genome.fa.s7751.2.7.7.80.10.50.1000.5.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: VEPZ01007751.1 Hibiscus syriacus cultivar Beakdansim tig00110017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1434969

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 636 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)
1020767--1020835	29	2.4	29	82	0	75	39	15	13	31	1.86
1021550--1021593	22	2.0	22	86	0	61	25	13	47	13	1.79
1038170--1038701	277	1.9	277	88	1	798	40	20	12	25	1.88
1045329--1045594	65	4.1	65	88	0	372	31	21	13	32	1.93
1049373--1049451	36	2.3	35	91	6	126	21	35	18	24	1.96
1050720--1050809	32	2.8	31	76	3	99	40	2	7	50	1.44
1053513--1053672	77	2.1	77	93	0	275	23	23	23	30	1.99
1063995--1064062	32	2.1	33	84	13	88	44	8	26	20	1.81
1073402--1073752	175	2.0	176	98	1	679	31	13	11	43	1.80
1075121--1075164	21	2.2	20	83	4	52	43	2	2	52	1.26
1093310--1093351	16	2.6	16	88	0	57	76	0	9	14	1.02
1093540--1093642	31	3.3	31	72	17	81	27	13	6	52	1.65
1102520--1102559	17	2.4	17	95	0	71	50	5	20	25	1.68
1106425--1106473	2	24.0	2	95	4	89	48	0	2	48	1.12
1106426--1106480	6	8.6	7	95	4	59	47	0	5	47	1.25
1109154--1109254	46	2.2	46	94	5	179	22	11	11	53	1.70
1110996--1111020	12	2.1	12	100	0	50	40	16	28	16	1.89
1112177--1112213	18	2.1	18	89	0	56	64	13	5	16	1.45
1113717--1113750	17	2.0	17	88	0	50	58	5	0	35	1.22
1114772--1114811	19	1.9	19	85	14	53	40	2	0	57	1.12
1114825--1114954	30	4.9	27	77	20	116	35	6	0	57	1.29
1114816--1114925	53	2.0	55	86	10	156	35	5	0	59	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115235--1115303	21	3.5	19	80	16	68	50	0	8	40	1.33
1116409--1116439	16	2.0	15	93	6	53	45	0	9	45	1.36
1117039--1117086	2	24.0	2	100	0	96	50	0	0	50	1.00
1117472--1117504	12	2.8	12	95	0	57	24	0	9	66	1.20
1118132--1118184	21	2.5	21	81	6	72	20	26	18	33	1.96
1118159--1118247	41	2.1	42	79	2	99	35	17	20	25	1.95
1118174--1118246	21	3.5	21	92	1	112	39	16	21	21	1.92
1118235--1118329	20	4.7	20	79	7	111	33	26	18	21	1.96
1119070--1119123	24	2.2	24	90	0	81	22	16	20	40	1.91
1121626--1121776	19	8.8	17	70	23	86	43	19	24	12	1.85
1121664--1121751	14	5.6	14	70	23	59	44	19	25	11	1.84
1121646--1121772	33	3.8	33	97	0	236	44	18	24	11	1.83
1121772--1121834	19	3.3	19	93	4	101	12	17	25	44	1.84
1121825--1121881	14	3.7	14	75	20	60	10	24	21	43	1.83
1121806--1121899	33	2.8	33	98	0	179	11	23	20	44	1.84
1121782--1121899	19	6.7	19	73	20	114	11	22	21	45	1.82
1122006--1122042	14	2.6	14	91	0	65	45	21	0	32	1.52
1123431--1123510	42	1.9	42	84	0	106	22	17	38	21	1.93
1123959--1123991	17	1.9	17	88	11	50	45	15	15	24	1.84
1123895--1124199	94	3.3	94	93	3	494	46	19	12	21	1.82
1125879--1125943	20	3.2	21	85	10	100	50	15	23	10	1.75
1125949--1126052	19	5.7	19	76	12	110	11	19	23	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125962--1126052	33	2.6	33	84	10	110	12	20	21	45	1.84
1126594--1126789	20	9.6	20	72	10	139	23	19	19	36	1.95
1126594--1126687	41	2.3	40	87	1	125	20	20	19	40	1.92
1126618--1126871	102	2.5	101	78	10	257	27	18	22	32	1.97
1126779--1126831	21	2.5	20	85	8	79	33	16	26	22	1.96
1126819--1126871	20	2.7	20	96	0	97	30	16	24	28	1.97
1127628--1127693	30	2.2	31	88	2	98	40	10	24	24	1.86
1130430--1130469	21	1.9	21	89	0	62	32	15	27	25	1.95
1133033--1133060	2	14.0	2	100	0	56	50	0	0	50	1.00
1142240--1142294	22	2.4	23	73	11	60	54	7	14	23	1.65
1143375--1143560	92	2.0	92	95	0	336	47	10	11	30	1.74
1143716--1143836	64	1.9	65	87	5	183	42	7	5	43	1.56
1143810--1143867	20	3.0	20	69	23	61	41	6	3	48	1.47
1144405--1144429	6	4.2	6	100	0	50	16	0	48	36	1.46
1145053--1145122	31	2.3	29	78	9	77	55	0	11	32	1.36
1147967--1148003	4	9.2	4	93	0	56	45	24	5	24	1.74
1153755--1153874	64	1.9	64	91	3	197	53	9	1	35	1.43
1157694--1157811	60	2.0	59	81	8	141	37	6	24	31	1.82
1158404--1158496	48	2.0	47	93	6	163	54	9	18	17	1.69
1158608--1158679	26	2.8	25	74	12	74	33	1	2	62	1.18
1159600--1159646	24	2.0	24	83	8	60	42	0	2	55	1.12
1164845--1164875	4	7.8	4	92	0	53	51	25	0	22	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170227--1170278	14	3.6	14	76	19	54	15	0	40	44	1.46
1172765--1172832	37	1.9	36	85	11	97	52	0	0	47	1.00
1177922--1177946	8	3.1	8	100	0	50	28	0	60	12	1.32
1195045--1195102	21	2.8	21	76	5	64	27	20	24	27	1.99
1209357--1209415	32	1.9	32	83	10	79	27	1	10	61	1.38
1217857--1217893	3	12.7	3	83	16	51	70	0	2	27	1.01
1217857--1217898	12	3.5	11	84	15	57	71	0	2	26	0.98
1217932--1218012	42	1.9	42	84	2	108	45	6	2	45	1.41
1217996--1218071	30	2.6	28	85	6	89	46	5	2	46	1.39
1218036--1218189	39	4.0	39	89	5	208	46	4	5	44	1.46
1225285--1225325	21	1.9	22	85	5	57	43	26	0	29	1.55
1234798--1234851	21	2.7	19	81	13	63	55	5	3	35	1.41
1240495--1242002	335	4.5	334	89	3	2175	37	20	16	24	1.93
1244652--1244690	20	2.0	20	89	0	60	51	2	0	46	1.14
1251818--1251947	61	2.2	60	80	4	145	36	10	12	41	1.76
1264382--1264440	20	2.8	20	79	7	64	44	0	6	49	1.29
1267860--1267890	2	15.5	2	93	0	53	48	3	48	0	1.17
1269112--1269151	21	1.9	21	84	0	53	27	5	2	65	1.27
1270384--1270560	60	3.0	59	80	4	203	38	5	22	33	1.78
1270824--1270917	28	3.2	28	71	8	80	35	10	11	42	1.76
1274769--1274878	55	2.0	54	80	5	123	50	4	12	32	1.61
1276929--1277258	165	2.0	164	97	1	626	26	16	21	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279973--1280044	26	3.0	24	70	27	62	63	4	5	26	1.34
1281831--1282148	110	3.0	108	85	8	395	50	9	4	35	1.55
1281858--1282187	111	3.1	109	86	6	426	47	10	6	36	1.62
1286143--1286180	15	2.6	15	95	4	69	15	18	26	39	1.91
1286681--1286708	6	4.7	6	100	0	56	67	32	0	0	0.91
1288644--1288866	116	1.9	115	90	8	362	37	17	11	34	1.86
1289136--1289223	40	2.1	42	87	4	126	31	13	31	22	1.93
1289901--1290055	60	2.6	60	82	3	170	34	27	3	34	1.73
1290173--1290352	60	3.1	56	75	9	155	47	7	14	31	1.71
1297898--1297931	10	3.3	10	88	8	50	14	0	5	79	0.91
1297921--1297973	16	3.4	16	82	12	65	32	1	0	66	1.03
1297916--1297988	38	1.9	37	83	2	92	36	1	0	61	1.05
1297916--1297973	3	19.0	3	80	16	66	31	1	0	67	1.01
1300939--1300970	2	16.5	2	93	6	57	50	0	0	50	1.00
1310533--1310593	19	3.4	19	68	25	51	36	21	11	31	1.89
1311181--1311621	123	3.6	124	94	0	733	40	14	19	24	1.90
1311957--1312038	16	5.1	16	73	19	80	34	1	0	64	1.01
1311957--1312036	25	3.2	24	82	10	99	33	1	0	65	1.01
1311951--1312036	3	28.0	3	76	17	79	32	1	0	66	1.00
1321864--1321916	17	3.1	17	100	0	106	35	24	28	11	1.90
1325873--1325973	51	2.0	51	84	3	132	13	20	9	55	1.67
1327818--1327919	51	2.0	51	100	0	204	23	7	23	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333958--1334109	63	2.4	63	92	2	245	23	19	23	34	1.96
1333976--1334177	105	1.9	104	92	4	343	20	19	24	35	1.96
1333961--1334180	21	10.6	21	76	13	213	20	19	24	35	1.96
1334175--1334241	20	3.3	20	65	19	57	25	16	28	29	1.97
1334154--1334263	41	2.7	41	94	1	186	23	18	30	28	1.98
1340888--1340929	19	2.1	20	82	8	50	40	4	4	50	1.45
1345670--1345711	18	2.3	19	84	8	52	21	0	45	33	1.52
1349996--1350095	47	2.1	47	92	1	166	23	24	23	30	1.99
1358392--1358463	32	2.2	32	85	0	99	18	16	16	48	1.81
1359707--1360119	114	3.7	112	85	7	563	27	11	20	40	1.86

Tables:   1   2   3   4   5   6