genome.fa.s8955.2.7.7.80.10.50.1000.6.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  6  of  23  ( 2731 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)
1034858--1034903	19	2.5	18	85	3	56	52	13	2	32	1.52
1041057--1041109	25	2.1	26	86	13	76	37	1	0	60	1.08
1045728--1045754	6	4.5	6	100	0	54	29	18	33	18	1.95
1053861--1054027	82	2.0	83	90	4	266	56	12	14	16	1.68
1055828--1055863	3	12.0	3	100	0	72	66	0	33	0	0.92
1063595--1063698	49	2.1	49	92	0	172	38	14	18	28	1.90
1065035--1065103	35	2.1	33	91	8	113	39	14	4	42	1.66
1068134--1068349	107	2.0	107	90	0	342	47	16	8	27	1.75
1071813--1071963	65	2.3	64	86	5	198	29	23	19	27	1.98
1074831--1074881	22	2.3	22	100	0	102	21	15	15	47	1.83
1075125--1075595	238	2.0	239	97	2	903	36	12	16	35	1.86
1079621--1079687	15	4.5	15	71	3	55	13	1	32	52	1.50
1079608--1079682	19	3.6	19	77	19	78	13	2	34	49	1.56
1080342--1080449	56	1.9	56	86	3	155	28	24	20	26	1.99
1080691--1080745	25	2.2	25	90	3	94	29	18	14	38	1.90
1083254--1083342	3	29.3	3	88	2	133	65	3	0	31	1.09
1083784--1083893	44	2.5	44	81	0	130	25	14	25	34	1.94
1084767--1084806	19	2.2	18	86	4	53	5	10	0	85	0.75
1088257--1088332	29	2.6	29	74	14	66	26	25	13	35	1.92
1092027--1092077	22	2.3	22	100	0	102	21	15	15	47	1.83
1094743--1094823	24	3.5	24	70	20	75	20	24	23	30	1.99
1096365--1096408	21	2.1	21	86	0	61	9	40	15	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096851--1096890	19	2.1	19	95	0	71	12	5	32	50	1.62
1096883--1096946	11	6.1	11	78	10	71	14	0	34	51	1.42
1096851--1096936	45	1.9	45	90	0	136	12	2	34	50	1.54
1096894--1096931	19	2.0	19	100	0	76	10	0	31	57	1.32
1096868--1096942	30	2.7	26	77	15	78	13	1	33	52	1.49
1097591--1097770	65	2.8	64	83	9	215	28	25	20	26	1.99
1097722--1097770	19	2.6	19	84	9	57	24	28	20	26	1.99
1097808--1097863	21	2.7	21	91	0	94	25	25	26	23	2.00
1098148--1098203	25	2.2	25	93	0	94	30	19	14	35	1.91
1100778--1100872	3	31.3	3	87	2	136	65	4	0	30	1.12
1101314--1101423	44	2.5	44	81	0	130	25	14	25	34	1.94
1102292--1102337	17	2.8	16	83	3	56	8	6	0	84	0.77
1102298--1102346	17	2.9	16	82	11	62	6	8	0	85	0.73
1105803--1105878	29	2.6	29	74	14	66	26	25	13	35	1.92
1110333--1110377	13	3.5	13	81	0	54	68	13	2	15	1.30
1110340--1110403	26	2.5	26	84	5	76	65	12	3	18	1.38
1112603--1112665	25	2.7	22	73	23	58	65	3	0	31	1.09
1112592--1112634	17	2.5	17	88	0	59	65	4	0	30	1.13
1122407--1122450	14	3.2	14	80	3	54	72	2	11	13	1.21
1122402--1122489	25	3.3	26	75	17	74	72	1	12	13	1.17
1122520--1122667	4	34.8	4	67	20	52	70	2	4	22	1.17
1122520--1122617	9	10.6	9	73	15	58	72	1	4	22	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122794--1122846	2	27.5	2	78	14	58	52	0	3	43	1.19
1123269--1123330	2	33.5	2	81	15	62	54	1	0	43	1.09
1123447--1123733	3	95.3	3	71	19	122	65	2	3	28	1.23
1123513--1123716	76	2.7	72	78	15	200	65	2	3	27	1.23
1123587--1123687	23	4.3	23	71	21	84	64	0	4	29	1.21
1124698--1124734	19	1.9	19	88	0	56	62	2	2	32	1.23
1128344--1128552	29	7.2	29	82	2	215	49	12	2	35	1.54
1129966--1130006	22	1.9	22	90	5	66	68	0	0	31	0.90
1130405--1130435	16	1.9	16	100	0	62	19	9	19	51	1.74
1133436--1133521	44	2.0	44	88	4	129	43	23	13	19	1.87
1142906--1143025	63	1.9	63	82	3	152	33	31	10	24	1.90
1144693--1144753	20	3.0	20	90	0	104	47	19	21	11	1.81
1144783--1144829	20	2.3	20	100	0	94	10	14	23	51	1.74
1145335--1145393	20	3.0	20	100	0	118	13	15	25	45	1.82
1145488--1145534	19	2.4	20	82	7	60	25	12	29	31	1.93
1154679--1154758	21	3.8	21	89	0	124	26	26	20	27	1.99
1158398--1158435	12	2.8	13	88	11	51	36	7	0	55	1.29
1158572--1158624	2	27.0	2	96	3	99	50	0	0	49	1.00
1158727--1158810	23	3.7	23	93	0	123	28	26	25	20	1.99
1162671--1162715	21	2.1	21	95	0	81	31	2	20	46	1.62
1167335--1167399	15	4.3	15	100	0	130	13	24	33	27	1.93
1174767--1174815	24	2.0	24	100	0	98	28	12	24	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175823--1175851	1	29.0	1	100	0	58	0	100	0	0	0.00
1176770--1176838	19	3.5	20	82	7	63	37	15	14	31	1.88
1179080--1179128	25	2.0	24	84	4	62	44	2	6	46	1.39
1182531--1182653	36	3.4	36	82	9	151	44	6	2	46	1.42
1182630--1182683	28	1.9	28	88	0	81	40	5	5	48	1.50
1194194--1194230	18	2.0	19	89	5	58	78	2	5	13	1.03
1194214--1194239	11	2.4	11	100	0	52	76	0	7	15	0.99
1195463--1195511	7	7.3	7	78	15	50	55	2	2	40	1.23
1195480--1195802	37	8.4	43	78	15	145	45	7	2	44	1.43
1195487--1195551	32	2.0	33	87	3	96	52	4	0	43	1.22
1195533--1195645	32	3.3	32	83	12	154	46	7	0	44	1.38
1195572--1195631	11	5.1	11	72	21	50	50	8	0	41	1.33
1195527--1195802	37	7.4	37	85	7	346	44	7	2	44	1.45
1195527--1195802	116	2.5	113	87	8	395	44	7	2	44	1.45
1195777--1195830	28	1.9	28	96	0	99	42	7	3	46	1.49
1198975--1199029	23	2.4	23	84	0	74	16	25	23	34	1.95
1201326--1201417	45	2.0	45	100	0	184	28	21	6	43	1.77
1201416--1201468	26	2.0	26	100	0	106	33	15	3	47	1.63
1212505--1212556	21	2.5	21	100	0	104	26	15	32	25	1.95
1213976--1214013	20	1.9	20	88	0	58	23	18	18	39	1.92
1214104--1214163	23	2.6	23	83	0	84	16	26	23	33	1.96
1217843--1217876	15	2.3	15	89	0	50	47	5	20	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218274--1218308	18	1.9	18	88	0	52	31	31	17	20	1.95
1234074--1235386	656	2.0	656	99	0	2608	34	19	16	29	1.94
1240594--1240684	23	4.0	23	86	0	128	28	25	27	18	1.98
1248584--1248637	12	4.7	11	78	13	56	0	11	12	75	1.04
1248595--1248626	13	2.5	13	100	0	64	0	12	12	75	1.06
1250082--1250118	19	1.9	19	100	0	74	24	27	16	32	1.96
1251177--1251254	26	3.0	26	98	0	147	47	14	0	38	1.44
1251884--1251949	29	2.3	28	94	5	123	45	0	15	39	1.46
1251941--1251965	12	2.1	12	100	0	50	60	0	8	32	1.26
1252335--1252381	24	2.0	24	83	8	60	23	6	0	70	1.10
1253499--1253553	2	28.0	2	92	3	94	47	1	0	50	1.11
1254609--1254956	172	2.0	174	98	1	673	40	7	6	45	1.58
1255048--1255382	20	16.9	19	72	14	90	32	24	12	31	1.92
1255048--1255199	81	1.9	81	92	0	259	33	26	13	26	1.93
1255048--1255385	40	8.5	40	74	13	207	31	24	12	31	1.92
1255236--1255303	35	1.9	35	85	5	93	26	23	13	36	1.92
1256259--1256312	24	2.2	24	93	0	90	20	18	20	40	1.91
1258470--1258505	18	2.0	18	94	0	63	55	22	2	19	1.56
1260343--1260457	21	5.5	21	74	13	53	28	14	34	21	1.93
1261338--1261441	45	2.3	45	83	9	124	37	22	17	23	1.94
1262042--1262097	2	28.5	2	79	16	55	48	0	5	46	1.25
1262389--1262512	31	4.0	31	74	5	97	30	17	20	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269914--1269961	13	3.7	13	91	0	78	35	18	18	27	1.95
1269770--1269935	85	2.0	85	91	0	269	31	16	21	30	1.95
1269907--1269961	26	2.1	26	86	0	74	38	16	18	27	1.92
1271394--1271469	2	38.5	2	83	12	86	47	0	5	47	1.24
1272686--1272758	20	3.6	20	85	5	94	35	31	9	23	1.87
1272752--1272800	20	2.5	20	89	0	71	36	24	16	22	1.94
1273131--1273157	12	2.2	12	100	0	54	40	7	7	44	1.60
1273157--1273200	20	2.2	20	83	0	52	15	18	18	47	1.83
1273308--1273360	20	2.7	19	80	8	61	18	16	16	47	1.83
1274877--1274998	63	1.9	62	81	6	147	24	13	30	31	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23