genome.fa.s8558.2.7.7.80.10.50.1000.5.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: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2950132

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

This is table  5  of  14  ( 1626 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)
885206--885273	19	3.4	19	72	20	57	48	1	5	44	1.36
888036--888122	44	2.0	44	93	0	147	51	2	16	29	1.56
892506--893216	55	12.9	55	85	1	881	29	16	17	36	1.91
892507--893216	221	3.2	218	87	3	951	29	16	17	36	1.91
892497--893216	276	2.6	275	86	2	991	29	16	17	36	1.91
893120--893233	54	2.1	54	85	0	147	32	15	17	34	1.92
893816--893852	2	18.5	2	100	0	74	51	0	0	48	1.00
894581--894620	20	2.0	20	85	0	53	37	10	30	22	1.87
894592--894631	10	4.0	10	86	0	62	37	10	25	27	1.88
898815--898854	21	1.9	21	90	10	64	52	0	10	37	1.35
902665--902716	23	2.3	23	77	6	63	23	40	19	17	1.91
902697--902736	21	1.9	21	89	0	62	25	40	25	10	1.86
909031--909072	18	2.5	17	81	11	50	42	9	7	40	1.65
909075--909132	30	1.9	30	82	6	73	37	8	18	34	1.82
913277--913426	40	3.8	40	90	0	228	23	13	26	36	1.92
916314--916366	3	17.3	3	96	3	97	32	0	0	67	0.91
920414--920439	13	2.0	13	100	0	52	61	7	0	30	1.24
921038--922591	180	8.6	181	93	1	2574	27	17	12	41	1.86
921038--922592	542	2.9	540	93	2	2624	28	17	12	41	1.86
932354--932538	58	3.2	58	91	0	307	40	12	9	37	1.76
932855--932893	18	2.2	18	85	0	51	41	0	5	53	1.23
934587--934701	45	2.6	45	80	5	133	39	17	8	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948016--948054	17	2.3	18	86	8	55	38	2	0	58	1.12
948605--949069	182	2.6	182	89	0	698	43	13	17	26	1.85
948999--949045	20	2.4	19	82	10	67	53	8	17	21	1.70
949008--949050	20	2.3	18	88	11	61	51	9	16	23	1.73
951480--952501	182	5.6	182	93	1	1748	42	12	16	28	1.85
952637--952803	87	1.9	86	92	3	282	35	12	10	41	1.77
952721--952765	23	2.0	23	86	0	63	37	15	8	37	1.79
953291--953337	19	2.5	19	80	10	51	68	12	6	12	1.39
953312--953364	20	2.5	22	84	9	65	67	9	3	18	1.33
954711--954743	13	2.8	12	90	9	50	51	3	0	45	1.16
957517--957569	26	2.1	25	85	3	70	28	24	5	41	1.77
958093--958134	18	2.3	18	100	0	84	45	16	33	4	1.69
959614--959757	51	2.8	52	78	5	159	39	11	11	38	1.76
969338--969387	23	2.2	23	85	0	64	20	32	22	26	1.98
973458--973951	54	9.1	54	91	0	790	31	13	18	36	1.89
974138--974232	49	1.9	49	84	0	127	34	16	26	22	1.95
990586--990620	17	2.1	17	88	0	52	0	22	2	74	0.95
992128--992178	20	2.5	20	83	0	66	31	13	17	37	1.89
994548--994581	17	2.0	17	94	0	59	11	26	11	50	1.73
1011790--1011855	23	2.9	23	88	0	96	30	25	27	16	1.97
1018526--1018577	21	2.4	22	81	9	63	32	26	19	21	1.97
1039768--1039833	27	2.4	26	80	14	71	71	4	6	18	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040502--1040557	29	2.0	29	89	3	87	46	5	16	32	1.69
1041981--1042708	219	3.3	219	85	2	917	26	15	24	33	1.95
1043624--1043718	6	15.5	6	73	12	68	4	15	3	76	1.06
1043624--1043709	25	3.4	25	80	15	90	3	15	3	77	1.03
1043624--1043664	17	2.6	16	78	14	50	4	14	2	78	1.03
1043646--1043718	19	3.9	19	77	21	66	4	16	2	76	1.05
1043625--1043718	20	4.7	19	76	16	68	4	14	3	77	1.04
1043624--1043718	31	3.1	30	79	10	95	4	15	3	76	1.06
1043624--1043723	25	4.0	24	74	17	80	4	17	3	76	1.07
1049766--1049810	22	2.0	23	86	4	65	31	13	31	24	1.93
1049691--1049875	95	1.9	96	84	1	246	32	15	25	27	1.95
1049683--1049888	95	2.1	96	81	1	243	33	14	25	26	1.94
1050241--1050988	59	12.7	59	90	1	1040	35	14	20	29	1.92
1053444--1053486	15	2.9	14	78	21	52	53	11	18	16	1.72
1055585--1055623	19	2.0	20	85	5	53	25	30	2	41	1.69
1057865--1057927	27	2.3	27	83	5	74	69	1	9	19	1.24
1058525--1058606	33	2.5	32	84	7	101	54	4	13	26	1.59
1060694--1060744	15	3.4	15	77	15	52	54	0	1	43	1.11
1060707--1060754	25	1.9	25	86	0	69	60	0	0	39	0.97
1060707--1060744	17	2.4	17	86	8	53	55	0	0	44	0.99
1073689--1073747	24	2.5	24	97	0	109	27	8	32	32	1.87
1078158--1078182	11	2.3	11	100	0	50	76	8	8	8	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094214--1095739	769	2.0	760	97	2	2907	27	19	18	35	1.95
1098386--1098592	105	2.0	102	97	2	387	31	13	18	36	1.89
1113656--1113954	149	2.0	149	100	0	598	36	16	8	39	1.78
1117667--1117720	16	3.4	16	97	0	99	53	9	5	31	1.56
1120202--1120241	20	2.0	20	90	4	64	55	0	5	40	1.22
1121630--1121672	11	3.8	11	78	6	50	79	0	2	18	0.85
1121629--1121672	17	2.6	17	79	10	54	77	0	2	20	0.88
1121630--1121703	30	2.6	27	78	16	78	77	0	5	17	0.96
1121640--1121710	28	2.4	30	79	13	85	76	0	5	18	0.98
1121709--1121742	17	2.0	17	88	0	50	44	2	0	52	1.16
1121708--1121797	44	2.1	44	81	10	105	50	4	1	44	1.29
1121800--1121858	29	2.0	30	86	3	84	42	3	1	52	1.28
1121803--1121921	55	2.3	55	84	8	151	42	8	2	46	1.47
1121832--1121883	22	2.3	23	83	3	70	42	7	1	48	1.43
1121830--1121881	23	2.5	20	84	12	61	42	7	1	48	1.43
1121886--1121925	20	2.0	20	95	0	71	42	17	0	40	1.49
1122415--1122442	14	2.0	14	100	0	56	42	21	14	21	1.88
1124035--1124723	201	3.4	201	77	5	480	29	19	17	33	1.95
1129820--1129859	14	2.9	14	88	0	53	67	2	2	27	1.16
1131278--1131336	2	30.0	2	75	3	57	49	0	0	50	1.00
1131286--1131336	12	4.6	12	81	18	74	50	0	0	49	1.00
1131278--1131325	20	2.3	20	96	3	87	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131278--1131333	20	2.8	20	91	2	76	48	0	0	51	1.00
1158355--1158414	20	3.0	20	95	0	111	51	28	10	10	1.67
1163858--1163985	54	2.4	54	89	1	195	20	24	23	32	1.98
1163974--1164592	55	11.3	54	88	3	828	28	26	14	30	1.95
1180045--1180114	21	3.4	21	90	5	99	37	27	15	20	1.93
1185692--1185762	21	3.4	21	98	0	133	35	26	16	21	1.95
1185692--1185785	21	4.5	21	90	0	80	38	24	19	18	1.93
1185692--1185775	42	2.0	42	85	0	114	35	26	19	19	1.95
1191596--1191632	2	18.5	2	100	0	74	48	0	0	51	1.00
1195213--1195262	2	25.0	2	100	0	100	50	0	0	50	1.00
1204381--1204432	21	2.5	21	90	0	86	30	25	7	36	1.84
1211646--1211695	3	16.7	3	100	0	100	34	0	0	66	0.92
1214286--1214352	21	3.4	21	65	23	63	29	11	14	43	1.82
1216180--1216238	22	2.9	19	78	11	64	40	15	15	28	1.87
1216662--1216937	45	6.1	45	84	5	351	37	10	22	28	1.88
1216662--1216937	137	2.0	135	84	5	351	37	10	22	28	1.88
1223019--1223056	20	1.9	20	88	0	58	39	13	31	15	1.86
1223019--1223063	20	2.2	20	84	7	56	40	11	28	20	1.86
1223019--1223071	20	2.7	19	77	16	54	41	15	24	18	1.89
1223578--1223881	45	6.8	45	84	1	369	36	11	22	30	1.89
1226202--1226268	9	7.1	9	75	13	55	79	0	14	5	0.92
1228431--1228523	3	32.0	3	85	10	131	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229878--1229917	4	10.2	4	84	15	57	22	0	0	77	0.77
1229877--1229925	15	3.5	15	81	16	68	20	0	2	77	0.87
1229872--1229925	27	2.0	27	92	0	90	24	0	1	74	0.92
1229882--1229915	11	3.0	11	91	8	59	20	0	0	79	0.73
1231427--1231464	19	2.0	19	100	0	76	21	10	10	57	1.61
1232311--1232435	43	2.9	43	91	1	198	31	9	20	39	1.84
1237527--1237629	54	1.9	54	82	4	127	40	11	20	27	1.87
1238414--1238859	123	3.6	122	91	2	680	39	15	19	25	1.91
1238799--1239142	139	2.5	138	83	7	396	38	14	19	27	1.90
1239382--1239445	3	21.7	3	81	9	78	34	0	0	65	0.93

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