genome.fa.s295.2.7.7.80.10.50.1000.6.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: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2017499

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1002 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)
1034148--1034204	14	4.0	14	77	9	62	57	21	1	19	1.49
1034138--1034220	33	2.7	31	73	21	84	55	21	1	21	1.51
1044092--1044146	26	2.1	26	100	0	110	50	18	3	27	1.63
1044647--1044704	22	2.8	21	85	12	75	74	0	8	17	1.06
1049976--1050000	10	2.5	10	100	0	50	20	8	20	52	1.71
1071290--1071317	3	9.3	3	100	0	56	64	0	35	0	0.94
1076730--1076757	14	2.0	14	100	0	56	35	28	14	21	1.92
1077035--1077166	23	5.7	23	84	1	147	25	16	15	41	1.88
1077038--1077166	47	2.8	47	82	2	154	26	17	15	41	1.89
1077373--1077401	15	2.0	15	93	6	51	55	0	17	27	1.42
1077394--1077446	24	2.2	24	96	0	97	49	13	13	24	1.77
1077401--1077459	12	4.9	12	80	0	64	49	16	11	22	1.78
1077401--1077459	24	2.5	24	83	5	75	49	16	11	22	1.78
1078442--1078498	27	2.1	27	100	0	114	36	26	22	14	1.92
1079358--1079771	208	2.0	206	99	0	810	31	28	24	15	1.96
1080317--1080357	16	2.6	16	96	0	73	34	4	19	41	1.73
1080405--1080592	4	51.8	4	73	20	60	38	1	1	58	1.17
1080405--1080592	7	25.9	8	72	19	60	38	1	1	58	1.17
1080404--1080620	91	2.5	87	76	16	225	36	2	1	59	1.18
1080502--1080607	3	33.3	3	71	22	58	34	1	0	62	1.13
1080404--1080612	27	7.7	27	67	19	91	36	1	1	59	1.17
1080420--1080611	8	24.9	8	73	17	92	36	2	1	59	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080545--1080616	19	3.8	19	72	18	53	33	4	0	62	1.14
1080531--1080615	27	3.3	26	82	8	95	34	2	0	63	1.07
1080519--1080620	11	9.2	11	70	19	61	31	2	0	64	1.15
1081934--1082016	42	1.9	44	82	4	107	34	7	1	56	1.35
1096640--1096671	15	2.1	15	100	0	64	40	18	12	28	1.87
1098197--1098370	90	1.9	89	95	1	312	37	12	5	44	1.65
1101299--1101341	7	5.9	7	78	10	50	62	30	4	2	1.28
1101297--1101346	15	3.3	15	94	0	91	58	28	8	6	1.51
1103748--1103782	15	2.4	15	85	4	54	34	0	0	65	0.93
1113158--1113192	9	3.7	10	88	11	56	71	0	0	28	0.86
1113499--1113738	131	1.8	132	87	3	360	23	17	34	24	1.96
1113746--1113822	32	2.4	32	83	12	97	38	15	16	28	1.90
1113775--1114087	64	4.9	64	73	15	245	40	14	16	29	1.87
1113854--1114919	532	2.0	530	93	1	1830	35	18	16	30	1.93
1115163--1115206	23	2.0	21	82	8	52	2	18	2	77	0.98
1120086--1120132	22	2.0	24	84	8	62	57	0	6	36	1.24
1120678--1120731	20	2.7	19	77	11	63	29	31	12	25	1.93
1120718--1120867	20	7.4	21	72	15	97	35	23	18	22	1.96
1120710--1120826	41	2.9	41	79	13	125	33	23	17	26	1.96
1120755--1120879	20	6.2	20	80	10	148	39	22	18	20	1.93
1121007--1121054	22	2.2	22	96	0	87	22	43	12	20	1.86
1121355--1121402	20	2.4	20	82	0	60	12	18	20	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124971--1125026	29	2.0	29	83	13	73	58	5	14	21	1.55
1127370--1127451	36	2.3	36	79	10	96	17	8	4	69	1.32
1128508--1128548	11	3.6	12	77	9	50	7	12	7	73	1.25
1132634--1132720	43	2.0	43	95	0	156	47	6	18	27	1.74
1132636--1132730	43	2.2	43	90	3	147	46	7	16	29	1.74
1144651--1144701	22	2.3	22	96	0	93	33	9	13	43	1.77
1144696--1144756	30	1.9	33	81	15	76	67	9	14	8	1.42
1145912--1145961	24	1.9	28	84	15	72	18	10	8	64	1.48
1156005--1156049	23	2.0	23	95	0	81	35	33	8	22	1.85
1158410--1158444	13	2.7	13	86	0	52	20	48	17	14	1.81
1158448--1158482	15	2.2	16	90	10	54	14	34	28	22	1.93
1161274--1161585	43	7.3	43	89	2	475	17	26	23	32	1.97
1163001--1163065	34	1.9	34	100	0	130	33	3	21	41	1.69
1164645--1164687	21	2.0	21	86	0	59	39	2	2	55	1.25
1165490--1165594	15	6.6	16	82	14	112	43	0	0	56	0.99
1165490--1165583	18	5.3	18	83	12	124	42	0	0	57	0.98
1165490--1165583	3	31.0	3	78	6	100	42	0	0	57	0.98
1166895--1166937	16	2.6	17	85	10	63	32	0	0	67	0.91
1166906--1166964	13	4.5	13	77	14	59	30	3	0	66	1.08
1166974--1166999	2	13.0	2	100	0	52	50	0	0	50	1.00
1172594--1172647	26	2.0	27	89	10	85	64	11	20	3	1.40
1172598--1172688	23	4.0	21	79	16	76	73	5	18	2	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172631--1172685	15	3.7	14	83	11	65	78	1	18	1	0.94
1172631--1172685	7	7.4	7	86	11	65	78	1	18	1	0.94
1174884--1175218	115	2.9	114	92	0	544	33	15	20	30	1.94
1176939--1177018	40	2.0	40	100	0	160	32	15	22	30	1.94
1177421--1177475	22	2.5	22	90	0	92	34	12	14	38	1.84
1178019--1178390	185	2.0	186	94	1	658	31	15	14	38	1.87
1178331--1179116	76	10.4	76	95	1	1402	23	18	22	35	1.96
1179264--1179368	15	6.6	16	82	14	112	43	0	0	56	0.99
1179264--1179357	18	5.3	18	83	12	124	42	0	0	57	0.98
1179264--1179357	3	31.0	3	78	6	100	42	0	0	57	0.98
1180653--1180692	16	2.7	15	85	11	55	32	0	0	67	0.91
1180655--1180720	13	5.0	13	75	15	64	30	3	0	66	1.06
1180730--1180781	2	26.0	2	100	0	104	50	0	0	50	1.00
1181129--1181169	12	3.1	14	82	13	59	51	0	0	48	1.00
1186987--1187524	200	2.7	202	86	2	733	34	20	14	31	1.92
1189447--1189494	8	6.4	8	76	13	57	35	4	0	60	1.16
1191403--1191464	2	31.0	2	87	6	90	48	1	1	48	1.21
1192371--1192409	20	2.0	20	89	0	60	20	15	33	30	1.94
1195027--1195123	44	2.2	44	85	7	126	25	19	27	26	1.99
1208408--1208624	117	1.9	117	82	3	276	26	14	9	49	1.74
1209998--1210085	45	1.9	46	93	2	151	26	20	26	27	1.99
1210105--1210142	20	1.9	20	88	0	58	21	15	31	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210411--1210465	2	29.0	2	85	10	80	50	0	1	47	1.11
1212447--1212646	106	1.9	108	82	4	253	34	21	12	32	1.90
1212441--1212872	160	2.7	160	77	3	377	33	20	12	33	1.91
1212441--1212933	54	9.2	53	76	6	336	33	20	13	32	1.91
1212590--1212870	105	2.6	106	78	6	300	31	22	12	33	1.92
1217800--1217850	3	17.7	3	76	15	54	35	0	0	64	0.94
1217799--1217850	12	4.5	12	85	7	72	36	0	0	63	0.95
1218424--1218467	15	2.8	15	83	16	54	77	4	9	9	1.12
1218580--1218621	20	2.1	20	91	8	68	33	0	47	19	1.49
1219813--1219853	5	8.0	5	86	2	55	19	2	2	75	1.03
1224819--1224943	65	1.9	65	82	8	155	23	21	14	40	1.90
1225495--1225536	3	14.0	3	80	9	50	38	0	0	61	0.96
1225495--1225545	15	2.9	18	80	13	54	39	1	0	58	1.09
1226857--1227085	113	2.0	114	99	0	451	29	10	13	46	1.76
1228072--1228239	83	2.0	83	97	0	318	36	25	11	26	1.90
1232501--1232532	15	2.1	15	94	0	55	68	0	9	21	1.17
1234372--1234410	20	2.0	20	84	0	51	35	20	15	28	1.93
1243715--1243772	29	2.0	29	86	6	82	50	3	10	36	1.54
1243723--1243799	29	2.7	28	84	9	93	46	3	7	41	1.51
1243780--1243854	29	2.7	29	79	10	75	46	9	5	38	1.59
1247071--1247124	22	2.5	22	96	0	99	27	18	37	16	1.93
1248478--1249379	6	152.8	6	92	6	1499	49	17	0	32	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252465--1252519	20	2.8	20	76	15	62	72	0	3	23	1.00
1252470--1252519	15	3.3	15	74	20	50	72	0	4	24	1.02
1252468--1252535	28	2.4	27	80	11	82	72	0	5	22	1.06
1252532--1252561	13	2.3	13	94	0	51	46	0	16	36	1.47
1252559--1252600	18	2.3	18	92	8	68	69	0	7	23	1.13
1254228--1254270	2	21.5	2	100	0	86	48	0	0	51	1.00
1255535--1255582	20	2.4	20	82	6	62	70	2	2	25	1.09
1261163--1261205	18	2.4	18	92	7	70	74	0	4	20	1.00
1261845--1261948	43	2.4	45	78	12	121	53	16	1	27	1.53
1265471--1265593	37	3.3	37	91	1	192	13	11	37	38	1.80

Tables:   1   2   3   4   5   6   7   8   9