genome.fa.s8656.2.7.7.80.10.50.1000.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456495

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1378 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247879--1247906	14	2.0	14	100	0	56	50	7	21	21	1.72
1256468--1256492	11	2.3	11	100	0	50	16	52	16	16	1.76
1259785--1259816	15	2.1	16	94	5	57	6	25	18	50	1.70
1260564--1260595	16	2.0	16	93	0	55	34	25	6	34	1.81
1260952--1260976	11	2.3	11	100	0	50	16	52	16	16	1.76
1263436--1263764	160	2.1	158	97	1	624	37	11	14	36	1.83
1266520--1266713	80	2.4	80	95	0	343	31	19	17	31	1.95
1266745--1267784	217	4.8	217	92	1	1681	31	19	15	33	1.92
1267132--1267238	43	2.6	41	72	11	108	29	19	21	28	1.98
1267788--1267923	34	3.9	33	86	5	173	20	22	22	35	1.96
1267788--1267923	68	2.0	69	86	5	195	20	22	22	35	1.96
1274386--1274421	6	6.0	6	93	0	54	44	16	16	22	1.86
1274387--1274421	18	1.9	18	94	0	61	42	17	17	22	1.88
1274668--1274743	21	3.6	21	92	0	134	18	14	21	46	1.84
1286871--1286914	22	2.0	22	82	13	54	45	0	9	45	1.35
1288859--1288892	13	2.4	15	90	9	54	50	17	0	32	1.47
1290657--1290702	16	2.9	16	77	3	58	63	0	0	36	0.95
1291633--1291669	14	2.6	15	87	8	51	0	13	13	72	1.11
1291628--1291675	21	2.3	21	81	0	60	2	12	18	66	1.33
1292069--1292145	3	25.0	3	82	12	86	62	0	0	37	0.96
1292372--1293041	113	6.0	113	88	1	877	30	18	14	36	1.91
1293875--1294109	83	2.8	83	91	1	371	37	22	12	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295250--1295373	1	124.0	1	73	0	104	0	12	0	87	0.55
1295250--1295366	9	13.2	9	85	5	150	0	12	0	87	0.55
1295250--1295376	11	11.8	11	83	12	124	0	13	0	86	0.57
1295250--1295376	32	4.3	31	83	14	160	0	13	0	86	0.57
1306694--1306737	16	2.8	16	75	3	54	63	0	0	36	0.95
1307674--1307710	14	2.6	15	87	8	51	0	13	13	72	1.11
1307669--1307716	21	2.3	21	81	0	60	2	12	18	66	1.33
1308131--1308188	5	11.8	5	76	20	52	65	0	0	34	0.93
1308133--1308181	14	3.6	14	81	10	57	65	0	0	34	0.93
1308123--1308181	3	19.7	3	77	16	52	62	0	0	37	0.95
1308123--1308191	30	2.5	28	78	17	74	63	0	0	36	0.94
1308146--1308191	14	3.1	14	82	17	58	67	0	0	32	0.91
1324719--1324770	26	2.0	26	84	0	68	40	0	3	55	1.18
1324856--1324889	2	17.5	2	93	6	61	50	0	0	50	1.00
1324820--1324928	53	2.1	52	87	6	157	45	1	7	44	1.42
1324874--1325177	36	8.2	37	87	8	369	46	3	7	42	1.49
1325168--1325242	27	2.8	25	84	11	87	46	0	6	46	1.29
1325090--1325243	64	2.4	63	79	10	163	45	2	7	44	1.44
1325246--1325295	3	16.7	3	85	8	66	28	0	2	70	0.99
1325684--1325730	23	2.0	25	83	8	62	59	31	2	6	1.34
1326477--1326501	9	2.8	9	100	0	50	12	0	8	80	0.92
1326480--1326524	23	2.0	23	86	0	63	8	4	4	82	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326485--1326530	23	2.0	23	82	0	56	8	10	2	78	1.05
1327608--1327647	21	1.9	21	89	0	62	7	22	5	65	1.38
1330558--1330754	99	2.0	99	88	2	297	34	14	17	33	1.90
1332357--1332582	85	2.7	85	80	2	231	37	18	16	27	1.92
1333430--1333477	20	2.4	20	100	0	96	39	31	10	18	1.85
1333537--1333831	20	14.6	20	78	8	226	39	25	17	17	1.92
1333537--1333828	40	7.2	40	81	5	286	39	25	17	17	1.92
1333537--1333828	121	2.4	121	83	6	317	39	25	17	17	1.92
1334361--1334452	20	4.6	20	75	9	89	52	18	15	14	1.75
1334478--1334615	52	2.6	52	88	2	186	12	21	21	44	1.85
1334478--1334623	19	8.1	19	75	17	132	12	21	20	45	1.84
1335883--1335955	21	3.7	20	72	15	62	31	41	12	15	1.84
1337927--1337962	14	2.6	14	95	0	63	33	0	22	44	1.53
1338073--1338153	19	4.5	19	72	22	68	46	20	19	12	1.82
1338101--1338163	19	3.3	19	86	4	83	42	23	17	15	1.88
1338163--1338362	33	5.8	33	80	9	231	12	22	20	45	1.83
1338161--1338369	105	2.0	106	88	2	314	12	22	20	44	1.85
1340879--1340932	24	2.2	24	93	0	90	40	20	18	20	1.91
1340879--1340946	24	2.8	24	84	0	64	38	20	17	23	1.93
1341778--1341831	19	2.8	19	100	0	108	24	25	22	27	2.00
1341775--1341840	19	3.5	19	89	0	87	22	22	22	31	1.98
1342146--1342177	2	16.5	2	93	6	57	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342066--1342214	51	3.0	51	88	7	225	44	0	7	47	1.36
1342165--1342466	35	8.5	35	82	14	279	45	3	5	44	1.45
1342446--1342534	9	9.2	10	78	10	64	35	0	2	61	1.08
1342437--1342487	26	2.0	25	84	7	66	37	0	5	56	1.23
1342491--1342536	3	15.7	3	95	4	85	32	0	0	67	0.91
1343029--1343067	19	2.1	19	100	0	78	20	20	38	20	1.94
1345163--1345193	5	6.0	5	96	3	53	38	0	0	61	0.96
1355073--1355127	25	2.2	25	90	0	83	1	10	45	41	1.50
1355185--1355249	3	21.7	3	78	6	69	60	1	3	35	1.22
1355429--1355998	133	4.3	134	85	3	718	28	16	21	32	1.96
1355451--1355998	267	2.1	267	85	2	744	28	16	22	32	1.96
1357142--1357205	26	2.4	25	80	12	65	7	12	0	79	0.92
1357150--1357214	26	2.5	25	76	11	69	7	12	0	80	0.91
1372350--1372402	3	18.0	3	96	3	99	66	0	0	33	0.92
1373189--1373233	22	2.0	22	100	0	90	51	8	13	26	1.70
1375880--1376009	35	3.7	34	85	9	102	32	6	18	42	1.77
1375916--1375976	21	3.2	21	65	29	64	31	4	21	42	1.74
1375908--1376026	35	3.3	37	88	8	174	31	5	19	43	1.72
1380515--1380575	21	3.2	21	65	29	64	31	4	21	42	1.74
1380507--1380625	35	3.3	37	88	8	174	31	5	19	43	1.72
1388207--1388262	3	19.3	3	89	7	89	35	0	1	62	1.06
1393746--1393797	12	4.6	12	83	13	65	78	7	9	3	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394841--1394904	32	2.0	32	87	6	94	28	15	26	29	1.96
1394994--1395122	61	2.1	61	84	1	161	33	13	13	39	1.84
1395244--1395353	39	2.8	40	81	2	132	25	38	13	22	1.91
1395364--1395482	51	2.4	48	80	6	123	29	27	15	26	1.96
1395598--1395707	43	2.7	40	78	7	114	23	32	17	26	1.96
1400093--1400124	16	2.0	16	100	0	64	31	25	6	37	1.81
1400269--1400326	31	2.0	31	83	10	77	25	13	1	58	1.45
1400336--1400398	15	4.3	15	78	6	67	28	11	9	50	1.69
1400322--1400398	14	5.4	14	75	6	64	31	11	7	49	1.68
1400322--1400390	29	2.4	29	95	0	129	31	11	7	49	1.66
1405589--1405627	20	1.9	21	89	5	62	84	0	10	5	0.76
1408761--1408800	21	1.9	21	94	0	71	17	17	37	27	1.92
1411373--1411450	20	3.8	20	89	5	102	21	21	32	24	1.98
1417291--1417330	21	1.9	21	100	0	80	17	20	37	25	1.94
1422854--1422993	27	4.6	29	74	21	128	80	0	17	2	0.82
1422857--1422983	17	7.2	19	71	17	87	81	0	16	2	0.80
1422854--1422992	7	19.6	7	76	15	92	80	0	17	2	0.81
1422940--1422990	1	51.0	1	84	0	66	92	0	7	0	0.40
1422854--1422991	54	2.6	54	80	7	158	80	0	17	2	0.81
1422874--1422983	9	12.1	9	75	11	91	81	0	16	1	0.77
1430571--1430622	23	2.3	23	82	0	68	19	32	19	28	1.96
1435137--1435197	32	1.9	32	100	0	122	34	13	11	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435821--1435890	36	1.9	36	85	5	97	32	18	14	34	1.91
1435857--1436101	44	5.6	44	71	4	181	31	18	18	31	1.95
1435861--1436102	132	1.8	132	90	1	387	30	18	19	31	1.96
1436335--1436410	28	3.3	22	69	22	57	67	1	22	9	1.27
1437050--1437089	9	4.7	9	77	22	50	55	0	2	42	1.13
1437151--1437199	2	24.5	2	80	15	57	48	2	4	44	1.33
1437974--1438008	2	17.5	2	100	0	70	48	0	51	0	1.00
1442672--1442719	17	2.8	17	87	3	69	85	0	4	10	0.73
1442670--1442713	10	4.4	10	80	8	54	86	0	2	11	0.66
1442671--1442721	18	2.8	19	82	8	70	84	0	3	11	0.75

Tables:   1   2   3   4   5   6   7   8   9   10   11   12