genome.fa.s9591.2.7.7.80.10.50.1000.5.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: VEPZ01009591.1 Hibiscus syriacus cultivar Beakdansim tig00116970_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2451160

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

This is table  5  of  11  ( 1252 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)
987847--987905	23	2.6	22	89	2	82	23	28	27	20	1.99
992031--992072	22	1.9	22	85	0	57	38	21	7	33	1.81
992030--992078	22	2.2	22	77	0	53	42	20	6	30	1.76
992378--992428	20	2.5	20	77	0	57	13	31	39	15	1.87
996337--996399	23	2.7	23	80	5	63	46	1	1	50	1.20
996375--996427	20	2.7	20	75	16	56	49	1	0	49	1.12
996384--996448	28	2.3	27	84	10	85	46	1	0	52	1.10
996741--996855	43	2.7	43	88	7	173	52	17	12	18	1.75
1006608--1006705	21	4.8	20	75	10	81	37	21	18	22	1.94
1006672--1006925	20	12.6	20	83	4	305	34	25	20	20	1.96
1007308--1007378	33	2.2	33	92	0	115	11	22	18	47	1.80
1007457--1007534	41	1.9	41	97	0	147	44	16	25	12	1.83
1007458--1007533	21	3.7	21	83	3	109	46	17	25	11	1.82
1007553--1007650	19	5.7	19	70	22	81	11	23	21	43	1.84
1007575--1007664	14	5.7	14	72	23	72	10	24	22	43	1.83
1007558--1007672	33	3.5	33	96	0	212	10	23	20	46	1.81
1009363--1009737	93	4.1	93	98	0	718	22	12	18	46	1.83
1009785--1009912	19	7.3	19	74	18	116	45	28	17	8	1.78
1009821--1009912	33	2.8	32	90	6	141	45	28	18	7	1.76
1009908--1010042	19	7.6	19	74	16	110	10	19	22	47	1.79
1009930--1009986	14	3.7	14	77	20	60	8	21	22	47	1.78
1009913--1010005	33	2.8	33	90	0	150	9	20	20	49	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011965--1012000	14	2.6	14	95	0	63	33	0	22	44	1.53
1012107--1012204	19	5.4	19	84	13	143	45	17	22	14	1.84
1012107--1012222	53	2.2	53	98	1	225	43	18	24	13	1.86
1012229--1012381	33	4.5	33	73	16	150	14	22	17	45	1.84
1012251--1012467	19	12.4	19	77	19	249	14	21	17	46	1.83
1012229--1012439	52	4.0	52	98	0	404	14	22	17	45	1.84
1012270--1012489	33	6.5	33	77	13	241	14	21	17	46	1.83
1014963--1015009	24	2.0	24	87	8	69	38	21	14	25	1.92
1015692--1015921	20	11.5	20	85	1	237	19	18	24	36	1.94
1015908--1015990	21	4.0	21	73	6	78	25	16	24	33	1.96
1015888--1015986	42	2.4	43	77	11	100	21	18	23	37	1.94
1020719--1020779	32	1.9	31	83	3	77	39	3	18	39	1.67
1021241--1021270	14	2.1	15	93	6	53	36	3	0	60	1.14
1021293--1021361	30	2.3	31	82	9	81	49	0	1	49	1.09
1021462--1021898	200	2.2	199	82	6	526	41	13	13	32	1.83
1022419--1022472	21	2.6	21	93	0	90	31	27	20	20	1.97
1022983--1023060	6	13.5	6	97	2	135	0	16	48	34	1.47
1023181--1023235	22	2.6	21	86	11	69	23	21	20	34	1.97
1023607--1023657	23	2.2	23	85	0	66	31	19	9	39	1.84
1023617--1023666	23	2.2	23	88	0	73	32	16	12	40	1.84
1023694--1023744	23	2.2	23	89	0	75	33	13	9	43	1.77
1023599--1023831	87	2.7	87	91	0	376	32	13	10	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023694--1023950	110	2.3	110	90	0	388	32	12	10	43	1.77
1023781--1023854	23	3.2	23	94	0	121	32	18	8	40	1.80
1023781--1023863	23	3.6	23	90	0	112	32	16	8	42	1.79
1023806--1024050	87	2.8	86	91	1	391	32	12	11	44	1.78
1023900--1023950	23	2.2	23	85	0	66	39	11	9	39	1.75
1023607--1024018	197	2.1	197	94	0	725	32	13	10	43	1.77
1025733--1025833	42	2.5	41	84	7	129	50	1	0	46	1.19
1028844--1028892	10	4.9	10	84	0	62	28	26	0	44	1.54
1028917--1028961	23	2.0	22	87	12	65	33	0	2	64	1.06
1028922--1028969	18	2.8	17	87	9	71	33	0	2	64	1.05
1040632--1040834	29	6.8	29	73	10	126	52	2	6	38	1.42
1040646--1040812	90	1.9	90	82	7	214	50	2	7	38	1.45
1052476--1052513	17	2.2	17	86	9	51	42	0	0	57	0.98
1071718--1071756	16	2.4	16	100	0	78	25	33	10	30	1.89
1073877--1073925	24	2.0	26	84	8	66	44	2	0	53	1.12
1075628--1075687	31	1.9	31	93	0	102	40	6	10	43	1.64
1076137--1076196	19	3.1	20	79	15	56	61	3	0	35	1.12
1076207--1076261	23	2.2	24	84	15	67	58	1	0	40	1.09
1076227--1076309	13	6.5	13	70	20	68	57	0	0	42	0.98
1076246--1076312	27	2.4	30	76	19	81	56	0	0	43	0.99
1076206--1076363	63	2.6	62	87	6	216	56	1	0	41	1.12
1076193--1076298	21	5.3	21	67	21	57	56	0	0	41	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085329--1085358	9	3.3	9	100	0	60	80	0	10	10	0.92
1086273--1086337	2	32.5	2	100	0	130	49	0	0	50	1.00
1088351--1088491	35	4.0	36	91	1	205	32	21	24	20	1.98
1088351--1088491	71	2.0	71	87	2	203	32	21	24	20	1.98
1093250--1093279	2	15.0	2	100	0	60	50	0	0	50	1.00
1094371--1094592	83	2.7	83	84	1	266	34	20	21	23	1.96
1094357--1094592	42	5.7	42	71	12	148	33	19	22	24	1.97
1095311--1095350	21	1.9	21	100	0	80	32	15	15	37	1.88
1096582--1096607	12	2.2	12	100	0	52	26	42	0	30	1.56
1098285--1098369	21	4.0	21	83	6	109	38	20	41	0	1.52
1098285--1098369	42	2.0	42	88	4	127	38	20	41	0	1.52
1098707--1098972	43	6.2	41	73	11	153	28	22	20	28	1.98
1100656--1100690	17	2.1	17	88	0	52	51	8	2	37	1.47
1100725--1100793	35	2.0	35	88	0	102	46	20	10	23	1.80
1112502--1112529	2	14.0	2	100	0	56	0	50	0	50	1.00
1126922--1126957	17	2.1	17	100	0	72	33	33	5	27	1.80
1130531--1130608	35	2.2	35	80	13	90	55	7	7	29	1.56
1130603--1130627	13	1.9	13	100	0	50	72	8	0	20	1.10
1132741--1132816	24	3.0	24	77	20	82	68	1	1	28	1.06
1132738--1132815	29	2.8	28	73	21	81	70	1	1	26	1.03
1133051--1133160	51	2.2	51	80	8	125	18	25	32	23	1.97
1135732--1135989	110	2.4	107	86	6	344	23	18	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136953--1136978	11	2.4	11	100	0	52	53	0	15	30	1.42
1137697--1137840	69	2.1	69	93	0	243	24	14	21	39	1.91
1137931--1137959	12	2.4	12	100	0	58	0	17	6	75	1.01
1141146--1141207	23	2.7	23	82	12	65	67	6	6	19	1.35
1141342--1141434	40	2.3	41	82	12	113	62	3	3	31	1.27
1150895--1150929	18	1.9	18	88	0	52	20	31	31	17	1.95
1155277--1155689	206	2.0	207	99	0	819	34	14	18	32	1.91
1155968--1156005	19	1.9	19	85	15	51	21	0	36	42	1.53
1156795--1156829	15	2.4	15	90	4	54	31	8	28	31	1.87
1156944--1157037	23	4.1	23	76	0	89	19	23	23	34	1.97
1158318--1158378	22	2.8	22	90	5	88	26	26	21	26	1.99
1160004--1160035	16	2.1	15	94	5	55	37	6	15	40	1.73
1191415--1191705	117	2.5	117	88	2	424	32	33	15	18	1.92
1192625--1192773	29	5.2	29	76	3	122	41	21	7	29	1.80
1192626--1192748	58	2.1	58	82	4	151	39	23	7	29	1.82
1192788--1192823	17	2.1	17	94	0	63	13	25	41	19	1.88
1198901--1199191	117	2.5	117	89	2	433	32	33	15	18	1.92
1200118--1200193	29	2.6	29	81	4	91	40	21	3	34	1.71
1200124--1200305	28	6.2	28	74	8	112	39	22	6	31	1.80
1200151--1200329	28	6.1	29	75	5	128	40	21	7	30	1.80
1200376--1200424	19	2.6	19	90	0	71	16	26	36	20	1.93
1203940--1203973	15	2.3	15	94	0	59	5	47	2	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206239--1206308	34	2.1	34	100	0	140	32	21	8	37	1.84
1211150--1211212	30	2.1	30	85	5	83	69	3	3	23	1.17
1211456--1211520	21	3.1	21	77	4	78	32	18	21	27	1.97
1213472--1213711	21	11.6	20	79	9	150	22	19	21	37	1.95
1213525--1213707	42	4.4	40	83	9	215	22	19	19	38	1.94
1213470--1213642	63	2.7	63	79	10	219	23	20	19	36	1.95
1214232--1214286	6	9.2	6	100	0	110	0	16	49	34	1.46
1214385--1214494	21	5.3	20	71	16	91	34	27	18	20	1.95
1214396--1214515	21	5.8	20	69	13	75	34	25	18	22	1.96
1214371--1214494	42	3.0	42	95	2	216	35	25	18	20	1.95

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