genome.fa.s7741.2.7.7.80.10.50.1000.6.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: VEPZ01007741.1 Hibiscus syriacus cultivar Beakdansim tig00110004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1550271

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 830 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)
1178277--1178459	33	5.4	33	77	10	179	47	18	21	13	1.82
1178316--1178346	14	2.3	13	94	5	53	54	25	12	6	1.62
1178184--1178369	86	2.2	86	93	0	318	47	22	20	10	1.80
1178377--1178430	19	3.1	19	67	25	55	48	12	22	16	1.80
1181959--1182014	20	2.8	20	81	10	78	39	17	25	17	1.92
1182012--1182104	19	5.4	18	69	23	76	48	21	19	10	1.79
1181999--1182104	33	3.2	33	94	0	185	47	20	20	11	1.81
1182031--1182087	14	3.7	14	70	20	51	45	22	21	10	1.82
1182105--1182149	19	2.4	19	88	0	63	8	15	26	48	1.74
1182148--1182211	21	3.1	21	82	6	78	14	20	14	51	1.76
1183120--1183169	26	1.9	26	91	0	82	26	24	8	42	1.82
1183118--1183184	26	2.6	24	77	15	71	26	20	5	46	1.74
1183346--1183647	48	6.3	47	83	4	259	33	25	18	22	1.97
1183966--1184003	20	1.9	20	88	0	58	63	2	5	28	1.30
1185799--1185852	19	2.7	20	91	8	76	24	22	9	44	1.81
1185809--1185852	19	2.3	19	100	0	88	22	20	11	45	1.83
1192925--1192973	24	2.0	25	84	11	66	36	4	4	55	1.38
1194462--1194506	17	2.6	18	83	16	60	77	4	17	0	0.92
1194464--1194511	20	2.4	20	80	13	55	79	2	18	0	0.84
1197366--1197396	2	15.5	2	100	0	62	48	0	0	51	1.00
1200799--1200860	33	1.9	33	87	9	92	64	4	4	25	1.34
1202159--1202549	37	10.8	35	71	18	173	45	6	2	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202234--1202331	42	2.3	43	86	6	148	42	6	1	50	1.34
1202313--1202357	2	22.5	2	100	0	90	48	0	0	51	1.00
1202339--1202564	37	6.0	38	81	6	246	45	7	3	43	1.50
1202343--1202564	73	3.0	73	85	4	286	45	7	4	43	1.50
1216160--1216254	33	2.8	32	81	15	104	42	8	3	46	1.50
1216223--1216278	25	2.4	23	88	8	78	42	7	1	48	1.41
1216292--1216365	2	38.5	2	92	8	127	48	0	0	51	1.00
1216357--1216651	144	2.0	143	84	6	355	45	9	3	41	1.54
1216347--1216657	37	8.4	38	83	10	355	45	8	3	41	1.52
1216349--1216653	75	4.2	73	81	12	351	45	8	3	41	1.52
1222474--1222565	41	2.2	43	81	14	113	54	20	4	20	1.61
1223822--1223941	40	3.0	41	85	2	161	20	25	12	41	1.87
1223821--1223944	41	3.0	41	84	2	169	20	25	12	42	1.86
1232051--1232139	45	2.0	45	86	10	128	58	6	14	20	1.59
1233492--1233784	145	2.0	148	97	2	565	47	16	13	22	1.81
1235443--1235481	18	2.1	18	85	4	51	38	0	10	51	1.36
1235852--1235882	16	1.9	16	93	0	53	35	0	0	64	0.94
1240230--1240337	33	3.2	33	87	7	173	46	19	21	12	1.83
1240244--1240356	19	6.4	19	75	20	129	46	18	20	14	1.83
1240272--1240378	52	2.0	53	98	1	207	45	16	23	14	1.84
1240403--1240496	19	5.4	19	80	19	116	14	22	18	44	1.86
1240385--1240496	49	2.2	51	92	7	185	14	24	18	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240461--1240504	19	2.3	19	92	0	70	18	20	15	45	1.85
1240602--1240638	14	2.6	14	91	0	65	45	21	0	32	1.52
1242596--1242652	14	3.7	14	77	20	60	45	22	21	10	1.82
1242577--1242669	33	2.8	33	95	0	168	47	21	20	10	1.80
1242540--1242669	19	7.3	19	76	17	127	46	23	18	10	1.80
1243783--1243872	14	5.7	14	72	23	72	43	23	24	8	1.82
1243775--1243889	33	3.5	33	97	0	221	46	20	23	9	1.80
1243797--1243894	19	5.7	19	71	22	90	43	22	23	10	1.83
1243906--1243962	14	3.7	14	75	20	60	8	24	22	43	1.81
1243890--1244010	33	3.4	33	84	11	143	9	23	22	44	1.82
1243947--1244022	21	3.7	21	82	3	100	11	25	19	43	1.85
1243946--1244023	41	1.9	41	91	0	129	12	25	19	42	1.87
1244100--1244170	33	2.2	33	89	5	108	49	18	21	11	1.78
1244352--1244404	21	2.4	23	76	20	60	20	20	35	22	1.96
1244543--1244715	20	8.6	20	83	5	215	19	19	26	34	1.96
1244545--1244715	60	2.8	60	84	0	243	19	19	26	34	1.96
1244721--1244803	21	4.0	21	73	6	78	25	16	24	33	1.96
1250196--1250250	3	18.7	3	92	3	94	63	0	0	36	0.95
1253125--1253223	36	2.8	36	98	0	189	34	16	25	24	1.95
1255397--1255421	2	12.5	2	100	0	50	48	0	0	52	1.00
1255455--1255490	12	3.0	12	87	0	54	61	2	0	36	1.11
1256294--1256605	30	10.6	29	82	6	200	59	12	10	17	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256332--1256604	60	4.6	60	89	1	379	59	12	10	16	1.60
1257951--1258003	3	17.7	3	88	0	79	64	3	0	32	1.12
1258200--1258549	130	2.7	130	85	4	443	22	17	34	25	1.96
1258558--1258701	66	2.2	65	83	6	175	38	15	23	22	1.92
1258830--1258939	36	3.0	36	80	12	118	39	14	18	28	1.90
1260103--1260190	26	3.3	27	81	13	101	3	15	4	76	1.09
1260115--1260168	15	3.5	16	80	5	58	1	14	3	79	0.95
1260115--1260192	26	3.0	26	85	7	104	2	15	5	76	1.06
1273253--1273335	27	3.2	27	67	10	73	55	3	15	25	1.57
1273243--1273352	51	2.2	51	96	0	202	55	2	13	28	1.52
1273456--1273512	29	2.0	28	83	13	71	50	15	15	17	1.78
1273452--1273752	30	10.2	30	84	4	317	58	11	11	18	1.62
1273445--1273732	146	2.0	145	84	2	380	59	10	11	18	1.60
1284360--1284548	45	4.5	44	79	15	218	29	26	11	32	1.91
1284439--1284556	34	3.1	34	73	23	119	27	25	10	37	1.88
1284394--1284556	79	2.1	79	95	0	290	27	26	11	34	1.90
1287067--1287116	3	16.7	3	87	8	75	62	0	2	36	1.07
1287948--1287986	12	3.2	12	92	0	60	33	17	2	46	1.62
1288935--1288996	31	2.0	31	90	6	99	12	11	9	66	1.46
1290897--1290964	33	2.1	33	85	0	91	32	17	22	27	1.96
1291080--1291170	36	2.5	36	80	5	103	31	16	14	37	1.89
1291341--1291448	39	2.8	39	91	1	173	42	14	11	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291276--1291670	137	3.0	135	83	10	546	34	14	14	36	1.86
1291478--1291573	31	2.9	33	84	9	133	37	13	12	36	1.83
1291675--1292153	127	3.7	129	81	6	520	26	31	17	24	1.97
1295975--1296026	24	2.2	24	89	0	77	30	26	25	17	1.97
1299994--1300020	2	13.5	2	100	0	54	51	0	0	48	1.00
1304025--1304062	18	2.1	18	90	0	58	2	26	28	42	1.69
1305650--1305707	22	2.7	21	89	5	89	22	29	25	22	1.99
1312167--1312199	15	2.2	15	100	0	66	27	36	0	36	1.57
1316875--1316975	14	7.3	13	71	19	64	67	0	4	27	1.11
1316875--1316922	12	3.7	12	81	15	51	72	0	4	22	1.01
1316875--1316926	20	2.6	20	82	14	63	73	0	3	23	1.00
1316903--1316998	42	2.2	42	78	10	97	63	0	6	30	1.19
1317836--1317865	7	4.3	7	91	0	51	20	13	0	66	1.24
1321118--1321187	25	2.8	25	82	18	76	78	0	15	5	0.93
1321118--1321193	6	12.3	6	84	15	86	78	0	15	5	0.91
1321109--1321194	12	6.8	13	81	10	90	79	0	16	4	0.90
1321109--1321187	32	2.5	31	84	12	97	78	0	16	5	0.92
1322132--1322538	136	3.0	135	81	1	472	35	15	20	27	1.94
1324552--1324663	21	5.6	19	74	16	84	75	0	17	7	1.03
1324551--1324610	15	4.0	14	71	23	50	78	0	15	6	0.95
1324589--1324658	28	2.5	28	77	6	81	75	0	20	4	0.96
1326640--1327309	54	12.4	54	89	2	925	34	18	15	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326784--1326920	27	5.1	27	61	22	72	36	16	13	33	1.88
1333370--1335060	54	31.3	54	85	0	2130	35	17	15	31	1.91
1338824--1338991	2	84.0	2	100	0	336	50	50	0	0	1.00
1338993--1339029	8	4.6	8	100	0	74	27	35	24	13	1.93
1339040--1339151	4	28.5	4	86	3	156	45	24	4	25	1.72
1339651--1339761	41	2.7	41	74	13	102	26	22	23	27	1.99
1341168--1341239	37	1.9	37	94	0	126	25	9	26	38	1.86
1346342--1346384	17	2.5	17	85	11	52	16	4	0	79	0.90
1346354--1346384	6	5.3	6	92	7	55	16	0	0	83	0.64
1350953--1351639	134	5.1	134	83	3	803	31	22	15	30	1.95

Tables:   1   2   3   4   5   6   7