATATATAAATAAA
954729 -TTTTTAAAA
1 TTTTTTAAAA
954738 TTACCAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.32
22 5 0.18
23 1 0.04
24 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTTTAAAAAATATATAAATAAA
Found at i:958811 original size:18 final size:17
Alignment explanation
Indices: 958785--958829 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
958775 ATAATTTTAA
958785 AATTATAAATGAAAAAATT
1 AATT-TAAAT-AAAAAATT
958804 AATTTAAAATAAAAAATT
1 AATTT-AAATAAAAAATT
958822 AATTTAAA
1 AATTTAAA
958830 AGGCTCTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 14 0.56
19 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATTTAAATAAAAAATT
Found at i:958830 original size:18 final size:19
Alignment explanation
Indices: 958791--958830 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
958781 TTAAAATTAT
958791 AAATGAAAAAATTAATTTA
1 AAATGAAAAAATTAATTTA
958810 AAAT-AAAAAATTAATTTA
1 AAATGAAAAAATTAATTTA
958828 AAA
1 AAA
958831 GGCTCTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATGAAAAAATTAATTTA
Found at i:962793 original size:20 final size:20
Alignment explanation
Indices: 962770--962819 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
962760 AATATTAGTA
962770 AAATATTAAAAATACCATTT
1 AAATATTAAAAATACCATTT
* *
962790 AAATATGT-ATAATATCATTT
1 AAATAT-TAAAAATACCATTT
962810 AAATATTAAA
1 AAATATTAAA
962820 CTAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATATTAAAAATACCATTT
Found at i:965630 original size:48 final size:48
Alignment explanation
Indices: 965578--965740 Score: 272
Period size: 48 Copynumber: 3.4 Consensus size: 48
965568 AATGAAGATG
* *
965578 AAGAAGAGAAGGCTGAAAATGAATTGAAAGGAGAAGATGAGGAGGAAC
1 AAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGATGAAGAGGAAC
*
965626 AAGAAGAGAAGGCTGAAGATAAATTGAAAGGAGAAGATGAAGAGGAAC
1 AAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGATGAAGAGGAAC
*
965674 AAGAAGAGAATGCTGAAGATGAATTGAAAGGAGAAGATGAAGAGGAAC
1 AAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGATGAAGAGGAAC
**
965722 AAGAAGAGAACTCTGAAGA
1 AAGAAGAGAAGGCTGAAGA
965741 AAGTGAAGAG
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.51, C:0.05, G:0.33, T:0.11
Consensus pattern (48 bp):
AAGAAGAGAAGGCTGAAGATGAATTGAAAGGAGAAGATGAAGAGGAAC
Found at i:965668 original size:24 final size:24
Alignment explanation
Indices: 965639--965716 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
965629 AAGAGAAGGC
965639 TGAAGATAAATTGAAAGGAGAAGA
1 TGAAGATAAATTGAAAGGAGAAGA
* * *
965663 TGAAGAGGAACA-AG-AA-GAGAATGC
1 TGAAGA-TAA-ATTGAAAGGAGAA-GA
*
965687 TGAAGATGAATTGAAAGGAGAAGA
1 TGAAGATAAATTGAAAGGAGAAGA
965711 TGAAGA
1 TGAAGA
965717 GGAACAAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
22 1 0.02
23 7 0.17
24 24 0.59
25 8 0.20
26 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.32, T:0.14
Consensus pattern (24 bp):
TGAAGATAAATTGAAAGGAGAAGA
Found at i:965738 original size:24 final size:23
Alignment explanation
Indices: 965663--965740 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
965653 AAGGAGAAGA
965663 TGAAGAGGAACAAGAAGAGAATGC
1 TGAAGAGGAACAAGAAGAGAAT-C
* * * **
965687 TGAAGATGAATTGAA-AGGAGAAGA
1 TGAAGAGGAA--CAAGAAGAGAATC
965711 TGAAGAGGAACAAGAAGAGAACTC
1 TGAAGAGGAACAAGAAGAGAA-TC
965735 TGAAGA
1 TGAAGA
965741 AAGTGAAGAG
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
22 2 0.05
23 6 0.15
24 24 0.60
25 6 0.15
26 2 0.05
ACGTcount: A:0.50, C:0.06, G:0.32, T:0.12
Consensus pattern (23 bp):
TGAAGAGGAACAAGAAGAGAATC
Found at i:968691 original size:21 final size:21
Alignment explanation
Indices: 968665--968709 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
968655 GATTTCTGGG
*
968665 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
968686 CAAGGGGAATCGATACCCCTT
1 CAAGGGGAATCGATACCCATT
968707 CAA
1 CAA
968710 ACGAACAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:969319 original size:18 final size:18
Alignment explanation
Indices: 969296--969330 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
969286 CTAGGAGATT
969296 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
969314 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
969331 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:970401 original size:149 final size:149
Alignment explanation
Indices: 970222--970536 Score: 519
Period size: 149 Copynumber: 2.1 Consensus size: 149
970212 GAGTCGAGGG
* *
970222 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGCCT-GATGAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGCCTGGA-AAGACACA
970286 TA-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCAT
65 TACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCAT
*
970350 TATATGACACTACGGTGTAAT
129 TATATGACACTACGGTGCAAT
* *
970371 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGCCTGGAAAGACACAT
*
970436 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
*
970501 TATGGCACTACGGTGCAAT
131 TATGACACTACGGTGCAAT
970520 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
970537 TGCAATTATA
Statistics
Matches: 156, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
148 1 0.01
149 152 0.97
150 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGCCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGACACTACGGTGCAAT
Found at i:970537 original size:23 final size:23
Alignment explanation
Indices: 970504--970548 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
970494 ATCATTATAT
*
970504 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
970527 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
970549 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:980287 original size:25 final size:24
Alignment explanation
Indices: 980252--980303 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
980242 TGATTAATTC
*
980252 AAAAAATATATATATAAAAATATT
1 AAAAAATATATACATAAAAATATT
* *
980276 AAAAAATAATATACATTATAATATT
1 AAAAAAT-ATATACATAAAAATATT
980301 AAA
1 AAA
980304 TTATTCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAATATATACATAAAAATATT
Found at i:980454 original size:2 final size:2
Alignment explanation
Indices: 980447--980476 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
980437 ACATATTTTG
980447 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
980477 TTAATTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:980586 original size:20 final size:21
Alignment explanation
Indices: 980548--980586 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
980538 CAATTATATA
* *
980548 TTTTGATATATATTTTAATTT
1 TTTTAATATATATTGTAATTT
980569 TTTTAATATA-ATTGTAAT
1 TTTTAATATATATTGTAAT
980587 GTAGTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTAATATATATTGTAATTT
Found at i:980766 original size:21 final size:21
Alignment explanation
Indices: 980741--980788 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
980731 CATTTAGACT
980741 TATATTAAGAAAATACGATCA
1 TATATTAAGAAAATACGATCA
*
980762 TATATTAAGATAATACGATCA
1 TATATTAAGAAAATACGATCA
980783 TATATT
1 TATATT
980789 GTTGAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (21 bp):
TATATTAAGAAAATACGATCA
Found at i:980954 original size:21 final size:22
Alignment explanation
Indices: 980930--980972 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
980920 TGCTGCAGGG
*
980930 GTATCGATATCC-TGCTACAGT
1 GTATCGATACCCTTGCTACAGT
980951 GTATCGATACCCTTGCTACAGT
1 GTATCGATACCCTTGCTACAGT
980973 AATTTCGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (22 bp):
GTATCGATACCCTTGCTACAGT
Found at i:981806 original size:31 final size:32
Alignment explanation
Indices: 981768--981928 Score: 204
Period size: 32 Copynumber: 5.1 Consensus size: 32
981758 ACTCATATAA
981768 TAAT-CTGTCCATATGTCCCG-AAGAACATAGG
1 TAATCCTGTCCATATGTCCCGAAAG-ACATAGG
*
981799 TAAT-CTGTCCATATGTTCCG-AAGAACATAGG
1 TAATCCTGTCCATATGTCCCGAAAG-ACATAGG
* * *
981830 TAATCCTATCCATATGTCCTGAAAGACATATG
1 TAATCCTGTCCATATGTCCCGAAAGACATAGG
* *
981862 TAATCCTGACCATATGTCCCAAAAGACATAGG
1 TAATCCTGTCCATATGTCCCGAAAGACATAGG
* *
981894 TAATCCTGTTCATATATCCCGAAAGACATAGG
1 TAATCCTGTCCATATGTCCCGAAAGACATAGG
981926 TAA
1 TAA
981929 CCCTCGACTC
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
31 34 0.30
32 77 0.68
33 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (32 bp):
TAATCCTGTCCATATGTCCCGAAAGACATAGG
Found at i:984569 original size:20 final size:20
Alignment explanation
Indices: 984525--984571 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
984515 TACCTTTTGG
*
984525 TATCGATACCACTTGAACAG
1 TATCGATACCACTTGAACAA
*
984545 GATCGATACCACTTGAACAA
1 TATCGATACCACTTGAACAA
984565 TATCGAT
1 TATCGAT
984572 CATGTTCAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (20 bp):
TATCGATACCACTTGAACAA
Found at i:984590 original size:40 final size:41
Alignment explanation
Indices: 984546--984649 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 41
984536 CTTGAACAGG
*
984546 ATCGATACCACT-TGAACAATATCGATCATGTTCAAGTGGT
1 ATCGATACCACTAAGAACAATATCGATCATGTTCAAGTGGT
** *
984586 ATCGATA-CTGTAAGAACAATATCGATCTTGTTCAAGTGGT
1 ATCGATACCACTAAGAACAATATCGATCATGTTCAAGTGGT
**
984626 ATCGATA-CTGTAAGAACAATATCG
1 ATCGATACCACTAAGAACAATATCG
984650 GTACTACTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (41 bp):
ATCGATACCACTAAGAACAATATCGATCATGTTCAAGTGGT
Found at i:984608 original size:20 final size:20
Alignment explanation
Indices: 984585--984654 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
984575 GTTCAAGTGG
984585 TATCGATACTGTAAGAACAA
1 TATCGATACTGTAAGAACAA
***
984605 TATCGAT-CTTGTTCAAG--TGG
1 TATCGATAC-TG-T-AAGAACAA
984625 TATCGATACTGTAAGAACAA
1 TATCGATACTGTAAGAACAA
*
984645 TATCGGTACT
1 TATCGATACT
984655 ACTTTACCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
18 3 0.08
19 2 0.05
20 27 0.73
21 2 0.05
22 3 0.08
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (20 bp):
TATCGATACTGTAAGAACAA
Found at i:985559 original size:19 final size:19
Alignment explanation
Indices: 985521--985558 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
985511 AAATGATTTG
*
985521 TTGATTTTGAAAGCAAAAA
1 TTGATTTTGAAAACAAAAA
985540 TTGATTTTGAAAAACAAAA
1 TTGATTTTG-AAAACAAAA
985559 TGAAACTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAACAAAAA
Found at i:991058 original size:30 final size:30
Alignment explanation
Indices: 991024--991104 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
991014 TGAGGAGTGG
*
991024 ATTCCTCCACCTCCTCCTGATACTGAACAA
1 ATTCCTCCACCTCCTCCTGATAATGAACAA
* *
991054 ATTCCACCTCCTCCTCCTGATAATGAACAA
1 ATTCCTCCACCTCCTCCTGATAATGAACAA
* *
991084 GTTCCTCCACCTCCGCCTGAT
1 ATTCCTCCACCTCCTCCTGAT
991105 GACCCTCCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.23, C:0.41, G:0.09, T:0.27
Consensus pattern (30 bp):
ATTCCTCCACCTCCTCCTGATAATGAACAA
Found at i:997413 original size:13 final size:13
Alignment explanation
Indices: 997395--997419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
997385 CATAGTTGAA
997395 CAGTCTTCATATG
1 CAGTCTTCATATG
997408 CAGTCTTCATAT
1 CAGTCTTCATAT
997420 ACGCGTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:998130 original size:2 final size:2
Alignment explanation
Indices: 998123--998178 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
998113 TTGATGTATG
998123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
998165 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
998179 CTGCATTTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1001629 original size:29 final size:23
Alignment explanation
Indices: 1001576--1001622 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1001566 GAAGTTATTT
1001576 TAATCGGTGCTTTGAAATTGAAC
1 TAATCGGTGCTTTGAAATTGAAC
1001599 TAATCGGTGCTTTGAAATTGAAC
1 TAATCGGTGCTTTGAAATTGAAC
1001622 T
1 T
1001623 GATACTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (23 bp):
TAATCGGTGCTTTGAAATTGAAC
Found at i:1007212 original size:31 final size:31
Alignment explanation
Indices: 1007187--1007273 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
1007177 GTCCTTAGTG
* **
1007187 TTATCGATTCATTTGATTTTAGTCCTTAACA
1 TTATCAATTCATTCAATTTTAGTCCTTAACA
1007218 TTATCAATTCATTCAATTTTAGTCCTTCAACA
1 TTATCAATTCATTCAATTTTAGTCCTT-AACA
*
1007250 GTTA--ATTCTCATTCAATTTTAGTC
1 -TTATCAAT-TCATTCAATTTTAGTC
1007274 TCTCAGCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 26 0.53
32 20 0.41
33 3 0.06
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (31 bp):
TTATCAATTCATTCAATTTTAGTCCTTAACA
Found at i:1011086 original size:21 final size:21
Alignment explanation
Indices: 1011035--1011087 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1011025 ATTATGACTA
1011035 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
1011056 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
1011077 TCGCAATGCGA
1 TCGCAATGCGA
1011088 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:1011120 original size:21 final size:21
Alignment explanation
Indices: 1011077--1011144 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
1011067 TTTTCCCAAT
** *
1011077 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
1011097 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
1011118 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
1011139 TCGCAA
1 TCGCAA
1011145 CGCGGTACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 12 0.27
21 32 0.73
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:1011163 original size:20 final size:20
Alignment explanation
Indices: 1011138--1011226 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
1011128 AATTTGGAAA
**
1011138 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCAATACTGACT
1011158 ATCGCAACGCAATACTGACT
1 ATCGCAACGCAATACTGACT
* * * *
1011178 TTCGCAACTCGATACTTAACT
1 ATCGCAACGCAATAC-TGACT
* *
1011199 -TCGCAACTCAATATTGACT
1 ATCGCAACGCAATACTGACT
*
1011218 TTCGCAACG
1 ATCGCAACG
1011227 AGATAATACA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 4 0.07
20 49 0.86
21 4 0.07
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCAATACTGACT
Found at i:1011445 original size:22 final size:22
Alignment explanation
Indices: 1011418--1011461 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1011408 CACTCTCTCA
1011418 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1011440 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1011462 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1011765 original size:20 final size:20
Alignment explanation
Indices: 1011716--1011774 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1011706 TTTATTCTCT
* **
1011716 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
1011736 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
1011756 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
1011775 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:1011965 original size:25 final size:24
Alignment explanation
Indices: 1011911--1011965 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1011901 TGTTTATTAT
* *
1011911 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1011935 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1011961 TGTTT
1 TGTTT
1011966 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1012747 original size:15 final size:16
Alignment explanation
Indices: 1012722--1012751 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1012712 TTATTTAACA
1012722 ATTACTATTGTTTGTT
1 ATTACTATTGTTTGTT
1012738 ATTA-TATTGTTTGT
1 ATTACTATTGTTTGT
1012752 AGATTTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (16 bp):
ATTACTATTGTTTGTT
Found at i:1013123 original size:18 final size:18
Alignment explanation
Indices: 1013099--1013140 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1013089 CTTCGGGAGT
1013099 CATCACCTCACCCAGAGC
1 CATCACCTCACCCAGAGC
*
1013117 TATCACCTCACCCAGAGC
1 CATCACCTCACCCAGAGC
1013135 CATCAC
1 CATCAC
1013141 ATGATCGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.48, G:0.10, T:0.14
Consensus pattern (18 bp):
CATCACCTCACCCAGAGC
Found at i:1013702 original size:20 final size:20
Alignment explanation
Indices: 1013677--1013722 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1013667 TAGTTTACTT
1013677 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
1013697 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
1013717 TCGCAA
1 TCGCAA
1013723 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:1013738 original size:19 final size:19
Alignment explanation
Indices: 1013716--1013765 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1013706 GGAAATGGCT
1013716 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATAAAA
* *
1013735 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATAAAA
1013754 ATCGCAATGCGA
1 ATCGCAATGCGA
1013766 TCAAGCAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATAAAA
Found at i:1014550 original size:91 final size:93
Alignment explanation
Indices: 1014366--1014550 Score: 290
Period size: 91 Copynumber: 2.0 Consensus size: 93
1014356 ATTTCAAACT
1014366 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1014431 AGAATTGACAGCAACCGAATAAATTTAC
66 AGAATTGACAGCAACCGAATAAATTTAC
1014459 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATA-AA-A-A-A-TTT
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAGTTT
* *
1014519 AGCAGTATTGGCAGCAACCGAATAAATTTAC
63 AGCAGAATTGACAGCAACCGAATAAATTTAC
1014550 T
1 T
1014551 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
91 33 0.38
92 1 0.01
93 20 0.23
94 1 0.01
95 31 0.36
96 1 0.01
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (93 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
AGAATTGACAGCAACCGAATAAATTTAC
Found at i:1016268 original size:20 final size:19
Alignment explanation
Indices: 1016237--1016357 Score: 109
Period size: 19 Copynumber: 6.8 Consensus size: 19
1016227 TCTTTTGGTT
1016237 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1016256 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGA
**
1016276 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1016295 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1016309 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1016328 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1016342 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1016358 TGCGATTTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
14 21 0.26
16 4 0.05
17 4 0.05
19 36 0.44
20 17 0.21
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1016304 original size:14 final size:14
Alignment explanation
Indices: 1016285--1016340 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1016275 CGAAATGACT
1016285 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
1016299 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
1016318 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
1016332 ATCGCAACG
1 ATCGCAACG
1016341 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1016304 original size:33 final size:33
Alignment explanation
Indices: 1016262--1016357 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
1016252 ACGAGATAAT
**
1016262 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1016295 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1016328 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
1016358 TGCGATTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:1016380 original size:19 final size:19
Alignment explanation
Indices: 1016358--1016405 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
1016348 AAAATCGCAA
1016358 TGCGATTTTAATTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
1016377 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
1016397 TGCGATTTT
1 TGCGATTTT
1016406 CATTCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:1016964 original size:20 final size:20
Alignment explanation
Indices: 1016923--1017034 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
1016913 GTTATGTAAA
* *
1016923 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
*
1016943 TCACATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
1016963 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
1016984 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
*
1017004 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
1017024 TCGCATTGCGA
1 TCGCATTGCGA
1017035 ATTATGAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.04
20 56 0.73
21 18 0.23
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:1017047 original size:41 final size:41
Alignment explanation
Indices: 1016914--1017172 Score: 147
Period size: 41 Copynumber: 6.3 Consensus size: 41
1016904 ATGAATGGCG
* * * * *
1016914 TTATGTAAATCGCATTGCGATAGTAAG-ATTCACATTGCGAT
1 TTATGAAAATCGCATTGCGAT-TTACGTATTCGCATTGCGAA
* * * * * *
1016955 TTACG-TATTCGCATTGCGATTTTCCTAATTCGCATTGCGAT
1 TTATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAA
* *
1016996 TTACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAA
1 TTA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAA
** * * *
1017036 TTATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAA
1 TTATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAA
* * *
1017077 TTAGGAAAATTGCATTGCGATAGT-CAGTA-TCGCATTGCG-A
1 TTATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAA
* * * * *
1017117 TTTTCCAAATTCGCATTGCGATTTACTTATTCGTATTGCGAA
1 TTAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAA
**
1017159 TTGGGAAAATCGCA
1 TTATGAAAATCGCA
1017173 ACGCGAAATT
Statistics
Matches: 166, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 40 0.24
41 116 0.70
42 5 0.03
43 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (41 bp):
TTATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAA
Found at i:1017055 original size:21 final size:21
Alignment explanation
Indices: 1017031--1017086 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1017021 TATTCGCATT
*
1017031 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
1017052 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
1017072 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
1017087 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:1017067 original size:61 final size:61
Alignment explanation
Indices: 1016948--1017068 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
1016938 AAGATTCACA
* * * ** * *
1016948 TTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTTAATCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAATCGCG
*
1017009 TTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAATCGCAACGCGA-ATACGTAAATCGC
1 TTGCGATTTACGTATTCGCATTGCG-ATTATCCAAAATCGCAACGCGATATAC-TAAATCGC
1017069 AATGCGAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 3 0.06
61 43 0.86
62 4 0.08
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (61 bp):
TTGCGATTTACGTATTCGCATTGCGATTATCCAAAATCGCAACGCGATATACTAAATCGCG
Found at i:1017095 original size:21 final size:21
Alignment explanation
Indices: 1017024--1017096 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
1017014 ATTTACGTAT
* *
1017024 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
1017045 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
1017065 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
1017086 TTGCATTGCGA
1 TCGCAATGCGA
1017097 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:1017199 original size:21 final size:22
Alignment explanation
Indices: 1017151--1017199 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
1017141 ACTTATTCGT
1017151 ATTGCG-AATTGGGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
**
1017172 AACGCGAAATT-GGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
1017193 ATTGCGA
1 ATTGCGA
1017200 TAGTCATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (22 bp):
ATTGCGAAATTGGGAAAATCGC
Done.