genome.fa.s8953.2.7.7.80.10.50.1000.7.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: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2822058

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

This is table  7  of  15  ( 1787 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)
1102801--1102878	38	2.0	38	85	7	104	78	3	5	12	1.06
1104064--1104093	14	2.2	14	94	5	53	60	13	3	23	1.48
1104661--1104817	84	1.9	84	86	2	226	22	19	24	32	1.98
1104859--1104943	37	2.3	36	89	2	134	40	11	21	27	1.88
1104878--1104950	21	3.7	21	74	22	86	43	12	20	23	1.85
1104878--1105066	58	3.1	58	75	12	193	41	12	17	27	1.86
1104936--1105270	138	2.4	138	84	6	455	41	13	17	27	1.87
1105159--1105270	36	3.1	36	90	1	179	38	13	20	27	1.90
1108502--1108541	21	1.9	21	84	0	53	70	5	5	20	1.26
1109446--1109483	7	5.7	7	87	12	62	63	0	0	36	0.95
1109446--1109483	13	2.9	13	100	0	76	63	0	0	36	0.95
1112395--1113350	84	11.4	84	82	3	1007	23	18	24	32	1.97
1112395--1113350	168	5.7	168	84	1	1116	23	18	24	32	1.97
1112396--1113342	502	1.9	502	84	2	1292	23	18	24	32	1.97
1114504--1114667	88	1.9	88	83	2	213	33	18	17	31	1.94
1118307--1118345	19	2.0	21	85	10	55	53	0	7	38	1.30
1119100--1119369	20	13.5	20	81	6	269	37	25	17	20	1.94
1120051--1120097	24	2.0	24	87	8	69	25	14	21	38	1.92
1122516--1122680	33	4.7	34	81	13	183	47	18	20	13	1.82
1122530--1122718	19	10.7	19	77	17	210	46	17	20	15	1.84
1122516--1122718	52	3.9	52	85	10	272	46	18	20	14	1.84
1122727--1122824	19	5.4	19	84	13	143	14	22	17	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122708--1122824	53	2.2	53	96	1	218	13	24	17	43	1.86
1122931--1122967	14	2.6	14	91	0	65	45	21	0	32	1.52
1124881--1125014	19	7.6	19	72	19	96	45	24	19	10	1.81
1124936--1124992	14	3.7	14	77	20	60	45	24	21	8	1.80
1124899--1124992	51	1.9	47	87	8	134	45	25	20	8	1.79
1124918--1125009	33	2.8	33	96	1	168	46	22	20	9	1.80
1125010--1125138	19	7.3	19	75	17	125	8	17	28	45	1.77
1125010--1125101	33	2.8	33	93	3	150	7	18	28	45	1.76
1125185--1125837	93	7.1	93	99	0	1276	45	19	12	21	1.83
1125185--1125837	278	2.4	279	98	0	1276	45	19	12	21	1.83
1127542--1127631	14	5.7	14	68	23	54	45	22	22	10	1.81
1127534--1127641	33	3.3	33	96	0	198	48	19	22	10	1.78
1127556--1127617	19	3.5	19	70	20	71	45	22	20	11	1.83
1127664--1127720	14	3.7	14	75	20	60	8	24	22	43	1.81
1127648--1127728	33	2.5	33	95	0	144	8	22	22	46	1.78
1127705--1127780	21	3.7	21	83	3	109	11	25	17	46	1.82
1127704--1127781	41	1.9	41	97	0	147	12	25	16	44	1.83
1127860--1127930	33	2.2	33	92	0	115	47	18	22	11	1.80
1128110--1128164	22	2.5	22	81	0	74	20	16	40	23	1.91
1128308--1128461	20	7.7	20	81	7	168	18	18	26	37	1.93
1128307--1128461	40	3.8	40	82	4	186	18	18	26	37	1.93
1128448--1128530	21	4.0	21	73	6	78	25	16	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128428--1128526	42	2.4	43	77	11	100	21	18	23	37	1.94
1129010--1129112	21	4.9	22	81	7	106	23	33	14	28	1.94
1129010--1129112	42	2.5	42	80	4	127	23	33	14	28	1.94
1129010--1129154	63	2.3	63	78	7	152	24	34	14	26	1.94
1129234--1129412	21	8.6	20	76	4	97	25	41	10	22	1.85
1129234--1129413	42	4.3	41	78	5	137	25	41	10	22	1.85
1132324--1132412	23	4.0	23	76	12	87	22	17	26	32	1.97
1135179--1135211	3	11.0	3	100	0	66	66	0	0	33	0.92
1137227--1137338	40	2.8	40	78	10	131	42	23	13	20	1.87
1137227--1137339	20	5.7	20	73	10	106	42	23	14	20	1.88
1137307--1137398	20	4.6	20	86	4	114	45	17	16	20	1.85
1137272--1137398	40	3.2	40	82	8	125	45	18	14	20	1.85
1137749--1137799	20	2.5	20	84	9	59	15	19	17	47	1.83
1137809--1137856	19	2.5	19	86	6	62	20	16	31	31	1.95
1138942--1139019	29	2.6	30	73	11	72	21	28	1	48	1.58
1140495--1140551	23	2.5	23	100	0	114	36	8	8	45	1.66
1142078--1142114	17	2.2	17	86	13	51	54	0	8	37	1.30
1142133--1142165	17	1.9	17	93	0	57	33	0	0	66	0.92
1149392--1149452	27	2.3	27	82	2	70	55	4	0	39	1.21
1150188--1150267	34	2.4	35	80	16	98	25	10	25	40	1.86
1151122--1151228	56	1.9	55	83	5	135	12	22	14	51	1.74
1161145--1161173	13	2.2	13	100	0	58	17	34	0	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161721--1161757	3	12.7	3	94	5	67	70	0	0	29	0.88
1161916--1161942	2	13.5	2	100	0	54	51	0	0	48	1.00
1164764--1164836	22	3.2	22	77	13	76	73	4	6	15	1.19
1164764--1164815	11	4.7	11	76	13	54	76	5	1	15	1.05
1164840--1164909	21	3.3	21	75	23	67	75	0	5	18	0.99
1164844--1164911	24	2.7	25	84	10	86	76	0	5	17	0.98
1164780--1164909	11	12.0	10	70	19	59	73	1	6	18	1.14
1164914--1164974	25	2.6	23	79	7	70	63	6	13	16	1.48
1165339--1165375	19	1.9	19	88	0	56	32	27	16	24	1.96
1165420--1165473	21	2.6	21	78	0	63	27	20	20	31	1.97
1165482--1165535	20	2.7	20	97	0	99	25	27	20	25	1.99
1166133--1166170	20	1.9	20	88	0	58	13	13	21	52	1.73
1168077--1168144	20	3.4	20	85	4	93	38	25	19	17	1.93
1168821--1168867	23	2.0	23	91	0	76	23	27	23	25	2.00
1170465--1170509	21	2.1	21	87	0	63	15	24	28	31	1.96
1173795--1173839	23	2.0	23	90	0	72	24	26	26	22	2.00
1175437--1175481	21	2.1	21	87	0	63	15	24	28	31	1.96
1176185--1176257	33	2.2	34	90	2	112	45	19	21	13	1.85
1176224--1176261	20	1.9	20	94	0	67	47	18	21	13	1.82
1176287--1176330	20	2.2	20	91	0	70	15	13	20	50	1.78
1176806--1176913	21	5.1	21	77	4	110	19	36	19	25	1.95
1176806--1176928	42	2.9	41	79	7	131	21	36	18	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176814--1176928	21	5.5	21	72	12	76	21	36	19	22	1.95
1178314--1178348	14	2.5	14	100	0	70	31	0	20	48	1.50
1178480--1178543	20	3.2	20	90	0	101	46	23	17	12	1.81
1178582--1178718	20	6.8	20	88	0	184	29	18	19	32	1.96
1178889--1178923	18	1.9	18	94	0	61	17	2	25	54	1.57
1181200--1181251	24	2.2	24	82	0	59	36	21	19	23	1.95
1182058--1182227	20	8.4	20	73	12	132	24	15	25	33	1.95
1182073--1182228	41	3.8	41	88	1	242	24	15	25	35	1.94
1182076--1182228	81	1.9	82	91	1	254	24	15	25	35	1.94
1183725--1184947	84	14.6	84	84	2	1449	24	19	24	30	1.98
1183705--1184954	419	3.0	416	84	4	1541	25	19	24	30	1.98
1186124--1186329	100	2.1	100	91	2	335	31	16	17	34	1.92
1188918--1188953	13	2.9	12	84	8	54	69	5	8	16	1.33
1188987--1189050	17	3.9	15	77	18	58	76	0	3	20	0.92
1189053--1189114	25	2.6	24	82	10	74	67	6	11	14	1.40
1190539--1190565	14	1.9	14	100	0	54	22	7	25	44	1.79
1191164--1191188	2	12.5	2	100	0	50	52	0	0	48	1.00
1196939--1197255	116	2.7	116	99	0	616	32	19	14	33	1.92
1197807--1197842	2	18.0	2	100	0	72	50	0	0	50	1.00
1204742--1204830	30	3.0	30	91	0	151	30	7	26	34	1.85
1208910--1208990	36	2.2	36	100	0	162	24	17	12	45	1.82
1209160--1209218	29	2.0	30	87	9	86	18	6	13	61	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218762--1218786	7	3.6	7	100	0	50	56	0	16	28	1.41
1219971--1220001	14	2.2	14	94	0	53	41	9	6	41	1.63
1220436--1220483	19	2.6	19	86	3	62	79	2	0	18	0.84
1220449--1220487	13	2.9	14	80	7	53	79	0	0	20	0.73
1223739--1223889	75	2.0	75	96	0	275	39	9	23	26	1.86
1232486--1232536	22	2.3	22	96	0	93	25	13	27	33	1.94
1233056--1233519	20	20.6	20	66	23	153	43	11	23	21	1.86
1233074--1233577	46	11.0	46	85	3	658	43	12	22	21	1.86
1233074--1233577	138	3.7	138	88	2	746	43	12	22	21	1.86
1237473--1237513	3	14.0	3	90	10	59	31	0	0	68	0.90

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