genome.fa.s7711.2.7.7.80.10.50.1000.5.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: VEPZ01007711.1 Hibiscus syriacus cultivar Beakdansim tig00109926_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1768490

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 857 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)
1010639--1010743	31	3.4	30	88	2	147	37	15	18	29	1.91
1011471--1011527	20	2.8	20	86	2	69	19	14	29	36	1.91
1011823--1012013	105	1.8	104	85	4	269	32	11	12	43	1.77
1012715--1012755	22	1.9	22	85	5	57	24	4	0	70	1.06
1022628--1022677	2	25.0	2	88	8	75	48	2	2	48	1.24
1025729--1025801	31	2.4	30	86	6	110	50	15	15	19	1.78
1026256--1026313	26	2.2	26	87	6	82	29	3	5	62	1.33
1026495--1026582	44	2.0	44	81	0	104	29	20	9	40	1.83
1026986--1027262	137	2.0	138	93	0	475	31	17	14	36	1.90
1027726--1027760	16	2.1	17	89	5	54	48	0	8	42	1.33
1027787--1027825	17	2.3	17	90	0	60	58	2	0	38	1.12
1031042--1031805	159	5.0	157	78	10	713	28	18	17	34	1.94
1031279--1031479	77	2.9	65	75	16	197	28	20	18	31	1.97
1031344--1031805	79	5.9	78	84	4	513	29	19	16	35	1.93
1039760--1039794	3	11.7	3	100	0	70	65	0	0	34	0.93
1044488--1044620	51	2.6	51	89	3	189	51	16	7	24	1.70
1044581--1044661	41	2.0	41	90	0	126	56	19	3	19	1.56
1044790--1044833	22	2.2	19	84	15	54	54	0	0	45	0.99
1044804--1044841	18	2.1	19	85	5	51	55	0	5	39	1.23
1046437--1046505	31	2.2	31	97	0	129	36	14	21	27	1.93
1067397--1067429	16	2.1	16	88	11	50	57	3	6	33	1.38
1067898--1068013	60	1.9	60	82	0	142	36	16	13	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070421--1070466	23	2.0	23	95	0	83	30	2	0	67	1.03
1070912--1070956	16	2.9	16	78	18	51	40	0	0	60	0.97
1071100--1071218	42	2.9	41	77	9	125	25	10	5	59	1.50
1071223--1071359	42	3.2	42	76	4	141	28	21	5	44	1.75
1071369--1071576	86	2.5	83	86	6	269	26	17	5	50	1.67
1071369--1071580	43	5.0	42	80	6	225	26	16	6	49	1.70
1072999--1073088	46	2.0	46	90	0	144	50	6	5	37	1.52
1081520--1081631	60	1.9	59	83	5	145	36	16	9	37	1.81
1088779--1089174	197	2.0	197	91	0	639	30	18	18	32	1.95
1090457--1090526	20	3.7	18	69	16	52	40	4	0	55	1.19
1110068--1110591	261	2.0	260	96	0	976	25	13	16	44	1.84
1115233--1115265	2	17.0	2	93	6	59	51	0	0	48	1.00
1115222--1115265	23	1.9	23	90	9	72	52	2	0	45	1.13
1115809--1115933	60	2.1	60	80	3	135	35	12	14	37	1.84
1117643--1117695	23	2.3	23	83	9	81	30	24	33	11	1.90
1117713--1117797	29	2.9	29	96	0	152	20	30	35	14	1.92
1117856--1117912	29	2.0	29	93	6	98	21	31	35	12	1.90
1119048--1119150	4	24.2	4	70	20	52	23	2	4	68	1.22
1119048--1119147	27	3.8	26	70	18	73	23	3	5	69	1.22
1121147--1121183	12	3.0	12	92	4	56	18	54	16	10	1.71
1121194--1121315	2	65.5	2	74	13	109	50	0	0	49	1.00
1146282--1146512	113	2.0	113	99	0	453	23	23	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150078--1150123	22	2.1	22	84	8	58	39	8	13	39	1.75
1152627--1152670	18	2.4	18	88	0	70	52	2	45	0	1.13
1152633--1152670	6	6.3	6	96	0	67	52	0	47	0	1.00
1167482--1167566	21	4.2	20	86	5	109	57	9	7	25	1.55
1167482--1167566	41	2.1	41	84	8	111	57	9	7	25	1.55
1168094--1168324	29	8.0	28	84	6	196	32	4	15	47	1.66
1168187--1168344	29	5.5	28	84	6	167	34	4	14	46	1.65
1168158--1168370	57	3.7	58	83	8	233	35	4	14	45	1.65
1168158--1168323	86	1.9	86	91	2	271	34	4	14	46	1.66
1170947--1170981	2	17.5	2	100	0	70	48	0	0	51	1.00
1173047--1173111	27	2.4	28	76	7	71	56	1	0	41	1.08
1176955--1177324	184	2.0	184	93	2	636	41	3	8	45	1.53
1177330--1177363	9	3.7	9	96	4	59	23	8	17	50	1.74
1180974--1181539	217	2.6	217	100	0	1132	31	26	20	21	1.98
1181496--1181572	33	2.3	33	100	0	154	31	38	19	10	1.85
1181279--1181758	250	1.9	250	100	0	960	31	26	20	21	1.98
1181737--1181770	3	11.3	3	100	0	68	32	35	32	0	1.58
1210191--1210242	27	2.0	25	81	7	59	61	3	19	15	1.48
1210903--1210952	24	2.1	24	85	7	66	18	16	10	56	1.67
1214704--1214754	26	2.0	26	88	7	77	41	0	3	54	1.19
1215420--1215448	11	2.5	12	88	11	51	62	0	0	37	0.96
1220111--1220152	21	2.0	21	95	0	75	35	28	14	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221682--1221800	24	5.0	24	86	4	168	40	21	12	25	1.89
1222845--1222921	28	2.8	28	84	5	95	24	16	19	38	1.92
1230849--1230904	2	28.5	2	87	3	78	48	3	1	46	1.30
1236795--1236824	2	15.0	2	100	0	60	0	50	0	50	1.00
1236972--1237024	26	2.0	26	100	0	106	39	15	11	33	1.83
1237067--1237123	17	3.1	17	83	14	69	24	5	12	57	1.55
1237072--1237113	21	2.0	21	100	0	84	28	4	9	57	1.51
1240159--1240204	22	2.1	22	100	0	92	17	4	28	50	1.65
1250341--1250375	4	8.8	4	87	0	52	48	25	2	22	1.64
1252763--1252809	10	4.3	12	75	22	50	68	0	0	31	0.90
1254495--1254553	23	2.6	23	88	0	91	33	35	10	20	1.86
1276903--1276937	16	2.1	17	89	5	54	40	0	0	60	0.97
1277472--1277586	60	1.9	60	84	7	153	20	31	26	20	1.98
1285125--1285189	30	2.2	30	86	5	87	33	16	24	24	1.96
1287743--1287803	21	2.9	21	80	0	68	32	24	21	21	1.98
1289569--1289614	20	2.3	20	80	0	56	19	2	28	50	1.60
1290659--1290683	10	2.5	10	100	0	50	20	0	0	80	0.72
1291318--1291362	14	3.2	14	96	0	81	6	8	28	55	1.56
1291338--1291407	24	2.9	24	78	0	77	15	8	17	58	1.61
1292129--1292194	16	4.2	16	90	3	91	10	9	19	60	1.56
1292123--1292186	32	2.0	31	90	3	101	7	10	23	57	1.58
1292187--1292243	29	2.0	29	82	0	69	49	14	7	29	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292253--1292293	16	2.7	16	85	7	59	12	9	17	60	1.57
1292884--1292938	20	3.1	18	80	15	53	49	3	14	32	1.61
1292898--1292938	18	2.4	18	80	15	52	53	2	14	29	1.54
1293751--1293792	20	2.2	19	87	8	59	47	2	16	33	1.60
1296316--1296346	7	4.4	7	91	0	53	45	35	0	19	1.51
1296197--1296372	95	1.9	94	83	3	228	42	19	7	31	1.79
1297447--1297496	22	2.3	22	80	16	59	44	2	12	42	1.53
1298321--1298364	21	2.1	21	100	0	88	34	0	4	61	1.16
1309579--1309675	43	2.3	43	100	0	194	59	8	6	25	1.49
1309999--1310027	2	14.5	2	100	0	58	48	0	0	51	1.00
1313975--1314015	17	2.7	14	80	20	55	46	34	14	4	1.66
1314227--1314547	162	2.0	158	84	7	416	46	4	8	41	1.52
1314704--1314815	57	2.0	57	90	0	179	37	17	14	30	1.90
1314794--1314834	20	2.0	20	90	0	64	43	19	12	24	1.85
1314737--1314912	77	2.3	77	90	0	280	38	18	14	28	1.90
1314871--1314931	20	3.0	20	92	0	104	39	19	16	24	1.92
1314794--1315105	97	3.2	97	96	0	552	38	19	14	27	1.91
1314968--1315028	20	3.0	20	100	0	122	39	19	16	24	1.92
1314988--1315182	77	2.5	77	96	0	363	37	19	15	27	1.92
1315065--1315105	20	2.0	20	95	0	73	39	17	17	26	1.91
1315142--1315200	20	3.0	20	92	0	100	42	18	13	25	1.87
1314737--1315209	174	2.7	173	87	5	627	37	19	14	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315248--1315291	20	2.2	20	95	0	79	15	20	18	45	1.85
1319315--1319380	33	2.0	33	100	0	132	12	30	21	36	1.90
1321542--1321665	67	1.9	62	84	15	162	36	16	22	25	1.94
1330063--1330094	2	16.0	2	100	0	64	50	0	0	50	1.00
1330125--1330174	20	2.5	20	80	6	57	56	8	0	36	1.29
1340683--1340713	14	2.2	14	94	0	53	22	22	22	32	1.98
1342249--1342274	2	13.0	2	100	0	52	50	0	0	50	1.00
1351643--1351705	29	2.2	29	94	0	108	15	28	31	23	1.96
1352288--1352331	21	2.1	21	91	0	70	29	0	15	54	1.42
1352308--1352370	28	2.2	30	91	5	103	31	0	11	57	1.34

Tables:   1   2   3   4   5   6   7   8