genome.fa.s8003.2.7.7.80.10.50.1000.6.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1618 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)
1091888--1091915	14	2.0	14	100	0	56	14	42	21	21	1.88
1091891--1091927	19	2.0	18	89	5	56	16	45	21	16	1.84
1091910--1091939	13	2.3	13	94	0	51	20	40	20	20	1.92
1091938--1092166	125	1.8	125	83	1	307	31	19	13	34	1.91
1094077--1094162	24	3.6	24	87	0	136	20	17	20	40	1.91
1094068--1094169	24	4.2	24	83	0	123	23	14	19	42	1.88
1099585--1099612	2	14.0	2	100	0	56	50	0	0	50	1.00
1100345--1100391	18	2.6	18	79	0	58	48	0	48	2	1.13
1101310--1101350	12	3.4	12	89	0	64	9	46	14	29	1.77
1101390--1101507	59	2.0	59	100	0	236	30	27	8	33	1.86
1104069--1104100	2	16.5	2	93	6	57	53	0	0	46	1.00
1105701--1105743	17	2.4	17	82	17	52	39	2	6	51	1.42
1105850--1105891	20	2.1	20	95	0	75	50	23	2	23	1.61
1110274--1110306	16	2.1	16	100	0	66	57	24	12	6	1.57
1110376--1110436	16	3.8	16	95	0	113	55	22	13	8	1.64
1111180--1111235	14	4.3	14	80	17	66	53	25	12	8	1.67
1111160--1111234	24	3.1	24	88	3	98	56	21	10	12	1.66
1113722--1113752	2	15.5	2	100	0	62	0	48	0	51	1.00
1123624--1123800	85	2.1	85	91	2	284	51	7	7	32	1.58
1125440--1125466	2	13.5	2	100	0	54	48	0	0	51	1.00
1126144--1126503	193	1.9	191	90	3	571	27	22	23	26	2.00
1126950--1127002	25	2.3	22	84	12	70	33	5	1	58	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128480--1128540	30	2.0	30	100	0	122	13	32	3	50	1.57
1134808--1134858	20	2.5	20	100	0	102	45	11	23	19	1.83
1135041--1135092	20	2.6	21	81	9	72	26	30	15	26	1.96
1135257--1135307	22	2.3	22	96	0	93	25	43	9	21	1.83
1135257--1135314	22	2.7	21	92	5	82	24	43	8	24	1.82
1135587--1135628	20	2.1	20	86	0	57	14	19	21	45	1.85
1137777--1137875	42	2.4	42	80	10	112	27	29	18	25	1.98
1139683--1139769	39	2.2	39	97	0	165	17	14	20	47	1.83
1140038--1140074	18	2.1	18	89	0	56	51	10	5	32	1.60
1140461--1140510	25	2.0	25	92	0	82	46	22	6	26	1.74
1140571--1140608	20	1.9	20	100	0	76	39	21	23	15	1.92
1140620--1140690	20	3.8	20	66	21	55	35	18	22	23	1.96
1140596--1140680	34	2.5	34	88	0	134	40	18	20	21	1.92
1140655--1140696	20	2.1	20	95	0	75	35	26	21	16	1.94
1143310--1143363	24	2.2	24	90	0	81	40	18	18	22	1.91
1143489--1143522	12	2.8	12	90	0	50	14	0	29	55	1.40
1144281--1144337	20	2.8	20	91	0	96	17	17	26	38	1.92
1144267--1144414	20	7.4	20	72	12	90	26	14	26	32	1.95
1144958--1144989	16	2.0	16	93	0	55	28	37	21	12	1.90
1147688--1147721	18	1.9	17	88	5	50	29	0	5	64	1.17
1152078--1152122	21	2.1	21	87	0	63	31	28	24	15	1.96
1152708--1152742	18	1.9	18	88	11	54	54	5	17	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152869--1152902	2	17.0	2	100	0	68	50	0	0	50	1.00
1153655--1153958	149	2.0	149	96	0	554	28	15	20	35	1.93
1159079--1159112	18	1.9	17	88	5	50	29	0	5	64	1.17
1160194--1160231	20	1.9	20	88	0	58	26	26	5	42	1.76
1160899--1160929	8	3.8	8	95	4	53	35	0	9	54	1.33
1161446--1161500	28	2.0	28	85	0	74	52	14	14	18	1.74
1164365--1164409	20	2.1	22	84	8	58	51	4	8	35	1.54
1165548--1165581	9	3.8	9	92	0	50	14	52	0	32	1.42
1176066--1176394	69	4.8	69	96	0	586	22	25	21	30	1.99
1178673--1178717	15	3.1	15	78	12	58	24	0	11	64	1.26
1191727--1191772	3	15.3	3	86	8	67	65	0	34	0	0.93
1200142--1200172	2	15.5	2	100	0	62	51	0	0	48	1.00
1208891--1208935	18	2.5	19	82	10	58	37	2	0	60	1.09
1208899--1208944	23	1.9	24	82	8	58	41	4	2	52	1.33
1208972--1209041	26	2.8	26	89	6	92	48	5	8	37	1.58
1208987--1209041	26	2.1	26	100	0	110	50	3	10	34	1.55
1210524--1210731	23	9.1	23	82	1	202	44	2	32	20	1.66
1210759--1210796	4	9.8	4	88	5	60	44	0	2	52	1.14
1211906--1211975	34	2.1	32	89	5	104	31	15	31	21	1.95
1213836--1213876	21	2.0	21	85	0	55	29	29	24	17	1.97
1215340--1215654	149	2.1	149	94	1	560	28	16	20	34	1.94
1215622--1215666	23	2.0	23	90	0	72	22	26	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217523--1217556	17	1.9	18	88	5	52	14	41	29	14	1.86
1218424--1218449	12	2.2	12	100	0	52	69	7	0	23	1.14
1224827--1224854	7	4.0	7	100	0	56	85	0	14	0	0.59
1226866--1226914	18	2.6	19	80	9	64	65	12	8	14	1.47
1238276--1238325	20	2.5	20	100	0	100	34	12	20	34	1.89
1238938--1239017	27	3.0	27	90	7	103	40	3	21	35	1.71
1238955--1239028	14	5.4	14	72	6	62	40	2	21	35	1.68
1238969--1239031	14	4.5	14	76	6	65	41	3	19	36	1.67
1239226--1239277	22	2.3	23	93	3	88	23	26	21	28	1.99
1239226--1239313	45	2.0	44	82	6	106	23	22	23	29	1.99
1241229--1241258	6	5.0	6	100	0	60	0	50	16	33	1.46
1241884--1241913	3	10.0	3	92	0	51	63	0	33	3	1.11
1245919--1246071	77	2.0	77	97	0	288	45	20	10	23	1.81
1246248--1246295	20	2.3	20	82	3	51	52	27	8	12	1.67
1249620--1249692	36	2.0	36	84	5	94	50	4	1	43	1.29
1251775--1251815	20	2.0	21	85	9	57	80	4	14	0	0.87
1256078--1256131	12	4.4	12	77	11	56	1	40	12	44	1.54
1256083--1256124	6	7.0	6	88	0	66	0	45	16	38	1.48
1256083--1256130	18	2.6	18	83	3	69	2	43	14	39	1.57
1257355--1257426	29	2.5	29	97	2	137	19	45	23	11	1.82
1257480--1257569	10	8.4	10	70	13	63	26	25	40	7	1.83
1257456--1257574	33	3.6	33	95	0	202	26	27	37	8	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257632--1257762	10	12.1	10	66	15	55	11	32	31	25	1.91
1257597--1257678	33	2.6	31	86	7	119	10	40	23	25	1.87
1257643--1257701	23	2.6	23	91	0	100	13	33	27	25	1.93
1257689--1257742	20	2.7	20	91	0	90	11	25	37	25	1.89
1257729--1257756	14	2.0	14	100	0	56	7	28	42	21	1.79
1258059--1258168	29	4.1	29	80	17	155	19	34	30	15	1.93
1258097--1258140	21	2.1	21	100	0	88	22	31	31	13	1.93
1258068--1258168	50	2.0	50	98	0	193	19	34	30	14	1.92
1259972--1260032	2	33.0	2	79	15	60	55	0	0	44	0.99
1261654--1261732	29	2.7	29	84	7	106	22	13	11	51	1.73
1261654--1261733	30	2.7	30	86	5	101	22	13	11	52	1.72
1272917--1272956	14	2.9	14	88	0	62	10	35	32	22	1.87
1275002--1275066	21	3.1	21	88	4	96	20	27	12	40	1.88
1275068--1275116	21	2.4	21	82	3	55	42	14	20	22	1.88
1275667--1275757	20	4.6	20	83	1	121	46	18	23	12	1.82
1275664--1275757	40	2.4	39	92	1	152	45	19	22	12	1.83
1275788--1275839	20	2.7	19	91	5	86	11	23	15	50	1.76
1277525--1277739	94	2.3	94	96	0	394	20	13	19	46	1.83
1278077--1278143	21	3.2	21	66	6	55	23	35	20	19	1.95
1278025--1278143	42	2.8	42	81	5	107	22	36	18	22	1.95
1279496--1279531	14	2.6	14	95	0	63	33	0	22	44	1.53
1279638--1279701	19	3.4	19	95	0	110	46	17	20	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279638--1279750	19	6.3	19	80	13	107	46	21	18	14	1.84
1279673--1279735	33	1.9	32	90	9	101	47	22	17	12	1.81
1279747--1279873	19	7.5	19	65	24	86	10	25	19	44	1.82
1279750--1279873	33	3.8	33	96	0	221	10	25	19	45	1.82
1279802--1279858	14	3.7	14	75	20	60	10	24	21	43	1.83
1282338--1282391	24	2.2	24	86	0	72	40	18	16	24	1.90
1283382--1283445	19	3.6	19	68	20	57	43	18	25	12	1.85
1283442--1283498	19	3.3	19	68	31	56	10	15	26	47	1.78
1283442--1283534	33	2.8	34	85	9	122	11	20	22	45	1.84
1283476--1283531	19	3.2	19	73	23	68	14	21	19	44	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14