genome.fa.s8737.2.7.7.80.10.50.1000.6.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: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2791265

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

This is table  6  of  14  ( 1580 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)
1100991--1101039	22	2.1	24	85	14	68	71	8	14	6	1.29
1104357--1104470	42	2.8	42	90	5	180	52	21	7	18	1.69
1108015--1108046	7	4.6	7	100	0	64	31	12	0	56	1.37
1108089--1108120	14	2.2	15	94	5	57	37	6	0	56	1.25
1108837--1108888	20	2.5	21	81	3	61	40	19	23	17	1.91
1108877--1109011	20	6.7	20	80	7	139	34	22	17	24	1.96
1108874--1109011	41	3.4	41	79	8	165	36	22	17	23	1.95
1109174--1109216	21	2.0	22	90	4	70	20	44	16	18	1.87
1109476--1109523	19	2.5	20	89	3	71	16	18	27	37	1.92
1110783--1110827	18	2.5	18	85	0	63	26	42	15	15	1.87
1111309--1111375	20	3.4	20	81	2	73	38	23	22	14	1.92
1111348--1111437	32	2.8	32	88	5	137	47	21	18	12	1.81
1111454--1111544	14	5.9	14	74	20	83	10	17	23	48	1.79
1111449--1111560	33	3.4	33	97	1	208	11	18	22	47	1.81
1111545--1111600	20	2.8	19	86	7	76	16	25	23	35	1.94
1111633--1111699	25	2.6	26	76	11	75	22	8	16	52	1.71
1111965--1112052	41	2.1	41	85	2	122	21	43	14	20	1.88
1113460--1113495	14	2.6	14	90	0	54	30	0	22	47	1.52
1113612--1113648	19	1.9	19	88	0	56	51	16	21	10	1.74
1113691--1113774	20	4.2	20	78	6	107	16	22	22	38	1.93
1113667--1113754	40	2.4	36	80	12	90	18	20	19	42	1.90
1113988--1114037	20	2.5	20	80	0	73	22	18	22	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114064--1114136	21	3.5	21	92	1	112	21	23	16	38	1.93
1114063--1114151	41	2.1	42	79	2	99	26	21	16	34	1.95
1114333--1114366	12	2.9	12	86	4	52	17	41	5	35	1.74
1114921--1114974	24	2.2	24	86	0	72	24	16	18	40	1.90
1115149--1115185	12	3.1	12	92	0	65	70	0	27	2	1.01
1117467--1117558	19	5.4	19	66	24	78	43	19	20	16	1.88
1117466--1117559	33	2.8	33	90	4	145	42	20	20	17	1.89
1117742--1117778	14	2.6	14	91	0	65	45	24	0	29	1.53
1119153--1119267	21	5.5	21	67	10	58	24	21	31	22	1.98
1119134--1119275	41	3.5	40	75	13	144	23	19	35	22	1.96
1119163--1119337	42	4.2	42	76	3	174	24	17	36	22	1.95
1119163--1119337	84	2.1	83	94	1	305	24	17	36	22	1.95
1119559--1119740	91	2.0	89	88	6	265	47	18	12	21	1.81
1121445--1121543	33	3.0	33	92	1	162	39	23	26	11	1.88
1121420--1121565	19	8.1	19	72	17	114	42	20	24	12	1.86
1121561--1121605	19	2.4	19	92	0	72	8	15	26	48	1.74
1122155--1122193	20	2.0	20	100	0	78	30	20	28	20	1.98
1122222--1122275	20	2.7	20	97	0	99	25	18	24	31	1.97
1122346--1122386	21	2.0	21	85	0	55	34	31	17	17	1.93
1125578--1125622	22	2.0	22	91	0	72	28	13	13	44	1.81
1127021--1127056	18	2.0	18	88	0	54	50	5	0	44	1.25
1128808--1128864	31	1.9	31	86	10	84	64	5	0	29	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128853--1128946	29	3.2	29	90	4	143	52	10	0	37	1.36
1128939--1129041	33	3.1	32	83	10	127	40	20	3	34	1.71
1128937--1129190	36	7.3	35	75	11	159	39	14	5	39	1.71
1128950--1129058	34	3.3	32	81	8	112	40	19	4	35	1.72
1128994--1129189	72	2.8	71	79	5	191	38	13	7	41	1.72
1128994--1129185	36	5.4	36	78	7	171	36	13	7	42	1.72
1129166--1129269	39	2.6	38	86	11	147	44	10	5	39	1.63
1129236--1129292	22	2.5	23	82	8	71	43	12	3	40	1.59
1132836--1132885	26	2.0	26	84	11	68	54	18	4	24	1.61
1134691--1134718	2	14.0	2	100	0	56	50	0	0	50	1.00
1135075--1135691	51	11.8	54	89	5	377	25	26	18	30	1.98
1135237--1136304	51	20.8	51	90	2	1608	24	25	19	30	1.98
1135147--1136304	103	11.2	102	89	3	1609	24	25	19	30	1.98
1135147--1136304	154	7.5	154	89	3	1649	24	25	19	30	1.98
1137860--1138122	125	2.1	126	84	3	334	24	27	17	31	1.97
1146660--1146745	38	2.3	35	86	11	109	46	2	6	44	1.43
1146806--1146843	2	19.5	2	94	5	69	50	0	0	50	1.00
1146770--1146882	57	2.0	57	91	6	185	43	2	7	46	1.44
1146870--1147031	36	4.5	35	89	6	202	42	3	6	46	1.48
1146828--1147031	72	2.8	69	81	12	212	42	3	7	47	1.48
1147002--1147053	27	1.9	26	84	7	68	38	3	7	50	1.50
1146826--1147053	72	3.1	70	75	17	187	42	3	7	46	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148315--1148352	17	2.1	19	85	9	53	13	5	2	78	1.02
1148322--1148408	29	3.2	27	84	10	115	17	5	3	73	1.17
1148328--1148423	29	3.5	28	70	19	71	16	6	3	73	1.16
1149018--1149062	23	1.9	24	90	4	74	60	0	11	28	1.31
1150395--1150446	23	2.4	21	87	6	68	57	0	5	36	1.23
1150395--1150447	21	2.4	22	87	6	72	56	0	5	37	1.23
1152571--1152619	25	2.0	25	87	0	71	24	44	10	20	1.82
1153832--1153988	40	4.0	40	79	10	151	35	17	11	35	1.86
1154519--1154768	43	5.9	43	77	4	170	28	19	23	28	1.98
1156288--1156472	40	4.6	40	68	14	128	31	23	17	27	1.97
1156346--1156584	41	5.9	40	74	10	191	32	22	15	30	1.95
1156288--1156593	81	3.8	81	85	5	363	31	21	16	29	1.96
1160040--1160097	21	2.8	21	89	2	82	18	8	20	51	1.72
1160312--1160402	44	2.1	42	86	8	121	32	16	20	29	1.95
1164727--1164947	109	2.0	109	99	0	433	34	19	22	23	1.96
1166562--1166595	16	2.1	17	88	5	52	20	0	8	70	1.13
1167523--1167602	2	40.5	2	92	7	137	47	1	0	51	1.08
1167523--1167602	27	3.0	27	98	0	151	47	1	0	51	1.08
1169146--1169281	68	2.0	68	100	0	272	38	22	14	25	1.92
1179096--1179138	23	2.0	21	86	9	59	67	0	16	16	1.24
1187218--1187301	42	2.0	42	95	0	150	29	22	11	35	1.90
1189463--1189509	24	2.0	24	86	0	67	80	12	4	2	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195316--1195397	41	2.0	42	95	2	148	36	6	40	17	1.74
1206370--1206412	22	2.0	20	86	8	59	67	0	20	11	1.22
1209368--1209406	21	1.9	20	85	15	53	25	2	10	61	1.41
1209368--1209406	20	1.9	21	85	15	55	25	2	10	61	1.41
1209587--1209697	23	4.8	24	76	8	113	21	19	25	33	1.97
1216874--1216907	16	2.1	16	88	0	50	61	0	0	38	0.96
1217293--1217364	21	3.7	21	66	22	66	36	11	20	31	1.88
1217299--1217532	36	6.6	36	73	12	189	40	13	17	27	1.88
1217306--1217532	73	3.2	73	69	14	222	40	13	17	28	1.88
1218311--1218624	110	2.9	108	92	3	510	25	17	22	34	1.96
1223343--1223376	16	2.1	16	88	0	50	61	0	0	38	0.96
1223344--1223392	18	2.6	19	77	6	55	67	0	0	32	0.91
1223344--1223392	24	2.2	24	82	17	61	67	0	0	32	0.91
1225059--1225105	21	2.1	21	84	7	58	61	19	10	8	1.53
1228647--1228703	19	3.0	19	89	0	87	33	5	24	36	1.78
1228644--1228752	19	5.4	19	71	13	74	36	6	23	33	1.81
1230955--1230979	10	2.5	10	100	0	50	24	24	0	52	1.48
1231767--1231805	17	2.3	17	86	8	53	38	0	2	58	1.12
1235933--1235960	2	14.0	2	100	0	56	50	0	0	50	1.00
1240328--1240435	35	3.1	35	83	0	117	32	20	14	32	1.93
1244556--1244629	19	3.9	19	80	7	96	48	5	13	32	1.65
1246697--1246746	19	2.6	19	100	0	100	30	18	30	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255819--1255877	23	2.8	21	82	7	66	22	30	27	20	1.98
1263459--1263531	18	3.9	18	71	7	65	21	19	30	28	1.98
1273572--1273732	64	2.5	62	83	7	180	34	18	21	26	1.96
1274326--1274386	23	2.7	23	84	5	79	21	29	22	26	1.99
1275942--1275972	11	2.8	11	90	0	53	54	22	0	22	1.44
1278216--1278279	21	3.0	21	81	4	74	17	23	35	23	1.95
1283483--1283538	27	2.0	28	96	3	105	58	16	10	14	1.62
1284714--1284783	35	2.0	35	97	2	133	28	14	28	28	1.95
1284718--1284791	35	2.1	35	92	2	123	29	14	31	24	1.95
1287837--1287886	26	2.0	26	92	4	84	34	12	6	48	1.65

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