Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008241.1 Hibiscus syriacus cultivar Beakdansim tig00110889_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: 1355325
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:758547 original size:19 final size:19
Alignment explanation
Indices: 758501--758571 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
758491 AATGCGATAG
* *
758501 TCAAATTCGCAACGCGAAAGT
1 TCAAATTCGCAAC-TG-AATT
*
758522 T-AAATTCACAACTGAATT
1 TCAAATTCGCAACTGAATT
758540 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
758559 TCAAATTCGCAAC
1 TCAAATTCGCAAC
758572 GCCAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.09
19 30 0.67
20 10 0.22
21 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:759488 original size:22 final size:24
Alignment explanation
Indices: 759444--759495 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
759434 AGTATTCGAA
759444 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
759468 TTTGATC-TGGTC-ATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
759490 TTTGAT
1 TTTGAT
759496 GATGTGATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 14 0.54
23 5 0.19
24 7 0.27
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:759739 original size:24 final size:24
Alignment explanation
Indices: 759712--759767 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
759702 CAGTATTCGA
759712 AATTTGATCTTGGTCAATACCCGG
1 AATTTGATCTTGGTCAATACCCGG
*
759736 AATTTGATCTTGGTCAATACTCGG
1 AATTTGATCTTGGTCAATACCCGG
*
759760 ATTTTGAT
1 AATTTGAT
759768 GATGTGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
AATTTGATCTTGGTCAATACCCGG
Found at i:759814 original size:272 final size:263
Alignment explanation
Indices: 759338--759872 Score: 955
Period size: 272 Copynumber: 2.0 Consensus size: 263
759328 ACCCACAACC
759338 TTTCCTAATCCAAATCACAATCAACTTTCAGCACCAATCCGTTTTCGTACTGACCAGTTAGACTT
1 TTTCCTAATCCAAATCACAATCAACTTTCAGCACCAATCCGTTTTCGTACTGACCAGTTAGACTT
*
759403 ATGACCAACAGAAAAATTGTGAGTACTAGTCAGTATTCGAATTTGATCTTGGTCAATACCCGGAC
66 ATGACCAACAGAAAAATTGTGAGTACTAGTCAGTATTCGAATTTGATCTTGGTCAATACCCGGAA
759468 TTTGATCTGGTCATACTCGGATTTTGATGATGTGATGGAAGAAGAAACAGACCCTACATGTAATG
131 TTTGATCTGGTCATACTCGGATTTTGATGATGTGATGGAAGAAGAAACAGACCCTACATGTAATG
*
759533 ATTTTGATATTGGTCAATA-CCGAATTTTGATGATGAAACAGTCGCTGCCGAGGAAGATGTTGTT
196 ATTTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAGTCACTGCCGAGGAAGATGTTGTT
759597 GAT
261 GAT
759600 TTTCCTAATCCAAATCACAATCAACTTTCAGCACCAAATTCCGGTTTTCGTACTGACCAGTTAGA
1 TTTCCTAATCCAAATCACAATCAACTTTCAGCACC-AA-TCC-GTTTTCGTACTGACCAGTTAGA
759665 CGATTATGAGCCAACAGAAAAAATTGTGAGTACTAGTCAGTATTCGAAATTTGATCTTGGTCAAT
63 C--TTATGA-CCAACAG-AAAAATTGTGAGTACTAGTCAGTATTCG-AATTTGATCTTGGTCAAT
759730 ACCCGGAATTTGATCTTGGTCAATACTCGGATTTTGATGATGTGATGGAAGAAGAAACAGACCCT
123 ACCCGGAATTTGATC-TGGTC-ATACTCGGATTTTGATGATGTGATGGAAGAAGAAACAGACCCT
759795 ACATGTAATGATTTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAGTCACTGCCGAGGA
186 ACATGTAATGATTTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAGTCACTGCCGAGGA
759860 AGATGTTGTTGAT
251 AGATGTTGTTGAT
759873 GATAATGAGG
Statistics
Matches: 260, Mismatches: 2, Indels: 11
0.95 0.01 0.04
Matches are distributed among these distances:
262 35 0.13
263 2 0.01
264 3 0.01
265 23 0.09
267 6 0.02
268 7 0.03
269 28 0.11
270 32 0.12
271 5 0.02
272 72 0.28
273 47 0.18
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (263 bp):
TTTCCTAATCCAAATCACAATCAACTTTCAGCACCAATCCGTTTTCGTACTGACCAGTTAGACTT
ATGACCAACAGAAAAATTGTGAGTACTAGTCAGTATTCGAATTTGATCTTGGTCAATACCCGGAA
TTTGATCTGGTCATACTCGGATTTTGATGATGTGATGGAAGAAGAAACAGACCCTACATGTAATG
ATTTTGATATTGGTCAATACCCGAATTTTGATGATGAAACAGTCACTGCCGAGGAAGATGTTGTT
GAT
Found at i:762003 original size:18 final size:18
Alignment explanation
Indices: 761980--762015 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
761970 AAGAAAAAGG
*
761980 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
761998 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
762016 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:762502 original size:25 final size:25
Alignment explanation
Indices: 762464--762513 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
762454 AAATCAATTA
*
762464 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
762489 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
762514 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:762943 original size:24 final size:24
Alignment explanation
Indices: 762892--762944 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
762882 TTTCATATGT
* * * *
762892 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTCGAATTTAAATATA
*
762916 AATTTGAGTTCGAATTTCAATATA
1 AATTTGAGTTCGAATTTAAATATA
762940 AATTT
1 AATTT
762945 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (24 bp):
AATTTGAGTTCGAATTTAAATATA
Found at i:763289 original size:39 final size:39
Alignment explanation
Indices: 763246--763332 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
763236 TCCGATGCTC
*
763246 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTACCAAGCAAAAGGAA
*
763285 ATCAAAATCCAAATCTCATATGGTACCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTACCAAGCAAAAGGAA
763324 ATCAAAATC
1 ATCAAAATC
763333 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTACCAAGCAAAAGGAA
Found at i:763518 original size:20 final size:20
Alignment explanation
Indices: 763493--763542 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
763483 ATGTTGCGAT
763493 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
763513 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
763533 CAATGCGAAA
1 CAACGCGAAA
763543 TAAGCGTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:763824 original size:62 final size:65
Alignment explanation
Indices: 763692--763833 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 65
763682 TTTTAGAAAC
763692 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAA-CAAAAAAATAATTCTTATTTACAAATCAAATT
763757 A
65 A
* * * **
763758 AACAAATCAACTTTTACAAATCAATTAATCAA-AAAATAA-AA-TCTTATTTCCTCATC-AATTG
1 AACAAATCAACTTTTACAAATCAATTAAACAACAAAAAAATAATTCTTATTTACAAATCAAATT-
*
763819 T
65 A
763820 AACAAATCAACTTT
1 AACAAATCAACTTT
763834 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
61 4 0.06
62 26 0.38
63 2 0.03
64 6 0.09
66 31 0.45
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAACAAAAAAATAATTCTTATTTACAAATCAAATTA
Found at i:765228 original size:21 final size:21
Alignment explanation
Indices: 765204--765299 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
765194 GGCGGGAACA
*
765204 CTTGAACGATGACAGGGGCCT
1 CTTGAACGATGAGAGGGGCCT
* * **
765225 CTTGAACGGTGGGAGGGGTTT
1 CTTGAACGATGAGAGGGGCCT
* *
765246 CTTCG-ATGATGATAGGGGCCT
1 CTT-GAACGATGAGAGGGGCCT
* *
765267 CTTGAATGAT-AGGAGGCGCCT
1 CTTGAACGATGA-GAGGGGCCT
*
765288 CTTGAAAGATGA
1 CTTGAACGATGA
765300 TAGGTGCATC
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.04
21 53 0.93
22 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (21 bp):
CTTGAACGATGAGAGGGGCCT
Found at i:765299 original size:42 final size:42
Alignment explanation
Indices: 765204--765303 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
765194 GGCGGGAACA
* * * * * **
765204 CTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGGTTT
1 CTTGAAAGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
* *
765246 CTTCG-ATGATGATAGGGGCCTCTTGAATGATAGGAGGCGCCT
1 CTT-GAAAGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
765288 CTTGAAAGATGATAGG
1 CTTGAAAGATGATAGG
765304 TGCATCGAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.96
43 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (42 bp):
CTTGAAAGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
Found at i:765462 original size:12 final size:12
Alignment explanation
Indices: 765443--765484 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
765433 GGACCACTGA
765443 AAATAAATTAAT
1 AAATAAATTAAT
* *
765455 ATATAAATTAGT
1 AAATAAATTAAT
*
765467 AAATAAATAAAT
1 AAATAAATTAAT
765479 AAATAA
1 AAATAA
765485 TGTCGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:767512 original size:19 final size:20
Alignment explanation
Indices: 767488--767528 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
767478 AAAATCACAA
767488 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
*
767507 TGCGATTTTCATTTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
767527 TG
1 TG
767529 TGAATTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCGCGT
Found at i:767975 original size:20 final size:19
Alignment explanation
Indices: 767955--768011 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
767945 ACATTTAACT
767955 TTCGCGTTGCGAATTTGAC
1 TTCGCGTTGCGAATTTGAC
*
767974 TTCTGTGTTGCG-ATTT-AC
1 TTC-GCGTTGCGAATTTGAC
767992 AAATTCGCGTTGCGAATTTG
1 ---TTCGCGTTGCGAATTTG
768012 TTGGTCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.07
19 7 0.23
20 14 0.47
21 7 0.23
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (19 bp):
TTCGCGTTGCGAATTTGAC
Found at i:782946 original size:12 final size:12
Alignment explanation
Indices: 782915--782967 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
782905 ATACAAATAC
*
782915 CTAACTC-TCAC
1 CTAACTCTTCAA
782926 CTAACTCTTCAA
1 CTAACTCTTCAA
*
782938 CTAATTCTTC-A
1 CTAACTCTTCAA
*
782949 CTTAACTCTTCAC
1 C-TAACTCTTCAA
782962 CTAACT
1 CTAACT
782968 AAATTGATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 9 0.26
12 25 0.71
13 1 0.03
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (12 bp):
CTAACTCTTCAA
Found at i:790226 original size:39 final size:39
Alignment explanation
Indices: 790116--790234 Score: 129
Period size: 39 Copynumber: 3.1 Consensus size: 39
790106 TAAATTTTTT
* * *
790116 ATTCATAA-TTCTCAAATTATTTCAC-TCTAACATTCTAA
1 ATTCTTAATTTCTTAAATTATTTCACAT-TAACATTATAA
* *
790154 ATTCTTAATTTCTTAAATT-TTGCAACCA-CAACATTATAA
1 ATTCTTAATTTCTTAAATTATTTC-A-CATTAACATTATAA
*
790193 ATTCTTAATTTCTTAAATTATTTCACATTAACATTTTAA
1 ATTCTTAATTTCTTAAATTATTTCACATTAACATTATAA
790232 ATT
1 ATT
790235 ATTTTTAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
38 12 0.18
39 51 0.76
40 4 0.06
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.45
Consensus pattern (39 bp):
ATTCTTAATTTCTTAAATTATTTCACATTAACATTATAA
Found at i:790820 original size:24 final size:24
Alignment explanation
Indices: 790768--790850 Score: 132
Period size: 24 Copynumber: 3.5 Consensus size: 24
790758 TTCATTTAAC
* * *
790768 GTTCGTGAACTTGTTCGTTT-AAT
1 GTTCGTGAACATATTCCTTTAAAT
790791 GTTCGTGAACATATTCCTTTAAAT
1 GTTCGTGAACATATTCCTTTAAAT
790815 GTTCGTGAACATATTCCTTTAAAT
1 GTTCGTGAACATATTCCTTTAAAT
790839 GTTCGTGAACAT
1 GTTCGTGAACAT
790851 GTTCATATAG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 17 0.30
24 39 0.70
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (24 bp):
GTTCGTGAACATATTCCTTTAAAT
Found at i:790854 original size:12 final size:12
Alignment explanation
Indices: 790768--790854 Score: 54
Period size: 12 Copynumber: 7.3 Consensus size: 12
790758 TTCATTTAAC
*
790768 GTTCGTGAACTT
1 GTTCGTGAACAT
**
790780 GTTCGTTTA-AT
1 GTTCGTGAACAT
790791 GTTCGTGAACAT
1 GTTCGTGAACAT
* * *
790803 ATTCCTTTAA-AT
1 GTT-CGTGAACAT
790815 GTTCGTGAACAT
1 GTTCGTGAACAT
* * *
790827 ATTCCTTTAA-AT
1 GTT-CGTGAACAT
790839 GTTCGTGAACAT
1 GTTCGTGAACAT
790851 GTTC
1 GTTC
790855 ATATAGTGTT
Statistics
Matches: 53, Mismatches: 17, Indels: 10
0.66 0.21 0.12
Matches are distributed among these distances:
11 16 0.30
12 29 0.55
13 8 0.15
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (12 bp):
GTTCGTGAACAT
Found at i:791472 original size:17 final size:18
Alignment explanation
Indices: 791434--791479 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
791424 GTTTCTGAGG
791434 GAATTGGAATCTCTGAAT
1 GAATTGGAATCTCTGAAT
* *
791452 GAATTGGAATCTGT-CAT
1 GAATTGGAATCTCTGAAT
791469 GAATTGGAATC
1 GAATTGGAATC
791480 CAATTCCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (18 bp):
GAATTGGAATCTCTGAAT
Found at i:792424 original size:266 final size:271
Alignment explanation
Indices: 791911--792441 Score: 792
Period size: 266 Copynumber: 2.0 Consensus size: 271
791901 GAAACCCAAC
* * * ***
791911 CCCAAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTAGGGAAAATATATA
1 CCCAAAATAATAAAAAAATTATTTGTATTCAATAAAAACAAAGAATTAATTAAAAAAAATATATA
*
791976 TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATATTTTGGGTCG
66 TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATATTTCGGGTC-
* *
792041 AGTCGAGTATTTTTCACCATAAACCCGAACCCAACCCGACCCGAATATCACATATTAAAAAACTG
130 AG-CGAGTATTTTTCACCATAAACCCGAACCCAACCCGACCCGAATATCACATATAAAAAAACCG
* * *
792106 ACCCGACCGGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACT
194 ACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACC
792171 CGACCCGACCCGA
259 CGACCCGACCCGA
*
792184 CCCAAAATAAT-ACAAAATTATTTGTATTCAATAAAAA-AAGAGAATTAATTGAAAAAAAATTAT
1 CCCAAAATAATAAAAAAATTATTTGTATTCAATAAAAACAA-AGAATTAATT-AAAAAAAA-TAT
792247 ATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGT-AAATTATATATAT-TTTCGGG
63 ATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATATTTCGGG
* *
792310 TC-G-G-GTATTTTTCACCCTAAACCCGAACTCAACCCGACCCGAATATCACACT-TAAAAAAAC
128 TCAGCGAGTATTTTTCACCATAAACCCGAACCCAACCCGACCCGAATATCACA-TATAAAAAAAC
* *
792371 CGACCC-TCCCGACCAAAATAAAGTTTCACCCGACCCGACCTGAATATATGAATTAGAAACCCGA
192 CGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGA
792435 CCCGACC
257 CCCGACC
792442 TGAAATAATA
Statistics
Matches: 237, Mismatches: 17, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
266 60 0.25
267 57 0.24
268 2 0.01
270 1 0.00
271 2 0.01
272 40 0.17
273 29 0.12
274 46 0.19
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (271 bp):
CCCAAAATAATAAAAAAATTATTTGTATTCAATAAAAACAAAGAATTAATTAAAAAAAATATATA
TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATATTTCGGGTCA
GCGAGTATTTTTCACCATAAACCCGAACCCAACCCGACCCGAATATCACATATAAAAAAACCGAC
CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCG
ACCCGACCCGA
Found at i:792909 original size:30 final size:29
Alignment explanation
Indices: 792868--792972 Score: 151
Period size: 30 Copynumber: 3.6 Consensus size: 29
792858 CAGAGGATCC
*
792868 CATGCAAAATCAGGACGAGGAACGAGGTCT
1 CATGCAGAATCAGGACGAGGAAC-AGGTCT
*
792898 CATGCAGAATCAGGACG-GGAACTAAG-CT
1 CATGCAGAATCAGGACGAGGAAC-AGGTCT
792926 CATGCAGAATCAGGACGAGGAACAGTGTCT
1 CATGCAGAATCAGGACGAGGAACAG-GTCT
792956 CATGCAGAATCAGGACG
1 CATGCAGAATCAGGACG
792973 GGGGCTAAGC
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
28 20 0.29
29 13 0.19
30 35 0.51
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (29 bp):
CATGCAGAATCAGGACGAGGAACAGGTCT
Found at i:792958 original size:58 final size:58
Alignment explanation
Indices: 792866--792996 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 58
792856 CGCAGAGGAT
792866 CCCATGCAAAATCAGGACGAGGAACGAGGTCTCATGCAGAATCAGGACGGGAACTAAG
1 CCCATGCAAAATCAGGACGAGGAACGAGGTCTCATGCAGAATCAGGACGGGAACTAAG
* * **
792924 CTCATGCAGAATCAGGACGAGGAAC-AGTGTCTCATGCAGAATCAGGACGGGGGCTAAG
1 CCCATGCAAAATCAGGACGAGGAACGAG-GTCTCATGCAGAATCAGGACGGGAACTAAG
792982 CCCATGCAAAATCAG
1 CCCATGCAAAATCAG
792997 AAATGAATCA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 2 0.03
58 64 0.97
ACGTcount: A:0.34, C:0.23, G:0.29, T:0.14
Consensus pattern (58 bp):
CCCATGCAAAATCAGGACGAGGAACGAGGTCTCATGCAGAATCAGGACGGGAACTAAG
Found at i:795048 original size:21 final size:23
Alignment explanation
Indices: 795008--795053 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
794998 AGATTCAAAA
*
795008 AGGGAAATCGATTCCCCTGCTAC
1 AGGGAAATCGATTACCCTGCTAC
795031 AGGG-AATCGA-TACCCTGCTAC
1 AGGGAAATCGATTACCCTGCTAC
795052 AG
1 AG
795054 TACTGCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 6 0.27
23 4 0.18
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
AGGGAAATCGATTACCCTGCTAC
Found at i:795894 original size:21 final size:21
Alignment explanation
Indices: 795858--795909 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
795848 CATATGAAAT
* *
795858 TTGTCCCAAAGGACCACTGTA
1 TTGTCCCGAAGAACCACTGTA
*
795879 TTGTCTCGAAGAACCACTGTA
1 TTGTCCCGAAGAACCACTGTA
795900 TTGTCCCGAA
1 TTGTCCCGAA
795910 TGACCTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAAGAACCACTGTA
Found at i:796008 original size:18 final size:17
Alignment explanation
Indices: 795981--796014 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
795971 ACATGGGCAT
*
795981 TATCATTTGTTCATTTCA
1 TATCACTTGTTC-TTTCA
795999 TATCACTTGTTCTTTC
1 TATCACTTGTTCTTTC
796015 TCTTCTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (17 bp):
TATCACTTGTTCTTTCA
Found at i:797941 original size:102 final size:104
Alignment explanation
Indices: 797763--797963 Score: 289
Period size: 102 Copynumber: 2.0 Consensus size: 104
797753 AAGTATGATG
* *** * * *
797763 GTTATCGATCGATTTTGTTTAATGCATTTGTTGCATTTTTGTATCAGTATTTTTGTGTACTTTTG
1 GTTATCGATCGATTTTGTTTAATGCATTTGTTGCATTTTCGTATCAGTACCATTGTCTAATTTCG
* * *
797828 GTACTATATGTGCATTGATGGTGTTCATAATGAGCACTT
66 GCACTATATGTGCATTCATGGTATTCATAATGAGCACTT
*
797867 GTTATCGATCGA-TTT-TTTAATGCATTTGTTGTATTTTCGTATCAGTACCATTGTCTAATTTCG
1 GTTATCGATCGATTTTGTTTAATGCATTTGTTGCATTTTCGTATCAGTACCATTGTCTAATTTCG
797930 GCACTATATGTGCATTCATGGTATTCATAATGAG
66 GCACTATATGTGCATTCATGGTATTCATAATGAG
797964 TTTGTGCATT
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 71 0.83
103 3 0.03
104 12 0.14
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (104 bp):
GTTATCGATCGATTTTGTTTAATGCATTTGTTGCATTTTCGTATCAGTACCATTGTCTAATTTCG
GCACTATATGTGCATTCATGGTATTCATAATGAGCACTT
Found at i:807814 original size:10 final size:10
Alignment explanation
Indices: 807787--807824 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
807777 AAGGAAGTGT
807787 GGAG-GAAAA
1 GGAGAGAAAA
807796 GGAAGAGAAAA
1 GG-AGAGAAAA
807807 GGAGAGAAAA
1 GGAGAGAAAA
807817 GGGAGAGA
1 -GGAGAGA
807825 GGGAAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 10 0.38
11 14 0.54
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (10 bp):
GGAGAGAAAA
Found at i:808116 original size:2 final size:2
Alignment explanation
Indices: 808104--808145 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
808094 TTAAAGTATC
808104 AT AT A- 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
808145 A
1 A
808146 ATTTTAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:808169 original size:18 final size:18
Alignment explanation
Indices: 808146--808180 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
808136 TATATATATA
808146 ATTTTAAAAAAATTTAAT
1 ATTTTAAAAAAATTTAAT
*
808164 ATTTTAAATAAATTTAA
1 ATTTTAAAAAAATTTAA
808181 AATAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAAAAAAATTTAAT
Found at i:810352 original size:64 final size:63
Alignment explanation
Indices: 810222--810343 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
810212 CCCTTTTGAT
* * * * *
810222 AAAATGTGAATCGAATATAAATAAAATTGACGTTTGCATACAACAAAATAAATTGATTAACTA
1 AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
* * *
810285 AAAATGTGAATTGAATACAAATGCAAATTGACATTTACATAAAATAAAATAAATT-ACTA
1 AAAATGTGAATCGAATACAAAT-AAAATTGACATTTACATAAAACAAAATAAATTGACTA
810344 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 23 0.46
64 27 0.54
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (63 bp):
AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
Found at i:810546 original size:25 final size:25
Alignment explanation
Indices: 810518--810566 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
810508 GACAATATTT
810518 AAATAGAGAAAATG-GAAATAAATAG
1 AAATAGA-AAAATGTGAAATAAATAG
*
810543 AAATAGAAATATGTGAAATAAATA
1 AAATAGAAAAATGTGAAATAAATA
810567 TTTACAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.20
Consensus pattern (25 bp):
AAATAGAAAAATGTGAAATAAATAG
Found at i:812301 original size:25 final size:25
Alignment explanation
Indices: 812260--812358 Score: 164
Period size: 25 Copynumber: 4.0 Consensus size: 25
812250 CATTAGGGGA
* * *
812260 TTAGGG-TTAAAACCCTAATTTGTT
1 TTAGGGTTTGAAACCCTAATCTGAT
812284 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
812309 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
812334 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
812359 GGTGGTTCAG
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 6 0.08
25 65 0.92
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:812461 original size:3 final size:3
Alignment explanation
Indices: 812443--812505 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
812433 GTGTAAAATG
* * *
812443 TAA TAT TAA T-A TAA TAA TAA TAA T-A TAA CAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
812489 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
812506 TAAAAAAAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:812904 original size:129 final size:129
Alignment explanation
Indices: 812703--813079 Score: 709
Period size: 129 Copynumber: 2.9 Consensus size: 129
812693 CGTCTAAGGG
* * * *
812703 TGACATGGTTCCTACGTGATGAGGACATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
812768 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
812832 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
812897 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
812961 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
*
813026 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGTCTGGT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGT
813080 CGGGGAATGA
Statistics
Matches: 243, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 243 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGA
GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
Found at i:813062 original size:215 final size:215
Alignment explanation
Indices: 812834--813294 Score: 870
Period size: 215 Copynumber: 2.1 Consensus size: 215
812824 TCTATGGTTG
*
812834 ACACGGCTCCTACGTGATGAAGA-GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAG
1 ACACGGTTCCTACGTGATGAAGACG-TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAG
812898 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
65 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
812963 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
130 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
813028 TCTGGCCATCTAAAGGTGATA
195 TCTGGCCATCTAAAGGTGATA
*
813049 ACACGGTTCCTACGTGATGAGGACGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGTTCCTACGTGATGAAGACGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
813114 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGA
66 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGA
813179 CACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTT
131 CACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTT
813244 CTGGCCATCTAAAGGTGATA
196 CTGGCCATCTAAAGGTGATA
* *
813264 ACACGGTTCCTACGTGATGAGGACGGCTGGT
1 ACACGGTTCCTACGTGATGAAGACGTCTGGT
813295 TATCTATGGT
Statistics
Matches: 242, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
215 241 1.00
216 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (215 bp):
ACACGGTTCCTACGTGATGAAGACGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGA
CACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTT
CTGGCCATCTAAAGGTGATA
Found at i:813182 original size:129 final size:129
Alignment explanation
Indices: 813049--813559 Score: 979
Period size: 129 Copynumber: 4.0 Consensus size: 129
813039 AAAGGTGATA
* *
813049 ACACGGTTCCTACGTGATGAGGACG-TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAG
1 ACACGGCTCCTACGTGATGAAGA-GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAG
813113 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
65 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
813178 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
813243 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
66 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
813307 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
813372 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
66 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
813436 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
*
813501 TCTGGCCATCTAAAGGTGATAACACGGTTCCTATGTGATGAGGACGGCTGGTTATCTAT
66 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAT
813560 AGGGATAATG
Statistics
Matches: 378, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
128 1 0.00
129 377 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (129 bp):
ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
Found at i:813336 original size:344 final size:344
Alignment explanation
Indices: 812667--813423 Score: 1430
Period size: 344 Copynumber: 2.2 Consensus size: 344
812657 GGACGACATT
* * * * *
812667 GCTCATGCGTGATGAAGAGTTCAGGCCGTCT-AAGG-G-TGACATGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
*
812729 ATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
66 GTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
812794 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
131 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
812859 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
196 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
812924 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
261 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
812989 CTGGTCGGGGAATGACACG
326 CTGGTCGGGGAATGACACG
813008 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
813073 GTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
66 GTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
813138 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
131 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
813203 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
196 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
813268 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
261 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
813333 CTGGTCGGGGAATGACACG
326 CTGGTCGGGGAATGACACG
813352 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
*
813417 GGCTGGT
66 GTCTGGT
813424 TATCTATGGT
Statistics
Matches: 406, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
341 28 0.07
342 4 0.01
343 1 0.00
344 373 0.92
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (344 bp):
GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
GTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
CTGGTCGGGGAATGACACG
Found at i:813406 original size:215 final size:210
Alignment explanation
Indices: 812834--813412 Score: 673
Period size: 215 Copynumber: 2.7 Consensus size: 210
812824 TCTATGGTTG
* * * *
812834 ACACGGCTCCTACGTGATGAAGA-GATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAG
1 ACACGGTTCCTACGTGATGAGGACG-GCTGGTCAGGGAATGACACGGCTCATACGTGATGAAGAG
* * * * * ** * *
812898 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
65 ATCTGG-C-TC---AGGGGATAACACGGCTCATACGTGATGAAGACGGCTGGCCATCTAAGGTTA
812963 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
125 ACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
813028 TCTGGCCATCTAAAGGTGATA
190 TCTGGCCATCTAAAGGTGATA
* * *
813049 ACACGGTTCCTACGTGATGAGGACGTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGT
1 ACACGGTTCCTACGTGATGAGGACGGCTGGTCAGGGAATGACACGGCTCATACGTGATGAAGAGA
* * * * ** * *
813114 TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGA
66 TCTGG-C-TC---AGGGGATAACACGGCTCATACGTGATGAAGACGGCTGGCCATCTAAGGTTAA
813179 CACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTT
126 CACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTT
813244 CTGGCCATCTAAAGGTGATA
191 CTGGCCATCTAAAGGTGATA
* * *
813264 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGG-TTGACACGGCTCCTACGTGATGAA
1 ACACGGTTCCTACGTGATGAGGACGGCTGG---TC-AGGGAATGACACGGCTCATACGTGATGAA
* *
813328 GAGATCTGG-TC-GGGGAATGACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTG
62 GAGATCTGGCTCAGGGG-ATAACACGGCTCATACGTGATGAAGACG-GCTGGCCATCT-AAGGT-
*
813390 ATAACACGGTTCCTACGTGATGA
123 -TAACACGGCTCCTACGTGATGA
813413 GGACGGCTGG
Statistics
Matches: 335, Mismatches: 19, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
211 4 0.01
212 30 0.09
213 4 0.01
215 262 0.78
216 1 0.00
218 32 0.10
219 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (210 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGTCAGGGAATGACACGGCTCATACGTGATGAAGAGA
TCTGGCTCAGGGGATAACACGGCTCATACGTGATGAAGACGGCTGGCCATCTAAGGTTAACACGG
CTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGC
CATCTAAAGGTGATA
Found at i:813541 original size:344 final size:339
Alignment explanation
Indices: 812667--813541 Score: 1215
Period size: 344 Copynumber: 2.5 Consensus size: 339
812657 GGACGACATT
* * * * *
812667 GCTCATGCGTGATGAAGAGTTCAGGCCGTCT-AAGG-G-TGACATGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
** * * *
812729 ATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
66 GGCTGGTCAGGGAATGACACGGCTCATACGTGATGAAGAGATCTGG-C-TC---AGGGGATAACA
* * * ** * *
812794 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
126 CGGCTCATACGTGATGAAGACGGCTGGCCATCTAAGGTTAACACGGCTCCTACGTGATGAAGAGA
812859 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
191 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
812924 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
256 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
812989 CTGGTCGGGGAATGACACG
321 CTGGTCGGGGAATGACACG
813008 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
* * * *
813073 GTCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
66 GGCTGGTCAGGGAATGACACGGCTCATACGTGATGAAGAGATCTGG-C-TC---AGGGGATAACA
* * * ** * *
813138 CGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGA
126 CGGCTCATACGTGATGAAGACGGCTGGCCATCTAAGGTTAACACGGCTCCTACGTGATGAAGAGA
813203 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
191 TCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACAC
813268 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
256 GGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGAT
813333 CTGGTCGGGGAATGACACG
321 CTGGTCGGGGAATGACACG
813352 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
* * * *
813417 GGCTGGTTATCTATGG-TTGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAATGACA
66 GGCTGG---TC-AGGGAATGACACGGCTCATACGTGATGAAGAGATCTGGCTCAGGGG-ATAACA
* * *
813479 CGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTATGTGATGA
126 CGGCTCATACGTGATGAAGACG-GCTGGCCATCT-AAGGT--TAACACGGCTCCTACGTGATGA
813542 GGACGGCTGG
Statistics
Matches: 498, Mismatches: 24, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
340 4 0.01
341 58 0.12
342 8 0.02
343 1 0.00
344 393 0.79
347 32 0.06
348 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (339 bp):
GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
GGCTGGTCAGGGAATGACACGGCTCATACGTGATGAAGAGATCTGGCTCAGGGGATAACACGGCT
CATACGTGATGAAGACGGCTGGCCATCTAAGGTTAACACGGCTCCTACGTGATGAAGAGATCTGG
TCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTC
CTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGT
CGGGGAATGACACG
Found at i:814032 original size:63 final size:63
Alignment explanation
Indices: 813957--814110 Score: 170
Period size: 63 Copynumber: 2.5 Consensus size: 63
813947 GATGGTAAAT
*
813957 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTC-AAAGAAACTGTCTCGAGAGACACAAA-A
1 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTT-TCAAAAGAAACTGTCTCAAGAGACA-AAACA
* * * * * * * *
814020 TTTGTTTCCAAAGAAAGAGATTCAATGATTTTTTCAAAAGAAATTGTTTCAAGGGATAAAACA
1 TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTCAAGAGACAAAACA
* *
814083 -CTGTTTCCAGAGAAACAAACTCAAAGAT
1 TTTGTTTCCAAAGAAACAAACTCAAAGAT
814111 GATCTTGTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
62 27 0.36
63 47 0.64
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (63 bp):
TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACTGTCTCAAGAGACAAAACA
Found at i:814140 original size:15 final size:15
Alignment explanation
Indices: 814116--814160 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
814106 AAGATGATCT
*
814116 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
814131 TGTTTCAAGAGAGAA
1 TGTTTCAAGAGAAAA
*
814146 TGTTTCAAGTGAAAA
1 TGTTTCAAGAGAAAA
814161 GACTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.31
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:814743 original size:30 final size:30
Alignment explanation
Indices: 814705--814890 Score: 99
Period size: 30 Copynumber: 5.8 Consensus size: 30
814695 TAAGAGAGAC
814705 AAAA-TTTTGTTTCCAAAGAAACAAACTCA
1 AAAATTTTTGTTTCCAAAGAAACAAACTCA
* ***
814734 AATATTTTTGTTT-CAACAGAAACTATCTTAAGAGA
1 AAAATTTTTGTTTCCAA-AGAAAC-A----AACTCA
*
814769 GACAAAATTTTGTTTCCAAAGAAACAAACTCA
1 -A-AAATTTTTGTTTCCAAAGAAACAAACTCA
* * ***
814801 AAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGA
1 AAAATTTTTGTTTCCAAAGAAAC-A----AACTCA
*
814836 GACAAAATTTTGTTTCCAAAGAAACAAACTCA
1 -A-AAATTTTTGTTTCCAAAGAAACAAACTCA
*
814868 AAGATTTTTGTTT-CAACAGAAAC
1 AAAATTTTTGTTTCCAA-AGAAAC
814891 TATCTTAAGA
Statistics
Matches: 116, Mismatches: 23, Indels: 35
0.67 0.13 0.20
Matches are distributed among these distances:
29 9 0.08
30 49 0.42
31 4 0.03
32 6 0.05
35 6 0.05
36 4 0.03
37 35 0.30
38 3 0.03
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (30 bp):
AAAATTTTTGTTTCCAAAGAAACAAACTCA
Found at i:814764 original size:67 final size:67
Alignment explanation
Indices: 814614--814980 Score: 527
Period size: 67 Copynumber: 5.6 Consensus size: 67
814604 AAAGATTTAC
* * * * * * *
814614 TTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT--AAGAGAAACAGATTCAAAGA-TT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAAACTCAAAGATTT
814675 TT-T
64 TTGT
* *
814678 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAATATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
814743 GT
66 GT
*
814745 TTCAACAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
814810 GT
66 GT
814812 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
814877 GT
66 GT
*
814879 TTCAACAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA--TTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
814942 -T
66 GT
* * *
814943 TTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTT
814981 TTTAGAAAAA
Statistics
Matches: 281, Mismatches: 17, Indels: 11
0.91 0.06 0.04
Matches are distributed among these distances:
63 8 0.03
64 60 0.21
65 17 0.06
66 6 0.02
67 190 0.68
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.30
Consensus pattern (67 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
GT
Found at i:814917 original size:201 final size:194
Alignment explanation
Indices: 814614--814980 Score: 522
Period size: 198 Copynumber: 1.9 Consensus size: 194
814604 AAAGATTTAC
* * * * *
814614 TTCAAGAGAAACTGTCTCAAGAGATACAAAATTCATTTTAAGAGAAACAGATTCAAAGATTTTTT
1 TTCAAAAGAAACTATCTCAAGAGAGACAAAATTCATTTTAAGAGAAACAAACTCAAAGATTTTTT
* *
814679 TCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAATATTTTTG
66 TCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA--TTT-
*
814744 TTTCAACAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTT
128 TTTCAACAGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCCAAAGAAACAAACTCAAAGATTTT
814809 TGT
192 TGT
* *
814812 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAAACTCAAAGATTT
1 TTCAAAAGAAACTATCTCAAGAGAGACAAAATTCAT-TTT--AAGAGAAACAAACTCAAAGA-TT
*
814875 TTGTTTCAACAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGAT
62 TT-TTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGAT
* *
814940 TTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT
126 TTTTTCAACAGAAACTATCTCAAGAGAGACAAAATTTGTTT
814981 TTTAGAAAAA
Statistics
Matches: 151, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
197 8 0.05
198 61 0.40
199 18 0.12
200 6 0.04
201 58 0.38
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.30
Consensus pattern (194 bp):
TTCAAAAGAAACTATCTCAAGAGAGACAAAATTCATTTTAAGAGAAACAAACTCAAAGATTTTTT
TCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTT
CAACAGAAACTATCTCAAGAGAGACAAAATTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGT
Found at i:815352 original size:14 final size:14
Alignment explanation
Indices: 815333--815360 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
815323 TTTATGTATC
815333 ATGTATGTATGTGT
1 ATGTATGTATGTGT
815347 ATGTATGTATGTGT
1 ATGTATGTATGTGT
815361 TCTTAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
ATGTATGTATGTGT
Found at i:816556 original size:12 final size:11
Alignment explanation
Indices: 816528--816565 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
816518 TCATCTTTTG
*
816528 TTCTTTGCTTT
1 TTCTTTGATTT
816539 TTCTTTGATTT
1 TTCTTTGATTT
816550 TTGCTTTGATTT
1 TT-CTTTGATTT
816562 TTCT
1 TTCT
816566 CTTTGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:816582 original size:20 final size:20
Alignment explanation
Indices: 816553--816590 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
816543 TTGATTTTTG
816553 CTTTGATTTTTCTCTTTGCT
1 CTTTGATTTTTCTCTTTGCT
* *
816573 CTTTGTTTTTTTTCTTTG
1 CTTTGATTTTTCTCTTTG
816591 GTTTGATCTT
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:0.03, C:0.16, G:0.11, T:0.71
Consensus pattern (20 bp):
CTTTGATTTTTCTCTTTGCT
Found at i:821228 original size:64 final size:63
Alignment explanation
Indices: 821098--821219 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
821088 CCCTTTTGAT
* * * * *
821098 AAAATGTGAATCGAATATAAATAAAATTGACGTTTGCATACAACAAAATAAATTGATTAACTA
1 AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
* * *
821161 AAAATGTGAATTGAATACAAATGCAAATTGACATTTACATAAAATAAAATAAATT-ACTA
1 AAAATGTGAATCGAATACAAAT-AAAATTGACATTTACATAAAACAAAATAAATTGACTA
821220 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 23 0.46
64 27 0.54
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (63 bp):
AAAATGTGAATCGAATACAAATAAAATTGACATTTACATAAAACAAAATAAATTGACTAACTA
Found at i:823177 original size:25 final size:25
Alignment explanation
Indices: 823136--823234 Score: 164
Period size: 25 Copynumber: 4.0 Consensus size: 25
823126 CATTAGGGGA
* * *
823136 TTAGGG-TTAAAACCCTAATTTGTT
1 TTAGGGTTTGAAACCCTAATCTGAT
823160 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
823185 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
823210 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
823235 GGTGGTTCAG
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 6 0.08
25 65 0.92
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:823338 original size:3 final size:3
Alignment explanation
Indices: 823319--823389 Score: 99
Period size: 3 Copynumber: 23.7 Consensus size: 3
823309 GTGTAAAATG
* * *
823319 TAA TAT TAA TAA T-A TAA TAA TAA TAA TAAA TAA CAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
823364 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
823390 TAAAAAAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:824237 original size:36 final size:36
Alignment explanation
Indices: 824188--824260 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
824178 CATTGATGTC
*
824188 TCCCTCTGTCATTTTCAATTTATCCACTGTAAGATT
1 TCCCTCTGCCATTTTCAATTTATCCACTGTAAGATT
824224 TCCCTCTGCCATTTTCAATTTATCCACTGTAAGATT
1 TCCCTCTGCCATTTTCAATTTATCCACTGTAAGATT
824260 T
1 T
824261 TTTATTTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.44
Consensus pattern (36 bp):
TCCCTCTGCCATTTTCAATTTATCCACTGTAAGATT
Found at i:824645 original size:18 final size:17
Alignment explanation
Indices: 824611--824656 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
824601 AGTCTACCAA
824611 AAATATTATTATATTAT
1 AAATATTATTATATTAT
*
824628 AAATATTAATTATTTTAT
1 AAATATT-ATTATATTAT
* *
824646 TATTATTATTA
1 AAATATTATTA
824657 GTAATTAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATATTATTATATTAT
Found at i:826196 original size:29 final size:28
Alignment explanation
Indices: 826126--826204 Score: 104
Period size: 30 Copynumber: 2.7 Consensus size: 28
826116 TTTATTTGTA
*
826126 TTTATTGTTTAGTCCTTTAACTTTCTAT
1 TTTATTATTTAGTCCTTTAACTTTCTAT
* *
826154 TTTAGCTATTTTAGTCTTTTAACTTTCTATT
1 TTTA-TTA-TTTAGTCCTTTAACTTTCTA-T
826185 TTTATTATTTAGTCCTTTAA
1 TTTATTATTTAGTCCTTTAA
826205 TTTACTAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.09
29 13 0.30
30 21 0.49
31 5 0.12
ACGTcount: A:0.20, C:0.13, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTATTATTTAGTCCTTTAACTTTCTAT
Found at i:834218 original size:16 final size:16
Alignment explanation
Indices: 834197--834263 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
834187 TTACCCGACC
*
834197 TGTTTTCAACCTGACT
1 TGTTTTCAACCTGACA
834213 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACA
* *
834229 TGTTTTTAATCTGACA
1 TGTTTTCAACCTGACA
* *
834245 TGTTTTTAACCTTACA
1 TGTTTTCAACCTGACA
834261 TGT
1 TGT
834264 AAATGATCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:834500 original size:28 final size:24
Alignment explanation
Indices: 834448--834502 Score: 65
Period size: 28 Copynumber: 2.1 Consensus size: 24
834438 CTATTATATA
*
834448 AAATTAATAAAATTATTTAAATGC
1 AAATTAATAAAATTATTAAAATGC
834472 AAATTAGATAAAACATTATTAATAATGC
1 AAATTA-AT-AAA-ATTATTAA-AATGC
834500 AAA
1 AAA
834503 AGGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 2 0.08
26 3 0.12
27 7 0.27
28 8 0.31
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (24 bp):
AAATTAATAAAATTATTAAAATGC
Found at i:837908 original size:28 final size:27
Alignment explanation
Indices: 837873--837930 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
837863 AAAATGGTAT
*
837873 TTATAATTAATATTAAAATAATTATATA
1 TTATAATTAATACTAAAATAATTA-ATA
*
837901 TTATAATTAATACTAATATAATTAATA
1 TTATAATTAATACTAAAATAATTAATA
837928 TTA
1 TTA
837931 ATATTAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATAATTAATACTAAAATAATTAATA
Found at i:837952 original size:31 final size:28
Alignment explanation
Indices: 837874--838112 Score: 119
Period size: 31 Copynumber: 8.0 Consensus size: 28
837864 AAATGGTATT
* *
837874 TATAATTAATATTAAAATAATTATATAT
1 TATAATTAATATTAATATAATTATATAA
*
837902 TATAATTAATACTAATATAATTAATATTAA
1 TATAATTAATATTAATATAATT-ATA-TAA
837932 TATTAACTT-ATATTAATATAATATAGTTTATAA
1 TA-TAA-TTAATATTAATATAAT-TA---TATAA
* *
837965 TTTATAATTAATATTAATATGAAATATAGTCTA
1 --TATAATTAATATTAATAT-AATTATA-T-AA
* * **
837998 TAAAATTAATATTAATATAAACTATATGT
1 TATAATTAATATTAATAT-AATTATATAA
*
838027 TATAAATT-ATATT-ATATAGTT-TATAAA
1 TAT-AATTAATATTAATATAATTATAT-AA
* *
838054 CTATATACT-ATATTAATATAAATCATAGTTAA
1 -TATA-ATTAATATTAATAT-AATTATA--TAA
* * *
838086 GATAATTAACATTAATATAACTATATA
1 TATAATTAATATTAATATAATTATATA
838113 GTACATTAAT
Statistics
Matches: 163, Mismatches: 24, Indels: 48
0.69 0.10 0.20
Matches are distributed among these distances:
26 3 0.02
27 3 0.02
28 36 0.22
29 14 0.09
30 18 0.11
31 55 0.34
32 6 0.04
33 7 0.04
34 17 0.10
35 4 0.02
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (28 bp):
TATAATTAATATTAATATAATTATATAA
Found at i:837964 original size:43 final size:43
Alignment explanation
Indices: 837872--837982 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
837862 TAAAATGGTA
* *
837872 TTTATAATTAATATTAA-AATAATTATATATTATAATTAATAC
1 TTTATAATTAATATTAATATTAATTATATAATATAATTAATAC
* *
837914 TAATATAATTAATATTAATATTAACTTATATTAATATAA-T-ATAG
1 T-TTATAATTAATATTAATATTAA-TTATA-TAATATAATTAATAC
*
837958 TTTATAATTTATAATTAATATTAAT
1 TTTATAATTAAT-ATTAATATTAAT
837983 ATGAAATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
42 1 0.02
43 25 0.43
44 19 0.33
45 6 0.10
46 7 0.12
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (43 bp):
TTTATAATTAATATTAATATTAATTATATAATATAATTAATAC
Found at i:838022 original size:24 final size:25
Alignment explanation
Indices: 837977--838023 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
837967 TATAATTAAT
**
837977 ATTAATATGAAATATAGTCTATAAA
1 ATTAATATGAAATATAAACTATAAA
*
838002 ATTAATAT-TAATATAAACTATA
1 ATTAATATGAAATATAAACTATA
838024 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTAATATGAAATATAAACTATAAA
Found at i:838065 original size:21 final size:21
Alignment explanation
Indices: 838013--838066 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
838003 TTAATATTAA
*
838013 TATAAACTATATGTTATAAA-
1 TATATACTATATGTTATAAAC
*
838033 T-TATATTATATAGTTTATAAAC
1 TATATACTATAT-G-TTATAAAC
838055 TATATACTATAT
1 TATATACTATAT
838067 TAATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 8 0.30
20 2 0.07
21 7 0.26
22 1 0.04
23 9 0.33
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (21 bp):
TATATACTATATGTTATAAAC
Found at i:838147 original size:88 final size:87
Alignment explanation
Indices: 837920--838153 Score: 231
Period size: 88 Copynumber: 2.7 Consensus size: 87
837910 ATACTAATAT
* * * *
837920 AATTAATATTAATATTAACT-TA--T-ATTAATAT-AATATAGTTTATAATTTATA-ATTAATAT
1 AATTAACATTAATATAAACTATATGTCATTAATATAAATATAGTTTATAAATTATATACTAATAT
837979 TAATATGAAATATAGTCTATAA
66 TAATATGAAATATAGTCTATAA
* * * * *
838001 AATTAATATTAATATAAACTATATGTTATAAATTATATTATATAGTTTATAAACTATATACT-AT
1 AATTAACATTAATATAAACTATATGTCATTAA-TATA-AATATAGTTTATAAATTATATACTAAT
838065 ATTAATAT-AAATCATAGT-TA-AGA
64 ATTAATATGAAAT-ATAGTCTATA-A
838088 TAATTAACATTAATAT-AACTATATAGTACATTAATATAAACTATAGTTTATAAATTATATAC-A
1 -AATTAACATTAATATAAACTATAT-GT-CATTAATATAAA-TATAGTTTATAAATTATATACTA
838151 ATA
62 ATA
838154 GGTTATAAGT
Statistics
Matches: 127, Mismatches: 11, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
81 19 0.15
82 2 0.02
84 1 0.01
85 4 0.03
86 4 0.03
87 16 0.13
88 75 0.59
89 6 0.05
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (87 bp):
AATTAACATTAATATAAACTATATGTCATTAATATAAATATAGTTTATAAATTATATACTAATAT
TAATATGAAATATAGTCTATAA
Found at i:838277 original size:55 final size:56
Alignment explanation
Indices: 838216--838342 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 56
838206 TATAGGTTAC
* *
838216 ATATATAGTTTACATA-ACATATAAATAGATTGTATATATACATATATTATAAGTTAT-
1 ATATATAGTTTACATATAC-TATAAATA-ATT-TATACATACATATACTATAAGTTATA
* * * * *
838273 ATATATAGTTTATATATGCTATACATAATTTATACATACATATACTATACGTTA-C
1 ATATATAGTTTACATATACTATAAATAATTTATACATACATATACTATAAGTTATA
838328 ATATATAGTTTACAT
1 ATATATAGTTTACAT
838343 GTATACATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
55 35 0.57
56 3 0.05
57 22 0.36
58 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (56 bp):
ATATATAGTTTACATATACTATAAATAATTTATACATACATATACTATAAGTTATA
Found at i:838463 original size:2 final size:2
Alignment explanation
Indices: 838456--838769 Score: 166
Period size: 2 Copynumber: 161.5 Consensus size: 2
838446 TTATACATAC
* * *
838456 AT AT AT AT A- AT AT -T A- AT AT AA AT -T A- AT TT AT AT AGT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
838494 AT AC AT AT AT AGT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
838537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
838575 AT AT AA AT -T AT AT -T TT AT AA ACT AT AT ACT TT TT AT AGT TT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT A-T AT
* * * *
838616 AT AC AT AT AT AGT TT AT AT AC AT AGT TT AT AT AT AT ACT -T CAT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT A-T AT -AT
* * * *
838659 AT AA AC AT A- AT AT AT AT AT AT AG CT -T AT A- AT A- AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
838696 AT AGT TT AT A- AT AT AA AT AT AGT TT AT AT AT AA ACT -T AT AT
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
838737 -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
838770 ATTTTTTTCA
Statistics
Matches: 238, Mismatches: 41, Indels: 66
0.69 0.12 0.19
Matches are distributed among these distances:
1 21 0.09
2 206 0.87
3 11 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:838628 original size:15 final size:14
Alignment explanation
Indices: 838608--838710 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 14
838598 ATATACTTTT
838608 TATAGTTTATACATA
1 TATAGTTTATA-ATA
838623 TATAGTTTAT-ATA
1 TATAGTTTATAATA
*
838636 CATAGTTTAT-ATA
1 TATAGTTTATAATA
*
838649 TATACTTCATATAA-A
1 TATAGTT--TATAATA
* * *
838664 CATAATATAT-ATA
1 TATAGTTTATAATA
838677 TATAGCTTATAATAATTA
1 TATAG-TT-T-ATAA-TA
838695 TATAGTTTATAATA
1 TATAGTTTATAATA
838709 TA
1 TA
838711 AATATAGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
12 1 0.01
13 27 0.39
14 5 0.07
15 23 0.33
16 4 0.06
17 3 0.04
18 7 0.10
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:838724 original size:15 final size:15
Alignment explanation
Indices: 838608--838725 Score: 59
Period size: 13 Copynumber: 7.9 Consensus size: 15
838598 ATATACTTTT
* *
838608 TATAGTTTATACATA
1 TATAGTTTATATAAA
838623 TATAGTTTATAT--A
1 TATAGTTTATATAAA
*
838636 CATAGTTTATAT--A
1 TATAGTTTATATAAA
* *
838649 TATACTTCATATAAA
1 TATAGTTTATATAAA
* * *
838664 CATA--ATATATATA
1 TATAGTTTATATAAA
*
838677 TATAGCTTATAATAATTA
1 TATAGTTTAT-ATAA--A
838695 TATAGTTTATAATATAAA
1 TATAG-TT-T-ATATAAA
838713 TATAGTTTATATA
1 TATAGTTTATATA
838726 TAAACTTATA
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
13 31 0.39
15 23 0.29
16 4 0.05
17 2 0.03
18 12 0.15
19 1 0.01
20 5 0.06
21 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (15 bp):
TATAGTTTATATAAA
Found at i:838849 original size:24 final size:24
Alignment explanation
Indices: 838815--838862 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
838805 AAATATAGTG
*
838815 TATATAGTTCACTA-ATAAACTATA
1 TATATAATTCA-TATATAAACTATA
*
838839 TATATAATTCATATGTAAACTATA
1 TATATAATTCATATATAAACTATA
838863 GTTCATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (24 bp):
TATATAATTCATATATAAACTATA
Found at i:838867 original size:18 final size:18
Alignment explanation
Indices: 838841--838875 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
838831 AAACTATATA
838841 TATAATTCATATGTAAAC
1 TATAATTCATATGTAAAC
*
838859 TATAGTTCATATGTAAA
1 TATAATTCATATGTAAA
838876 TTACATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
TATAATTCATATGTAAAC
Found at i:839738 original size:12 final size:12
Alignment explanation
Indices: 839709--839782 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 12
839699 AAACAGAGAT
* *
839709 ATCAGAAATCAA
1 ATCAGAATTCAG
*
839721 AACAGAATTCAG
1 ATCAGAATTCAG
*
839733 ATCAG-ATATCAT
1 ATCAGAAT-TCAG
*
839745 AACAGAA-TCTAG
1 ATCAGAATTC-AG
*
839757 ATCAGAAATCAG
1 ATCAGAATTCAG
*
839769 AACAGAATTCAG
1 ATCAGAATTCAG
839781 AT
1 AT
839783 AATGTATTAG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
11 4 0.09
12 40 0.85
13 3 0.06
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (12 bp):
ATCAGAATTCAG
Found at i:839743 original size:24 final size:24
Alignment explanation
Indices: 839709--839782 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
839699 AAACAGAGAT
839709 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
839733 ATCAGATATCATAACAGAA-TCTAG
1 ATCAGAAATCAAAACAGAATTC-AG
*
839757 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
839781 AT
1 AT
839783 AATGTATTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.05
24 40 0.91
25 2 0.05
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:839797 original size:48 final size:48
Alignment explanation
Indices: 839709--839800 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
839699 AAACAGAGAT
* *
839709 ATCAGAAATCAAAACAGAATTCAGATCAGATATCATAACAGAATCTAG
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCTAG
* *
839757 ATCAGAAATCAGAACAGAATTCAGATAATG-TATTAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAAT
839801 TCAAGTCGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCTAG
Found at i:839813 original size:48 final size:48
Alignment explanation
Indices: 839709--839813 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
839699 AAACAGAGAT
* * *
839709 ATCAGAAATCAAAACAGAATTCAGATCAGATATCATAACAGAATCTAG
1 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCAAG
* *
839757 ATCAGAAATCAGAACAGAATTCAGATAATG-TATTAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAA-TCAAG
*
839806 -TCGGAAAT
1 ATCAGAAAT
839814 TTGATAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 44 0.90
49 5 0.10
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCAAG
Found at i:842035 original size:17 final size:17
Alignment explanation
Indices: 842009--842044 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
841999 TCGAATTTGG
* *
842009 TGAAACTTTGGAATTTT
1 TGAAAATTTGGAAATTT
842026 TGAAAATTTGGAAATTT
1 TGAAAATTTGGAAATTT
842043 TG
1 TG
842045 GAATTTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.44
Consensus pattern (17 bp):
TGAAAATTTGGAAATTT
Found at i:843219 original size:41 final size:42
Alignment explanation
Indices: 843133--843283 Score: 250
Period size: 42 Copynumber: 3.6 Consensus size: 42
843123 TAGTTTATAC
* *
843133 ATACATGTACTATAAGTTACATGTATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
843175 ATACATATACTATAAGTTATATATATAG-TTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
843216 ATACATATATTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
843258 ATACACATACTATAAGTTACATATAT
1 ATACATATACTATAAGTTACATATAT
843284 TAATTATTGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 39 0.39
42 62 0.61
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (42 bp):
ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:843447 original size:2 final size:2
Alignment explanation
Indices: 843440--843539 Score: 95
Period size: 2 Copynumber: 51.5 Consensus size: 2
843430 TGTTTCTTTA
843440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
* * * *
843481 AT AT AT AT CT AT GT AT -T ACT -T AT AT -T AGT -T AT AC AT AC AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT
843521 AT AT AT ACT AT AT A- AT AT A
1 AT AT AT A-T AT AT AT AT AT A
843540 AATTATAACA
Statistics
Matches: 81, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
1 6 0.07
2 71 0.88
3 4 0.05
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:843546 original size:14 final size:14
Alignment explanation
Indices: 843521--843574 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
843511 ATACATACAT
*
843521 ATATATACTATATA-
1 ATATAAACTATA-AC
*
843535 ATATAAATTATAAC
1 ATATAAACTATAAC
*
843549 ATAAAAACTATAAC
1 ATATAAACTATAAC
843563 ATATAAACTATA
1 ATATAAACTATA
843575 TAGTTTATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
13 1 0.03
14 33 0.97
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATAAACTATAAC
Found at i:843597 original size:8 final size:8
Alignment explanation
Indices: 843584--843758 Score: 242
Period size: 8 Copynumber: 21.9 Consensus size: 8
843574 ATAGTTTATA
843584 CATACATG
1 CATACATG
843592 CATACATG
1 CATACATG
* **
843600 TATACACA
1 CATACATG
843608 CATACATG
1 CATACATG
*
843616 CATATATG
1 CATACATG
843624 CATACATG
1 CATACATG
*
843632 CATACACG
1 CATACATG
843640 CATACATG
1 CATACATG
*
843648 CATACACG
1 CATACATG
843656 CATACATG
1 CATACATG
*
843664 CATACACG
1 CATACATG
*
843672 CATACACG
1 CATACATG
843680 CATACATG
1 CATACATG
*
843688 CATACACG
1 CATACATG
843696 CATACATG
1 CATACATG
*
843704 CATACACG
1 CATACATG
843712 CATACATG
1 CATACATG
*
843720 CATACACG
1 CATACATG
843728 CATACATG
1 CATACATG
*
843736 CATACACG
1 CATACATG
843744 CATACATG
1 CATACATG
843752 CATACAT
1 CATACAT
843759 ACTATAATAT
Statistics
Matches: 145, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 145 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.21
Consensus pattern (8 bp):
CATACATG
Found at i:843870 original size:18 final size:18
Alignment explanation
Indices: 843847--844060 Score: 117
Period size: 18 Copynumber: 11.6 Consensus size: 18
843837 TCACATAAAC
*
843847 ATAATATATATATAGCTT
1 ATAATATATATATAGTTT
843865 ATAATA-ATTATATAGTTT
1 ATAATATA-TATATAGTTT
*
843883 ATAATATAAATATAGTTT
1 ATAATATATATATAGTTT
* *
843901 ACAATTTTATATACATAGTTT
1 ATAA---TATATATATAGTTT
*
843922 ATATATATATAGTGCACATAG-AT
1 ATA-ATATATA-T----ATAGTTT
*
843945 ATAATTTTTATATATAGTTT
1 ATAA--TATATATATAGTTT
843965 ATAATA-ATTATATAGTTT
1 ATAATATA-TATATAGTTT
*
843983 ATAATATAAATATAG-TT
1 ATAATATATATATAGTTT
*
844000 AT-ATATA-ATTTTA-TATT
1 ATAATATATA-TATAGT-TT
*
844017 AT-ATATATATATA-TAT
1 ATAATATATATATAGTTT
*
844033 ATAGATATATATATA-TAT
1 ATA-ATATATATATAGTTT
844051 AT-ATATATAT
1 ATAATATATAT
844061 TATTTTTTTC
Statistics
Matches: 159, Mismatches: 15, Indels: 46
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.01
16 19 0.12
17 19 0.12
18 73 0.46
19 12 0.08
20 5 0.03
21 14 0.09
22 2 0.01
23 5 0.03
24 9 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (18 bp):
ATAATATATATATAGTTT
Found at i:843960 original size:2 final size:2
Alignment explanation
Indices: 843953--844060 Score: 88
Period size: 2 Copynumber: 56.5 Consensus size: 2
843943 ATATAATTTT
* * *
843953 TA TA TA TA GTT TA TA -A TA -A T- TA TA TA GTT TA TA -A TA TA AA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
843993 TA TA GT- TA TA TA TA -A T- TT TA TA T- 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
*
844032 TA TA GA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
844061 TATTTTTTTC
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
1 8 0.09
2 75 0.87
3 3 0.03
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:843974 original size:100 final size:101
Alignment explanation
Indices: 843827--844036 Score: 293
Period size: 100 Copynumber: 2.1 Consensus size: 101
843817 ATAAATAGTT
*
843827 TATATATAGTTCACATAAACATAATATATATATAGCTTATAATAATTATATAGTTTATAATATAA
1 TATATATAGTGCACATAAACATAATATATATATAGCTTATAATAATTATATAGTTTATAATATAA
*
843892 ATATAG-T-T-TACAATTTTATA-TACATAGTTTATA
66 ATATAGTTATATACAATTTTATATTACATA-TATATA
* * * *
843925 TATATATAGTGCACATAGATATAATTTTTATATATAGTTTATAATAATTATATAGTTTATAATAT
1 TATATATAGTGCACATAAACATAA--TATATATATAGCTTATAATAATTATATAGTTTATAATAT
* *
843990 AAATATAGTTATATATAATTTTATATTATATATATATA
64 AAATATAGTTATATACAATTTTATATTACATATATATA
844028 TATATATAG
1 TATATATAG
844037 ATATATATAT
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
98 21 0.21
100 45 0.46
101 1 0.01
102 1 0.01
103 25 0.26
104 5 0.05
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (101 bp):
TATATATAGTGCACATAAACATAATATATATATAGCTTATAATAATTATATAGTTTATAATATAA
ATATAGTTATATACAATTTTATATTACATATATATA
Found at i:844012 original size:29 final size:29
Alignment explanation
Indices: 843980--844060 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
843970 AATTATATAG
843980 TTTATAATATAAATATAGT-TATATATAAT
1 TTTATAATATAAATATA-TATATATATAAT
* *
844009 TTTATATTATATATATATATATATATAGA-
1 TTTATAATATAAATATATATATATATA-AT
* *
844038 TATAT-ATATATATATATATATAT
1 TTTATAATATAAATATATATATAT
844061 TATTTTTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.39
29 27 0.59
30 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
TTTATAATATAAATATATATATATATAAT
Found at i:845440 original size:2 final size:2
Alignment explanation
Indices: 845433--845461 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
845423 TCCTAAAATT
845433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
845462 TAGATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:845539 original size:26 final size:25
Alignment explanation
Indices: 845508--845590 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
845498 TTACTATTTC
845508 AAATTTTATAAGTTCTCTTATTCTT
1 AAATTTTATAAGTTCTCTTATTCTT
* *
845533 AATATTTTATTAA-TT-T-ATATT-TC
1 AA-ATTTTA-TAAGTTCTCTTATTCTT
845556 AAATTTTATAAGTTCTCTTATTCTT
1 AAATTTTATAAGTTCTCTTATTCTT
845581 AAAATTTTAT
1 -AAATTTTAT
845591 TAATTTATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
21 3 0.06
22 8 0.17
23 4 0.09
24 8 0.17
25 4 0.09
26 17 0.36
27 3 0.06
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (25 bp):
AAATTTTATAAGTTCTCTTATTCTT
Found at i:845550 original size:22 final size:21
Alignment explanation
Indices: 845525--845599 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 21
845515 ATAAGTTCTC
845525 TTATTCTTAATATTTTATTAAT
1 TTATTCTTAA-ATTTTATTAAT
845547 TTATAT-TTCAAATTTTA-TAAGTTCT
1 TTAT-TCTT-AAATTTTATTAA----T
845572 CTTATTCTTAAAATTTTATTAAT
1 -TTATTCTT-AAATTTTATTAAT
845595 TTATT
1 TTATT
845600 TTTTTAGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 18
0.69 0.02 0.29
Matches are distributed among these distances:
21 3 0.07
22 17 0.40
23 4 0.09
25 2 0.05
26 14 0.33
27 3 0.07
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (21 bp):
TTATTCTTAAATTTTATTAAT
Found at i:845558 original size:48 final size:48
Alignment explanation
Indices: 845497--845598 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
845487 AAAATATATT
*
845497 TTTACTATTTCAAATTTTATAAGTTCTCTTATTCTTAATATTTTATTAA
1 TTTA-TATTTCAAATTTTATAAGTTCTCTTATTCTTAAAATTTTATTAA
845546 TTTATATTTCAAATTTTATAAGTTCTCTTATTCTTAAAATTTTATTAA
1 TTTATATTTCAAATTTTATAAGTTCTCTTATTCTTAAAATTTTATTAA
845594 TTTAT
1 TTTAT
845599 TTTTTTAGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 48 0.92
49 4 0.08
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (48 bp):
TTTATATTTCAAATTTTATAAGTTCTCTTATTCTTAAAATTTTATTAA
Found at i:846811 original size:2 final size:2
Alignment explanation
Indices: 846804--846852 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
846794 AACATATTAC
846804 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
846846 AT AT AT A
1 AT AT AT A
846853 CAAAAAGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:851167 original size:35 final size:35
Alignment explanation
Indices: 851128--851200 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
851118 GAAAGCCAAG
* *
851128 GCACACAGTGAGGATCATCAGAAAATGGCGATGAA
1 GCACACAGTGAGAATCATCAGAAAATGGAGATGAA
851163 GCACACAGTGAGAATCATCAGAAAATGGAGATGAA
1 GCACACAGTGAGAATCATCAGAAAATGGAGATGAA
851198 GCA
1 GCA
851201 GCTTCTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.14
Consensus pattern (35 bp):
GCACACAGTGAGAATCATCAGAAAATGGAGATGAA
Found at i:856740 original size:41 final size:42
Alignment explanation
Indices: 856695--856793 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 42
856685 TCTAGGAGAA
*
856695 GATTATGAGTTAGTAATCACCTTACCTTC-ATATAAAAAAAG
1 GATTACGAGTTAGTAATCACCTTACCTTCAATATAAAAAAAG
856736 GATTACGAGTTAGTAATCACCTTACCTTCATATATAAAAAAAG
1 GATTACGAGTTAGTAATCACCTTACCTTCA-ATATAAAAAAAG
856779 GATTACGAGTTAGTA
1 GATTACGAGTTAGTA
856794 GGTAGGCAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 28 0.51
43 27 0.49
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (42 bp):
GATTACGAGTTAGTAATCACCTTACCTTCAATATAAAAAAAG
Found at i:861303 original size:28 final size:28
Alignment explanation
Indices: 861271--861338 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
861261 CCTAAACCTG
* * *
861271 AACCCGTCCTGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACCTAAAAA
861299 AACCCGACCCGAATATCACACCTAAAAA
1 AACCCGACCCGAATATCACACCTAAAAA
*
861327 ATCCCGACCCGA
1 AACCCGACCCGA
861339 CCCGAACCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.41, C:0.35, G:0.09, T:0.15
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACCTAAAAA
Found at i:862670 original size:21 final size:19
Alignment explanation
Indices: 862632--862676 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
862622 TTATTTTTAT
*
862632 GTTAGTATTTTTTTAAATA
1 GTTATTATTTTTTTAAATA
862651 GTTATTATTTTATATTAAATA
1 GTTATTATTTT-T-TTAAATA
*
862672 ATTAT
1 GTTAT
862677 ATAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
GTTATTATTTTTTTAAATA
Found at i:862695 original size:19 final size:19
Alignment explanation
Indices: 862673--862728 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
862663 TATTAAATAA
*
862673 TTATATAAATATTATTTTT
1 TTATATAAATATTATTTAT
*
862692 TTAT-TAAA-A-TA-ATAT
1 TTATATAAATATTATTTAT
*
862707 TTATATAATTATTATTTAT
1 TTATATAAATATTATTTAT
862726 TTA
1 TTA
862729 GAATTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 6 0.21
16 5 0.17
17 2 0.07
18 6 0.21
19 10 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATAAATATTATTTAT
Found at i:862894 original size:17 final size:16
Alignment explanation
Indices: 862872--862925 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
862862 TAATGTTAAT
862872 ATTTAAATTTATTTTTA
1 ATTTAAA-TTATTTTTA
* *
862889 ATTTAAAGTTATTATGA
1 ATTTAAA-TTATTTTTA
* *
862906 ATTTATATTAATTTTA
1 ATTTAAATTATTTTTA
862922 ATTT
1 ATTT
862926 TTTTATAATG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTTAAATTATTTTTA
Found at i:864481 original size:21 final size:21
Alignment explanation
Indices: 864452--864498 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
864442 CAGGGGTACG
* *
864452 TGCCCAGCCCTCCACTTCATA
1 TGCCAAGCCCACCACTTCATA
*
864473 TGCCAAGCCCACCAGTTCATA
1 TGCCAAGCCCACCACTTCATA
864494 TGCCA
1 TGCCA
864499 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (21 bp):
TGCCAAGCCCACCACTTCATA
Found at i:864532 original size:21 final size:21
Alignment explanation
Indices: 864506--864616 Score: 111
Period size: 21 Copynumber: 5.3 Consensus size: 21
864496 CCATCTCCGC
*
864506 AGGGTTACATTCCGAGCCCGT
1 AGGGTTACATTCCTAGCCCGT
*
864527 AGGGTTATATTCCTAGCCCGCT
1 AGGGTTACATTCCTAGCCCG-T
**
864549 A-GGTTACATT-CTGAGCCCAC
1 AGGGTTACATTCCT-AGCCCGT
864569 AGGGTTACATTCCTAGCCCGT
1 AGGGTTACATTCCTAGCCCGT
* * *
864590 CA-AGTTACATGCCTAGCCCGC
1 -AGGGTTACATTCCTAGCCCGT
864611 AGGGTT
1 AGGGTT
864617 TTATACCATA
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
20 4 0.05
21 64 0.88
22 5 0.07
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (21 bp):
AGGGTTACATTCCTAGCCCGT
Found at i:864555 original size:42 final size:42
Alignment explanation
Indices: 864508--864616 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
864498 ATCTCCGCAG
* *
864508 GGTTACATTCCGAGCCCGTAGGGTTATATTCCTAGCCCG-CTA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGTC-A
* *
864550 GGTTACATTCTGAGCCCACAGGGTTACATTCCTAGCCCGTCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGTCA
* * *
864592 AGTTACATGCCTAGCCCGCAGGGTT
1 GGTTACATTCCGAGCCCGCAGGGTT
864617 TTATACCATA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (42 bp):
GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGTCA
Found at i:865242 original size:34 final size:34
Alignment explanation
Indices: 865137--865243 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
865127 ATAAATGTTT
* *
865137 TTAAAATACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
865171 TAAAAATAAAAATAATATTATTAGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * * *
865205 TTAAAATATAAATTATAGTATTCGGAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
865239 TTAAA
1 TTAAA
865244 TTTCAACTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:866019 original size:128 final size:128
Alignment explanation
Indices: 865603--866072 Score: 863
Period size: 127 Copynumber: 3.7 Consensus size: 128
865593 ATCTATAGTT
*
865603 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGAC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
*
865668 GCGCCCCCGGGAACGCGCCTTCAAGT-TCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
66 GCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
*
865730 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
*
865795 GC-CCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAATAGTGTC
66 GCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
*
865857 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAATGC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
865922 GCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
66 GCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
865985 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
* *
866050 GCCCCCCCGGGAACACGCCTTCA
66 GCGCCCCCGGGAACGCGCCTTCA
866073 TGTGAATAGT
Statistics
Matches: 331, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
126 23 0.07
127 164 0.50
128 144 0.44
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (128 bp):
CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTC
Found at i:866053 original size:255 final size:255
Alignment explanation
Indices: 865603--866072 Score: 881
Period size: 255 Copynumber: 1.8 Consensus size: 255
865593 ATCTATAGTT
865603 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGAC
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGAC
*
865668 GCGCCCCCGGGAACGCGCCTTCAAGTTCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCC
66 GCGCCCCCGGGAACGCGCCTTCAAGTCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCC
*
865733 GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTTGACAAAATAATGGAAGGCG-C
131 GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCC
*
865797 CCCCCGGGAACGCGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAATAGTGTC
196 CCCCCGGGAACACGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAATAGTGTC
865857 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAATG-
1 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAA-GA
865921 CGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCC
65 CGCGCCCCCGGGAACGCGCCTTCAAGT-CCCTGAGAAATAATAGGTACTGATATGAATAGTGTCC
865986 CCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCG
129 CCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCG
866051 CCCCCCCGGGAACACGCCTTCA
194 CCCCCCCGGGAACACGCCTTCA
866073 TGTGAATAGT
Statistics
Matches: 210, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
254 89 0.42
255 101 0.48
256 20 0.10
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (255 bp):
CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGAC
GCGCCCCCGGGAACGCGCCTTCAAGTCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCC
GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCC
CCCCCGGGAACACGCCTTCAAGTCCCATGAGAAATAATAGGTACTGATATGAATAGTGTC
Found at i:871114 original size:2 final size:2
Alignment explanation
Indices: 871109--871137 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
871099 AAATAAAAAT
871109 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
871138 ATTTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:879587 original size:2 final size:2
Alignment explanation
Indices: 879582--879647 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
879572 TATATATATA
879582 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
879624 TG TG TG TG TG TG TG TA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG
879648 AGTAATTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:882896 original size:23 final size:23
Alignment explanation
Indices: 882878--882938 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
882868 CTCGTATAAA
882878 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
882901 TGCACCGAAGTGCCAAGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
882924 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
882939 TATAAGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:899481 original size:23 final size:23
Alignment explanation
Indices: 899463--899523 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
899453 CTCGTATAAA
899463 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
899486 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
899509 TGCACC-ATAGTGCCA
1 TGCACCGA-AGTGCCA
899524 TATAAGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:904158 original size:29 final size:29
Alignment explanation
Indices: 904125--904182 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
904115 TTATGAAATG
* *
904125 AAACGTTAGGCACCAAATTAGAACAAAAA
1 AAACGTTAGACACCAAACTAGAACAAAAA
*
904154 AAACGTTAGACACCAAACTAGAACCAAAA
1 AAACGTTAGACACCAAACTAGAACAAAAA
904183 GCATACGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (29 bp):
AAACGTTAGACACCAAACTAGAACAAAAA
Found at i:905249 original size:61 final size:60
Alignment explanation
Indices: 905135--905250 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 60
905125 GTTTTCAGAT
* * * **
905135 TCGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTAGTAAA
1 TCGCAACGAGATTCTGACTATCGCAATACGATTT-CCAAATTCGCACTGCGATTTAGTAAA
905196 TCGCAACGAGATTCTGACTATCGCAATACTGAATTT-CAAATTCGCAACT-CGATTT
1 TCGCAACGAGATTCTGACTATCGCAATAC-G-ATTTCCAAATTCGC-ACTGCGATTT
905251 CTGAATTCGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
61 41 0.87
62 2 0.04
63 4 0.09
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (60 bp):
TCGCAACGAGATTCTGACTATCGCAATACGATTTCCAAATTCGCACTGCGATTTAGTAAA
Found at i:906107 original size:23 final size:24
Alignment explanation
Indices: 906062--906114 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
906052 GTATTTGAAA
906062 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACCCGAAC
* *
906086 TTTGATCTTGGTC-ATACTCGAAT
1 TTTGATCTTGGTCAATACCCGAAC
906109 TTTGAT
1 TTTGAT
906115 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGAAC
Found at i:908672 original size:33 final size:34
Alignment explanation
Indices: 908619--908708 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 34
908609 ATGTCTATCG
* ** *
908619 CAACGCGGAAATTACTATCGCAACGAGAGAATCA
1 CAACGCGGAAATGAAAATCGCAACGAGAAAATCA
* * *
908653 CAATGC-GAAATGAAAATCGCAACGTGAAAATCG
1 CAACGCGGAAATGAAAATCGCAACGAGAAAATCA
**
908686 CAACGCGGAAATGACTATCGCAA
1 CAACGCGGAAATGAAAATCGCAA
908709 TACGAAATGA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
33 26 0.58
34 19 0.42
ACGTcount: A:0.42, C:0.22, G:0.21, T:0.14
Consensus pattern (34 bp):
CAACGCGGAAATGAAAATCGCAACGAGAAAATCA
Found at i:908682 original size:14 final size:14
Alignment explanation
Indices: 908663--908690 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
908653 CAATGCGAAA
908663 TGAAAATCGCAACG
1 TGAAAATCGCAACG
908677 TGAAAATCGCAACG
1 TGAAAATCGCAACG
908691 CGGAAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:908697 original size:14 final size:14
Alignment explanation
Indices: 908664--908697 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
908654 AATGCGAAAT
*
908664 GAAAATCGCAACGT
1 GAAAATCGCAACGC
908678 GAAAATCGCAACGC
1 GAAAATCGCAACGC
*
908692 GGAAAT
1 GAAAAT
908698 GACTATCGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:908717 original size:53 final size:52
Alignment explanation
Indices: 908648--908760 Score: 145
Period size: 53 Copynumber: 2.2 Consensus size: 52
908638 GCAACGAGAG
* * * *
908648 AATCACAATGCGAAATGAAAATCGCAACGTGAAAATCGCAACGCGGAAATGAC
1 AATCGCAATACGAAATGAAAATCGCAACGAGAAAATCGCAACGC-GAAATGAA
* * * *
908701 TATCGCAATACGAAATGAAAATTGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGAA
908753 AATCGCAA
1 AATCGCAA
908761 CGAGGGAATC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
52 14 0.27
53 37 0.73
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAATACGAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGAA
Found at i:908741 original size:33 final size:33
Alignment explanation
Indices: 908702--908795 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
908692 GGAAATGACT
*
908702 ATCGCAATACGAAATGAAAATTGCAACGAGAGA
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
* *
908735 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGA
908768 ATCGCAA-AGCGAAATGAAAATCGCAACG
1 ATCGCAATA-CGAAATGAAAATCGCAACG
908796 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATACGAAATGAAAATCGCAACGAGAGA
Found at i:908758 original size:19 final size:18
Alignment explanation
Indices: 908657--908799 Score: 85
Period size: 19 Copynumber: 8.3 Consensus size: 18
908647 GAATCACAAT
908657 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
908675 -CG---TGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
**
908689 CGCGGAAATGACTATCGCAA
1 -GC-GAAATGAAAATCGCAA
* *
908709 TACGAAATGAAAATTGCAA
1 -GCGAAATGAAAATCGCAA
*
908728 -CG--A-GAGAATCGCAA
1 GCGAAATGAAAATCGCAA
908742 TGCGAAATGAAAATCGCAA
1 -GCGAAATGAAAATCGCAA
**
908761 -CG--A-GGGAATCGCAAA
1 GCGAAATGAAAATCGC-AA
908776 GCGAAATGAAAATCGCAA
1 GCGAAATGAAAATCGCAA
908794 CGCGAA
1 -GCGAA
908800 TTTAGTTTCG
Statistics
Matches: 94, Mismatches: 14, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
14 28 0.30
15 4 0.04
16 5 0.05
17 7 0.07
18 4 0.04
19 35 0.37
20 11 0.12
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (18 bp):
GCGAAATGAAAATCGCAA
Found at i:908830 original size:19 final size:19
Alignment explanation
Indices: 908795--908857 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
908785 AAATCGCAAC
*
908795 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
908814 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
908833 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCGTT
908852 GCGATT
1 GCGATT
908858 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 40 0.98
20 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:908888 original size:19 final size:19
Alignment explanation
Indices: 908805--908889 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
908795 GCGAATTTAG
*
908805 TTTCGCGTTGCGATTTT-A
1 TTTCGCATTGCGATTTTCA
*
908823 GTTTCGCGTTGCGATTTTCA
1 -TTTCGCATTGCGATTTTCA
908843 TTTCGCATTGCGA--TTC-
1 TTTCGCATTGCGATTTTCA
*
908859 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
908876 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
908890 AATAATTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 36 0.63
20 1 0.02
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:909015 original size:14 final size:14
Alignment explanation
Indices: 908996--909032 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
908986 CATCAATTAA
908996 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
909010 ACAAATCATCTTTT
1 ACAAATCAACTTTT
909024 ACAAATCAA
1 ACAAATCAA
909033 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:910398 original size:42 final size:42
Alignment explanation
Indices: 910352--910431 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
910342 CGATGACAGT
* *
910352 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
910394 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGA
910432 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:910955 original size:21 final size:20
Alignment explanation
Indices: 910931--911003 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 20
910921 GTGACGGGAT
910931 AGGTGATGGCTCTGGTTGTAG
1 AGGTGATGGCTCTGG-TGTAG
* * *
910952 AGGTGTATAG-TCGGGTCG-ATC
1 AGGTG-ATGGCTCTGGT-GTA-G
910973 AGGTGATGGCTCTGG-GT-G
1 AGGTGATGGCTCTGGTGTAG
910991 AGGTGATGGCTCT
1 AGGTGATGGCTCT
911004 CGAAGTGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 13 0.32
19 1 0.02
20 5 0.12
21 19 0.46
22 3 0.07
ACGTcount: A:0.15, C:0.12, G:0.42, T:0.30
Consensus pattern (20 bp):
AGGTGATGGCTCTGGTGTAG
Found at i:912229 original size:20 final size:20
Alignment explanation
Indices: 912206--912261 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
912196 TGAAATGAAA
912206 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
912226 ATCGCAACGCGTA-AATGACT
1 ATCGCAACGAG-AGAATGACT
*
912246 ATCACAACGAGAGAAT
1 ATCGCAACGAGAGAAT
912262 CGCAACGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:912242 original size:40 final size:34
Alignment explanation
Indices: 912197--912287 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 34
912187 TCTTTTGATT
912197 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACG-GAG-A-GA--ATCGCAACGC
** *
912236 GTAAATGACTATCACAAC-GAGAGAATCGCAACGC
1 G-AAATGAAAATCGCAACGGAGAGAATCGCAACGC
912270 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
912288 CGAAATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
33 13 0.30
34 11 0.25
36 2 0.05
37 1 0.02
38 3 0.07
39 1 0.02
40 13 0.30
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (34 bp):
GAAATGAAAATCGCAACGGAGAGAATCGCAACGC
Found at i:912283 original size:19 final size:19
Alignment explanation
Indices: 912197--912342 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
912187 TCTTTTGATT
*
912197 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
912216 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
912236 GTAAATGACTATCACAA--C
1 G-AAATGAAAATCGCAACGC
*
912254 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
912270 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
912289 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
912306 G--A-GAGAATCGTAACGC
1 GAAATGAAAATCGCAACGC
*
912322 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
912341 GA
1 GA
912343 TTTTGGTTTC
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
14 16 0.16
15 2 0.02
16 4 0.04
17 2 0.02
18 4 0.04
19 43 0.43
20 28 0.28
21 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:912321 original size:52 final size:52
Alignment explanation
Indices: 912205--912342 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 52
912195 TTGAAATGAA
* ** **
912205 AATCGCAACGAGAGAATGACTATCGCAACGCGTAAATGACTATCACAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGCG-AAATGAAAATCACAACGAGAG
* *
912259 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATTAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAG
* *
912311 AATCGTAACGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGA
912343 TTTTGGTTTC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
52 47 0.63
53 16 0.21
54 12 0.16
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAG
Done.