genome.fa.s1497.2.7.7.80.10.50.1000.6.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: VEPZ01001497.1 Hibiscus syriacus cultivar Beakdansim tig00002919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1780709

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 861 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)
1199703--1200164	76	6.1	76	96	0	843	34	20	19	25	1.96
1200809--1200885	22	3.5	22	89	0	109	40	12	12	33	1.82
1205342--1205380	18	2.2	18	85	0	51	2	20	0	76	0.90
1205401--1205469	1	69.0	1	73	0	57	0	13	0	86	0.56
1205351--1205513	7	21.4	7	83	14	191	3	18	0	78	0.88
1209960--1210015	12	4.2	13	80	15	53	75	0	1	23	0.90
1209957--1210016	10	5.7	11	73	15	56	73	0	1	25	0.93
1210654--1210693	16	2.4	18	80	16	50	47	0	0	52	1.00
1210854--1210884	2	16.0	2	93	6	55	48	0	0	51	1.00
1212407--1212475	3	22.7	3	85	8	95	62	0	0	37	0.96
1214405--1214444	19	2.1	19	95	0	71	60	7	20	12	1.56
1231268--1231310	22	2.0	22	86	9	61	53	2	4	39	1.34
1233956--1234088	66	2.0	66	100	0	266	47	13	9	30	1.74
1234178--1234227	2	25.0	2	100	0	100	50	0	0	50	1.00
1234249--1234355	39	2.8	39	84	4	146	35	15	0	48	1.46
1234257--1234370	39	2.9	38	83	5	138	34	16	0	48	1.53
1236085--1236173	29	3.1	29	96	0	169	14	31	35	17	1.91
1236195--1236231	18	2.1	18	100	0	74	37	24	21	16	1.93
1236213--1236304	44	2.1	44	100	0	184	27	14	42	16	1.86
1236276--1236407	15	8.1	15	69	19	86	21	7	53	18	1.69
1236263--1236392	65	1.9	68	89	7	203	23	9	50	17	1.75
1236263--1236361	34	3.0	33	84	13	141	24	9	50	16	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236874--1236922	21	2.3	21	82	3	62	32	0	16	51	1.45
1236899--1236949	25	2.0	25	92	0	84	31	0	13	54	1.39
1237758--1237816	26	2.3	25	75	18	66	47	8	3	40	1.51
1240691--1241286	26	24.2	26	77	15	461	43	2	10	44	1.51
1240636--1241151	98	5.3	98	90	5	400	43	2	10	44	1.51
1240814--1241275	98	4.7	98	91	6	692	42	2	10	44	1.50
1240964--1241203	124	1.9	120	83	9	129	43	2	10	44	1.50
1241010--1241278	124	2.2	124	95	1	486	43	2	10	44	1.51
1240721--1241275	98	5.7	94	88	7	608	43	2	10	44	1.50
1241486--1241518	17	1.9	17	93	0	57	36	6	12	45	1.66
1243880--1243970	45	2.0	47	87	8	134	46	12	0	41	1.41
1243901--1244039	41	3.3	40	75	14	93	47	11	0	40	1.45
1244203--1244234	17	1.9	16	93	6	55	0	37	0	62	0.95
1244176--1244233	4	14.0	4	75	7	53	1	34	0	63	1.04
1244176--1244233	25	2.3	25	96	0	107	1	34	0	63	1.04
1244295--1244346	25	2.1	25	92	0	86	28	32	9	28	1.89
1244467--1244513	23	2.0	23	100	0	94	21	8	44	25	1.80
1244500--1244531	13	2.5	13	94	0	55	31	3	46	18	1.65
1244532--1244640	29	3.8	29	91	2	166	22	30	32	15	1.95
1244635--1244798	43	3.9	43	72	15	178	18	34	24	23	1.96
1244652--1244829	84	2.1	84	96	0	329	17	31	27	23	1.97
1244805--1244917	35	3.2	35	100	0	226	19	20	33	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246039--1246082	18	2.4	18	85	10	63	38	4	4	52	1.42
1246763--1246851	29	3.1	29	95	0	160	15	32	34	16	1.91
1246844--1247007	81	2.0	81	100	0	328	26	17	37	19	1.93
1247526--1247569	21	2.1	21	91	0	70	29	0	15	54	1.42
1247546--1247599	28	1.9	28	96	0	99	29	0	12	57	1.36
1247570--1247668	48	2.1	47	83	10	134	42	1	7	49	1.36
1248026--1248070	21	2.2	21	84	4	56	35	0	8	55	1.31
1248331--1248389	26	2.3	25	75	18	66	47	8	3	40	1.51
1251273--1251699	26	17.2	26	78	14	334	43	2	10	43	1.52
1251218--1251735	124	4.2	124	95	0	925	43	2	10	44	1.50
1251273--1251616	150	2.3	148	84	8	421	44	2	10	42	1.52
1251704--1251777	38	1.9	38	83	5	96	45	4	5	44	1.45
1251959--1251991	17	1.9	17	93	0	57	36	6	12	45	1.66
1251905--1251984	24	3.3	23	71	21	67	38	3	8	48	1.52
1254135--1254165	15	2.1	14	94	5	53	54	6	0	38	1.26
1254140--1254186	16	3.0	16	84	9	53	59	10	0	29	1.31
1254347--1254439	46	2.0	46	86	12	129	48	11	0	39	1.40
1254419--1254507	41	2.2	40	78	8	90	46	10	1	42	1.45
1254642--1254694	21	2.5	21	96	0	97	1	35	0	62	1.06
1254665--1254696	17	1.9	16	93	6	55	0	37	0	62	0.95
1254698--1254743	23	2.0	23	100	0	92	8	39	8	43	1.66
1254861--1254916	27	2.1	27	100	0	112	25	21	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254989--1255097	29	3.8	29	95	2	184	22	32	31	14	1.94
1255140--1255174	13	2.8	13	86	4	54	14	37	20	28	1.91
1258240--1258398	85	1.9	83	82	7	196	26	24	15	33	1.95
1270842--1270984	62	2.3	60	85	3	187	39	14	13	32	1.85
1280567--1280612	2	23.0	2	100	0	92	50	0	0	50	1.00
1281194--1281233	2	20.5	2	89	5	64	52	0	0	47	1.00
1281428--1281783	171	2.1	171	98	1	687	43	14	3	37	1.64
1282650--1282691	22	1.9	22	85	9	59	35	7	7	50	1.57
1293247--1293322	38	2.0	38	100	0	152	10	21	15	52	1.72
1297985--1298115	60	2.2	61	80	6	151	35	28	3	32	1.75
1298770--1298796	8	3.4	8	100	0	54	62	0	0	37	0.95
1304278--1304350	31	2.3	31	88	2	101	46	6	2	43	1.44
1308075--1308120	19	2.3	20	96	3	85	76	6	4	13	1.14
1308001--1308218	116	1.9	117	94	0	384	47	9	4	38	1.56
1308121--1308163	21	2.0	21	82	8	52	30	9	4	55	1.52
1308095--1308306	99	2.2	97	92	2	345	47	8	4	39	1.55
1314926--1314999	38	2.0	37	85	12	100	48	4	0	47	1.20
1317675--1317699	12	2.1	12	100	0	50	0	16	0	84	0.63
1318253--1318303	9	5.8	9	74	21	54	45	0	1	52	1.12
1318299--1318446	3	49.7	3	89	1	226	61	0	3	35	1.13
1318779--1319662	113	7.8	113	96	0	1572	28	19	14	37	1.91
1320396--1321026	83	7.6	83	97	0	1151	35	21	13	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322164--1322238	11	6.5	11	80	11	80	2	14	0	82	0.77
1322163--1322236	6	10.7	7	76	17	59	2	14	0	82	0.78
1332837--1332873	15	2.7	15	88	12	53	62	8	5	24	1.44
1332910--1332934	13	1.9	13	100	0	50	72	0	12	16	1.13
1334976--1335026	9	5.8	9	74	21	54	45	0	1	52	1.12
1335022--1335154	3	44.7	3	91	1	214	62	0	3	34	1.11
1339883--1339907	12	2.1	12	100	0	50	52	8	16	24	1.70
1342673--1342738	27	2.4	27	100	0	132	46	3	9	40	1.51
1344037--1344121	29	2.9	29	98	0	161	10	37	31	20	1.86
1344125--1344193	33	2.1	33	89	5	104	13	40	20	26	1.88
1344191--1344223	14	2.4	14	94	0	57	6	30	39	24	1.79
1344210--1344246	10	3.7	10	86	13	58	10	27	37	24	1.88
1344210--1344247	20	1.9	20	100	0	76	10	28	36	23	1.88
1351374--1351418	22	2.0	22	86	0	63	55	0	11	33	1.35
1351867--1351900	8	4.4	8	85	7	52	26	0	0	73	0.83
1351864--1351901	15	2.5	15	91	4	58	26	0	0	73	0.83
1351868--1351917	20	2.5	20	87	12	75	24	0	0	76	0.80
1351867--1351910	23	1.9	23	86	9	63	27	0	0	72	0.85
1351856--1351927	28	2.6	28	78	6	76	27	1	1	69	1.05
1352178--1352228	8	6.8	8	80	13	63	70	0	0	29	0.87
1352173--1352232	13	4.8	13	78	15	72	71	0	0	28	0.86
1352169--1352232	21	3.3	21	77	16	75	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352169--1352228	16	3.9	16	76	12	54	73	0	0	26	0.84
1356397--1356427	2	15.5	2	100	0	62	48	0	51	0	1.00
1375341--1375370	2	15.0	2	100	0	60	50	0	0	50	1.00
1375623--1375655	2	16.5	2	100	0	66	51	0	0	48	1.00
1383191--1383231	19	2.2	18	86	4	55	26	2	4	65	1.25
1386965--1386996	2	16.0	2	100	0	64	50	0	0	50	1.00
1405136--1405222	35	2.5	34	78	12	88	56	10	6	26	1.58
1406877--1407209	111	3.0	112	94	3	593	45	10	7	36	1.68
1407335--1407374	10	3.8	11	87	12	50	42	0	25	32	1.55
1407497--1407613	48	2.4	47	77	5	117	24	25	32	17	1.96

Tables:   1   2   3   4   5   6   7   8