genome.fa.s8709.2.7.7.80.10.50.1000.6.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: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030657

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

This is table  6  of  15  ( 1745 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)
1143899--1143937	20	1.9	21	84	5	53	64	2	0	33	1.08
1156007--1156041	2	17.5	2	87	0	52	42	0	5	51	1.25
1156099--1156287	105	1.8	105	89	0	297	39	10	13	37	1.79
1164133--1164199	34	2.1	34	88	8	104	25	16	26	31	1.96
1164435--1164479	3	15.0	3	100	0	90	33	0	0	66	0.92
1169717--1169774	29	2.0	29	93	0	98	29	29	17	24	1.97
1170156--1170187	2	16.0	2	100	0	64	0	50	0	50	1.00
1170187--1170219	2	16.5	2	100	0	66	48	0	0	51	1.00
1173934--1173960	13	2.1	13	100	0	54	40	7	14	37	1.74
1173920--1174290	74	5.1	71	76	14	298	45	3	8	42	1.51
1173894--1174191	36	8.1	36	83	9	318	45	3	9	42	1.52
1174179--1174226	2	24.5	2	95	4	89	50	0	0	50	1.00
1174211--1174292	36	2.3	35	80	6	74	43	2	9	43	1.50
1174294--1174342	17	2.9	16	82	8	53	24	0	6	69	1.11
1175534--1175569	12	2.9	12	95	4	63	19	0	0	80	0.71
1179676--1179881	109	1.9	108	89	3	324	32	16	18	32	1.94
1182044--1182268	35	6.4	34	80	13	192	45	2	9	43	1.48
1182024--1182272	37	7.0	36	76	12	176	44	2	9	43	1.47
1182262--1182343	36	2.2	37	82	6	96	46	2	8	42	1.47
1182345--1182417	4	17.8	4	78	13	60	23	2	2	71	1.12
1182345--1182417	17	4.4	17	74	14	64	23	2	2	71	1.12
1182365--1182418	17	3.1	17	82	10	65	22	3	0	74	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183550--1183576	14	1.9	14	100	0	54	22	18	0	59	1.38
1183584--1183626	16	2.5	17	81	11	52	20	2	0	76	0.89
1183614--1183677	17	3.7	17	76	12	67	23	3	0	73	0.97
1183605--1183686	42	1.9	41	85	14	112	24	2	0	73	0.96
1187709--1187784	30	2.5	30	74	4	73	19	14	7	57	1.61
1187775--1187836	30	2.1	29	85	11	83	19	12	11	56	1.66
1189846--1189881	17	2.1	17	100	0	72	27	38	5	27	1.79
1190625--1190702	25	3.1	25	88	0	120	11	34	30	23	1.90
1192375--1192420	18	2.6	18	78	0	56	6	30	28	34	1.82
1194322--1194363	20	2.1	20	90	0	66	28	30	4	35	1.78
1201597--1201629	11	3.0	11	90	0	57	18	9	21	51	1.73
1205129--1205202	16	4.6	16	96	0	130	55	25	0	18	1.43
1205532--1205640	38	2.9	36	86	6	146	33	18	13	34	1.90
1207448--1207614	30	5.6	30	68	12	92	17	13	10	58	1.63
1207564--1207629	30	2.2	30	80	0	78	19	13	10	56	1.67
1210279--1210323	12	3.8	12	88	11	67	20	17	26	35	1.95
1210317--1210353	17	2.2	17	95	0	65	29	29	16	24	1.96
1210280--1210332	12	4.6	12	86	4	56	22	20	24	32	1.98
1210632--1210725	21	4.5	21	78	5	91	45	29	0	24	1.53
1210628--1210726	42	2.4	41	80	8	110	46	29	0	24	1.53
1211001--1211030	14	2.1	14	93	0	51	43	0	6	50	1.28
1219662--1219699	8	4.8	8	83	9	51	76	0	2	21	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221512--1221783	45	6.0	45	90	0	391	39	20	15	23	1.91
1221790--1221998	37	5.7	37	82	6	203	45	14	15	23	1.84
1221790--1221997	76	2.8	71	79	5	220	46	14	15	23	1.83
1221825--1222000	39	4.9	34	80	10	154	47	14	15	23	1.82
1231335--1231368	14	2.5	14	90	4	52	23	0	29	47	1.52
1231336--1231368	13	2.4	14	90	5	50	24	0	30	45	1.53
1241661--1242239	65	9.0	65	87	5	802	30	15	22	31	1.94
1242073--1242190	56	2.1	55	87	6	166	28	16	22	33	1.95
1242012--1242236	121	1.9	121	85	3	319	29	14	23	32	1.94
1242129--1242258	65	2.0	64	86	4	181	31	16	22	29	1.96
1242460--1242535	34	2.2	34	83	6	100	55	2	25	17	1.55
1246115--1246589	65	7.3	65	88	1	686	31	14	22	31	1.94
1246763--1246797	17	2.1	17	88	0	52	54	14	20	11	1.70
1247899--1248174	59	4.7	59	91	0	426	39	11	20	28	1.87
1253957--1254054	31	3.3	31	63	23	82	39	10	20	29	1.85
1253909--1254358	59	7.6	59	93	0	749	39	11	21	28	1.88
1254105--1254199	28	3.3	28	66	11	84	36	12	21	29	1.90
1253909--1254358	235	1.9	236	92	0	749	39	11	21	28	1.88
1262441--1262490	23	2.2	23	81	0	55	44	8	14	34	1.74
1262599--1262671	23	3.2	23	90	0	110	45	12	10	31	1.76
1262441--1262829	181	2.1	181	89	0	591	42	10	12	34	1.76
1262780--1262839	23	2.6	23	83	0	75	41	6	18	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262622--1262977	158	2.3	158	86	2	489	43	11	11	33	1.77
1263040--1263282	73	3.4	71	86	4	344	38	14	13	33	1.85
1263370--1263818	112	4.0	111	87	2	621	44	12	12	30	1.80
1267780--1267856	31	2.5	32	82	6	104	27	7	14	50	1.70
1268214--1268251	17	2.2	17	90	4	58	28	0	0	71	0.87
1268623--1268693	25	2.7	28	77	18	89	39	2	1	56	1.23
1269794--1269836	21	2.0	21	100	0	86	44	13	13	27	1.83
1270749--1270778	14	2.1	14	100	0	60	50	13	6	30	1.67
1276883--1276936	27	1.9	29	85	14	78	59	3	3	33	1.33
1277772--1277818	8	5.9	8	75	9	51	59	4	2	34	1.29
1290780--1290824	21	2.1	21	87	0	63	31	28	24	15	1.96
1291753--1291908	31	5.0	31	94	1	260	19	19	23	37	1.95
1295060--1295104	21	2.1	21	91	0	72	33	28	22	15	1.95
1296035--1296190	31	5.0	31	94	1	260	19	19	23	37	1.95
1298927--1298993	31	2.2	30	82	12	75	47	4	17	29	1.67
1301450--1301519	18	3.9	18	82	0	77	31	8	14	45	1.75
1305506--1305601	16	6.1	16	72	22	71	39	1	1	58	1.12
1305513--1305585	25	2.7	27	77	16	71	38	0	1	60	1.06
1305901--1306034	51	2.7	52	82	5	141	19	31	27	21	1.97
1309756--1309787	9	3.6	9	91	0	55	9	34	21	34	1.86
1311638--1311859	111	2.0	111	94	0	390	44	12	7	36	1.70
1311921--1311978	17	3.4	17	95	2	98	63	1	5	29	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314487--1314511	2	12.5	2	100	0	50	52	0	0	48	1.00
1315778--1315827	20	2.5	20	80	6	57	50	10	2	38	1.48
1320086--1320153	3	22.3	3	76	19	61	67	0	1	30	0.99
1320074--1320141	12	6.1	11	78	14	68	70	0	2	26	1.01
1320131--1320380	38	6.8	37	73	12	160	51	3	2	43	1.31
1320210--1320260	24	2.0	24	85	7	66	49	3	0	47	1.20
1320259--1320368	26	4.5	25	66	13	77	49	1	4	44	1.33
1320200--1320556	71	4.8	73	77	13	279	47	5	3	43	1.44
1320344--1320466	47	2.7	46	79	14	139	47	6	4	42	1.48
1320193--1320435	107	2.2	109	82	8	298	48	4	3	43	1.41
1320366--1320518	83	1.8	82	84	8	211	47	7	3	41	1.49
1320382--1320479	47	2.1	47	86	5	137	46	6	3	43	1.43
1320442--1320490	26	1.9	25	91	4	80	48	4	4	42	1.40
1320425--1320562	37	3.5	38	77	10	118	45	6	3	44	1.47
1320580--1320628	2	25.0	2	83	4	55	44	0	6	48	1.27
1321215--1322258	84	12.6	83	77	6	886	24	20	25	29	1.99
1321251--1322281	165	6.2	164	80	4	1052	24	20	24	30	1.99
1321412--1322281	249	3.5	249	86	2	1230	24	20	24	30	1.98
1325224--1325268	21	2.1	21	87	0	63	31	28	24	15	1.96
1326955--1327021	22	3.0	22	95	2	116	19	26	28	25	1.99
1327210--1327242	16	2.0	17	88	5	50	33	0	24	42	1.55
1330030--1330074	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331738--1331804	22	3.0	22	95	2	116	19	26	28	25	1.99
1336790--1336860	3	23.3	3	77	18	67	67	0	1	30	0.99
1336758--1336837	12	6.1	12	75	17	52	73	0	5	21	1.01
1336806--1336885	31	2.8	29	83	10	87	62	2	0	35	1.09
1336843--1337141	36	8.2	36	73	16	142	48	4	2	45	1.34
1336914--1336964	24	2.0	24	85	7	66	49	3	0	47	1.20
1336841--1336989	71	2.2	68	82	8	169	51	3	0	44	1.23
1336963--1337071	26	4.5	25	67	15	86	45	1	4	47	1.33
1336904--1337100	70	2.8	71	81	11	248	46	3	3	46	1.35
1337126--1337157	2	16.5	2	93	6	57	50	0	0	50	1.00

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