genome.fa.s8302.2.7.7.80.10.50.1000.6.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  6  of  17  ( 1926 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)
1096791--1096839	20	2.4	21	86	3	73	16	20	10	53	1.72
1096795--1096866	28	2.6	29	78	10	78	19	18	12	50	1.78
1098149--1098202	17	3.3	16	77	10	56	85	3	5	5	0.84
1098156--1098288	32	4.1	32	77	12	112	78	3	13	4	1.01
1098147--1098279	9	13.9	9	69	19	74	79	3	12	4	0.99
1098148--1098278	8	15.9	8	70	20	65	79	3	12	4	1.00
1098208--1098278	19	3.7	20	75	15	69	78	2	16	1	0.94
1098130--1098281	24	6.3	23	74	18	89	78	2	13	5	1.03
1098156--1098288	31	4.6	29	72	19	82	78	3	13	4	1.01
1100219--1100569	106	3.3	108	80	6	412	32	9	15	41	1.80
1100219--1100569	53	6.6	54	79	5	374	32	9	15	41	1.80
1100219--1100568	160	2.2	161	83	3	429	32	10	15	41	1.81
1100219--1100618	106	3.8	106	79	6	300	32	10	16	41	1.81
1100662--1100726	20	3.2	20	76	4	67	30	23	18	27	1.97
1100613--1100726	42	2.7	41	82	9	133	28	18	22	30	1.97
1100738--1100844	55	2.1	51	82	10	128	30	8	19	41	1.81
1100757--1100871	55	2.1	55	82	6	135	33	8	20	38	1.83
1101548--1102036	138	3.6	138	78	11	576	35	17	22	24	1.95
1101973--1102099	63	2.0	64	90	1	202	40	11	25	22	1.88
1103335--1103402	25	2.8	24	84	6	84	30	2	5	60	1.35
1103353--1103415	22	3.0	21	75	13	58	33	4	3	58	1.35
1104621--1104652	16	2.0	16	93	0	55	28	0	12	59	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107839--1107891	20	2.7	20	77	11	72	28	30	15	26	1.96
1107879--1107957	20	4.1	20	64	20	51	36	21	20	21	1.95
1108079--1108135	22	2.6	22	91	0	87	22	40	15	21	1.91
1110111--1110163	21	2.5	21	84	0	79	22	15	32	30	1.94
1110611--1110675	21	3.1	20	75	16	60	24	40	20	15	1.91
1112197--1112239	20	2.2	20	100	0	86	13	18	25	41	1.88
1112413--1112499	39	2.2	39	95	0	156	17	16	20	45	1.85
1112745--1112771	11	2.5	11	100	0	54	44	7	11	37	1.68
1112756--1112811	25	2.2	25	93	0	94	42	21	8	26	1.82
1112914--1112977	20	3.2	20	81	0	83	15	20	25	39	1.92
1113301--1113336	18	2.0	18	94	0	63	19	0	25	55	1.43
1116342--1116380	15	2.5	15	83	4	51	66	0	5	28	1.12
1116517--1116665	20	7.5	20	73	10	92	23	13	23	39	1.90
1116557--1116665	40	2.7	41	81	9	136	21	14	23	40	1.90
1116652--1116705	20	2.7	19	69	8	54	27	14	29	27	1.95
1120265--1120323	28	2.1	28	93	0	100	59	10	10	20	1.58
1120457--1120668	88	2.5	86	92	3	363	37	22	5	34	1.78
1122243--1122328	29	3.0	29	94	0	145	43	8	8	40	1.64
1124218--1124291	35	2.2	35	87	4	107	37	21	1	39	1.62
1125245--1125305	27	2.2	28	82	5	72	45	1	3	49	1.28
1125382--1125414	17	1.9	18	88	11	52	66	6	3	24	1.28
1126171--1126207	18	2.0	20	89	10	60	43	0	2	54	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126275--1126343	32	2.2	32	100	0	138	44	8	2	43	1.50
1126283--1126343	20	3.5	20	67	32	66	44	9	3	42	1.54
1129546--1129607	32	2.0	31	84	9	81	38	4	0	56	1.21
1132754--1132797	12	3.1	15	78	21	58	27	6	0	65	1.17
1132857--1133059	108	1.9	110	91	4	340	35	8	7	47	1.64
1134563--1134600	17	2.2	18	95	4	69	28	31	18	21	1.97
1135073--1135145	25	3.0	24	68	24	62	26	6	4	63	1.38
1135221--1135275	28	2.0	27	83	16	69	30	0	10	58	1.33
1136176--1136489	158	2.0	158	98	1	612	17	28	19	34	1.95
1138191--1138314	51	2.5	51	85	1	160	19	30	34	15	1.93
1139493--1139545	23	2.3	23	86	3	70	37	18	5	37	1.75
1139948--1140022	21	3.5	21	83	7	96	41	20	4	34	1.71
1139962--1140023	21	2.8	23	87	9	101	38	20	3	37	1.69
1140433--1140505	23	3.2	23	92	0	119	39	21	4	34	1.73
1139493--1140840	478	2.8	483	92	4	2231	40	10	7	41	1.68
1143304--1143879	184	3.1	183	91	3	928	34	16	14	35	1.88
1145076--1145159	6	14.5	6	77	7	84	20	33	9	36	1.85
1145076--1145159	12	7.2	12	84	8	102	20	33	9	36	1.85
1145091--1145172	18	4.6	18	84	0	110	18	32	9	39	1.83
1145091--1145172	12	6.8	12	87	0	110	18	32	9	39	1.83
1146749--1146786	20	1.9	20	94	0	67	23	13	15	47	1.81
1146646--1147806	200	5.8	200	93	1	1926	30	17	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149662--1149727	33	2.0	33	90	0	105	22	48	0	28	1.51
1149761--1149825	21	3.1	21	93	0	103	16	30	10	41	1.83
1152027--1152069	20	2.3	18	85	14	61	20	16	11	51	1.75
1152032--1152078	20	2.4	19	82	10	67	19	17	10	53	1.72
1152008--1152469	180	2.6	181	88	1	676	26	16	14	42	1.86
1155291--1155655	92	4.0	91	93	6	650	35	8	10	44	1.71
1155291--1155655	181	2.0	181	97	2	696	35	8	10	44	1.71
1157364--1157402	3	13.0	3	100	0	78	33	0	0	66	0.92
1161666--1161709	21	2.1	21	82	0	52	29	25	22	22	1.99
1163316--1163362	15	3.1	15	87	3	58	70	0	2	27	0.99
1163328--1163362	8	4.5	8	85	7	54	74	0	0	25	0.82
1163589--1163798	101	2.1	101	86	1	287	21	29	24	24	1.99
1164084--1164189	39	2.7	39	88	4	153	44	10	13	32	1.77
1164431--1164506	10	6.9	10	75	16	62	13	13	14	59	1.62
1173461--1173522	18	3.4	18	80	8	72	32	40	1	25	1.66
1173492--1173522	12	2.6	12	94	0	53	32	41	0	25	1.56
1179409--1179449	20	2.0	20	95	0	73	19	26	14	39	1.90
1180494--1180582	33	2.7	33	85	3	117	37	22	23	16	1.94
1184249--1184273	13	1.9	13	100	0	50	32	8	40	20	1.81
1185534--1185591	4	14.5	4	92	0	98	53	20	0	25	1.46
1185964--1186029	18	3.6	18	82	8	87	30	28	21	19	1.98
1187462--1187513	19	2.7	19	100	0	104	21	30	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191261--1191333	18	3.9	18	82	7	92	28	31	19	20	1.97
1191260--1191356	20	5.1	20	79	8	103	26	28	19	24	1.99
1191259--1191353	38	2.5	37	81	13	129	26	29	18	25	1.98
1193593--1193801	105	2.0	105	100	0	418	33	9	20	36	1.85
1195777--1195821	21	2.1	21	84	8	56	28	20	15	35	1.93
1195803--1195838	16	2.2	16	90	0	54	30	22	13	33	1.93
1198376--1198409	16	2.1	17	88	5	52	38	2	17	41	1.65
1202146--1202205	29	2.1	29	90	0	93	23	23	30	23	1.99
1202767--1202964	21	9.5	21	78	11	203	30	23	21	24	1.99
1202784--1202964	41	4.3	43	74	16	159	31	22	21	24	1.98
1202767--1202964	83	2.4	83	83	8	242	30	23	21	24	1.99
1202804--1202965	62	2.6	61	95	2	288	30	21	22	25	1.98
1202973--1203013	21	2.0	21	95	0	73	24	21	21	31	1.98
1203733--1203877	21	6.8	21	78	13	163	37	22	20	20	1.95
1203733--1203877	63	2.3	63	93	2	245	37	22	20	20	1.95
1204311--1204341	15	2.0	16	93	6	55	19	19	16	45	1.86
1205409--1205440	15	2.1	15	94	0	55	53	15	25	6	1.65
1208738--1208768	15	2.1	15	100	0	62	12	19	19	48	1.81
1219872--1219916	21	2.0	23	83	8	58	46	8	0	44	1.34
1220089--1220129	19	2.2	19	100	0	82	14	9	31	43	1.78
1233677--1233827	45	3.3	43	83	8	176	49	6	19	24	1.72
1233682--1233990	41	7.1	42	79	11	245	49	6	18	25	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233687--1233990	91	3.5	84	78	12	255	49	6	18	25	1.72
1233733--1233988	42	6.0	42	79	8	236	48	7	17	26	1.73
1234641--1234685	21	2.1	21	100	0	90	28	4	8	57	1.48
1236010--1236047	20	1.9	20	89	10	60	52	0	10	36	1.36
1236250--1236307	2	29.0	2	96	0	107	48	0	1	50	1.11
1239253--1239306	22	2.6	21	88	5	74	42	11	20	25	1.85
1239338--1239389	20	2.6	21	78	9	63	32	17	23	26	1.96
1242199--1242232	13	2.6	13	95	0	59	38	2	0	58	1.13
1247770--1248079	155	2.0	155	100	0	620	38	20	16	23	1.93
1253337--1253710	187	2.0	187	100	0	748	28	15	25	30	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17