genome.fa.s7963.2.7.7.80.10.50.1000.6.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: VEPZ01007963.1 Hibiscus syriacus cultivar Beakdansim tig00110392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1627826

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 819 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)
1136159--1136319	66	2.4	67	87	5	227	36	8	15	39	1.78
1136292--1136505	26	8.0	26	68	14	130	36	10	15	37	1.82
1136276--1136529	81	3.1	81	90	1	411	37	9	15	37	1.80
1136481--1136626	69	2.1	69	96	1	267	39	7	13	39	1.73
1137612--1137636	13	1.9	13	100	0	50	48	0	8	44	1.32
1140071--1140118	19	2.5	19	80	6	62	62	0	0	37	0.95
1145941--1146574	322	2.0	318	87	1	919	23	8	22	45	1.80
1149737--1149814	38	2.1	38	100	0	156	33	19	30	16	1.94
1156617--1156725	52	2.1	54	92	3	186	19	23	15	41	1.90
1162968--1163184	76	2.9	77	78	10	207	33	18	8	39	1.81
1163399--1163440	22	1.9	22	85	9	59	26	19	4	50	1.67
1165605--1165642	19	2.0	20	94	5	69	65	18	10	5	1.41
1166290--1166337	21	2.3	21	92	0	78	54	22	10	12	1.68
1166297--1166338	21	2.0	21	100	0	84	57	19	9	14	1.64
1166318--1166788	204	2.4	193	83	7	584	38	14	16	30	1.88
1166802--1166846	23	2.0	23	95	0	81	37	20	8	33	1.83
1167313--1167348	13	2.8	13	86	0	54	22	30	30	16	1.96
1172229--1172266	6	6.5	6	93	3	60	28	55	15	0	1.41
1172924--1172964	21	2.0	21	85	0	55	24	14	26	34	1.94
1197758--1197805	3	16.7	3	82	8	64	64	0	2	33	1.05
1200493--1200589	3	32.7	3	90	2	142	68	0	1	30	0.97
1200882--1202240	113	12.0	113	94	0	2092	29	19	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202966--1203173	84	2.5	84	94	0	355	37	20	14	26	1.92
1203049--1203361	136	2.3	136	99	0	617	37	21	14	26	1.92
1203269--1203370	52	2.0	52	98	0	195	37	20	14	27	1.92
1211144--1211203	30	2.0	30	83	6	77	30	10	31	28	1.89
1214843--1214884	18	2.4	17	84	11	50	69	4	0	26	1.08
1217014--1217108	3	31.7	3	93	0	163	65	0	1	33	1.00
1221831--1221861	16	1.9	16	100	0	62	51	19	9	19	1.74
1227386--1227473	21	4.2	21	100	0	176	34	27	10	28	1.89
1228903--1229061	63	2.5	63	85	2	203	27	20	19	32	1.97
1229029--1229066	19	2.0	20	94	5	69	26	28	15	28	1.96
1232717--1232825	21	5.2	21	100	0	218	33	27	10	28	1.89
1234315--1234367	19	2.8	19	100	0	106	22	30	16	30	1.96
1234251--1234429	82	2.2	82	85	2	234	26	22	18	31	1.97
1234397--1234434	19	2.0	20	89	5	60	28	28	15	26	1.96
1240019--1240133	12	9.0	12	77	15	97	37	2	0	59	1.18
1240016--1240110	3	31.7	3	86	0	136	33	3	1	62	1.18
1240879--1240903	13	1.9	13	100	0	50	0	32	60	8	1.26
1241445--1241480	19	1.9	19	94	5	65	22	0	5	72	1.05
1241508--1241551	22	2.0	21	86	4	61	38	2	4	54	1.33
1249756--1250208	226	2.0	227	97	2	858	36	15	22	25	1.94
1252656--1252722	19	3.4	18	76	13	62	82	0	17	0	0.68
1252643--1252720	20	3.8	21	77	15	83	83	0	16	0	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252647--1252722	34	2.2	34	88	4	109	84	0	15	0	0.63
1252643--1252719	11	7.2	11	76	14	72	83	0	16	0	0.66
1253660--1253864	51	4.0	52	91	3	344	24	14	23	37	1.93
1253895--1253996	50	2.0	50	96	0	186	25	13	22	38	1.91
1253763--1254131	133	2.8	133	96	1	659	26	14	22	36	1.92
1253896--1254366	236	2.0	235	96	1	863	26	14	22	37	1.92
1254029--1254233	51	4.0	52	91	3	344	24	14	23	37	1.93
1253657--1254498	369	2.3	368	98	0	1607	26	14	22	36	1.92
1254264--1254365	50	2.0	50	96	0	186	25	13	22	38	1.91
1254132--1254569	133	3.3	133	98	0	842	26	13	21	37	1.91
1254396--1254497	50	2.0	50	96	0	186	25	13	22	38	1.91
1255205--1255756	113	4.8	112	90	4	791	37	13	20	28	1.91
1256007--1256107	3	33.7	3	87	0	148	33	2	0	62	1.17
1256010--1256131	12	9.7	12	79	12	111	37	2	0	59	1.17
1256879--1256907	13	2.2	13	100	0	58	0	31	62	6	1.22
1262484--1262560	37	2.1	37	85	4	102	48	1	3	46	1.28
1262706--1262743	20	1.9	20	88	0	58	21	26	10	42	1.85
1280318--1280362	23	2.0	23	86	0	63	37	15	11	35	1.83
1296695--1296795	32	3.2	32	94	0	166	35	22	16	24	1.95
1307840--1307979	58	2.4	58	77	3	147	46	2	16	34	1.62
1311095--1311136	2	21.0	2	100	0	84	0	50	0	50	1.00
1312585--1312647	30	2.1	31	93	3	110	44	12	12	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313278--1313302	11	2.3	11	100	0	50	12	12	16	60	1.60
1320543--1320573	2	15.5	2	93	0	53	48	3	0	48	1.17
1323240--1323266	2	13.5	2	100	0	54	48	0	0	51	1.00
1323523--1323551	14	2.1	14	100	0	58	13	13	6	65	1.45
1326134--1326198	23	2.8	23	92	0	112	18	18	27	35	1.94
1326465--1326536	3	24.0	3	80	10	76	59	0	0	40	0.97
1326738--1326962	123	1.8	122	87	0	333	24	17	14	42	1.87
1326879--1327210	113	2.9	113	83	5	427	29	19	14	37	1.91
1328893--1328944	3	17.7	3	80	4	52	61	0	0	38	0.96
1329373--1330340	113	8.6	113	93	1	1450	27	20	15	36	1.92
1333562--1333783	83	2.7	83	97	0	417	39	24	11	24	1.89
1334776--1334830	16	3.2	17	85	12	69	54	5	5	34	1.46
1335149--1335204	9	6.2	9	82	14	71	0	14	0	85	0.59
1335149--1335198	26	2.0	25	92	4	82	0	14	0	86	0.58
1342518--1342549	15	2.1	15	94	0	55	46	9	18	25	1.79
1345842--1345888	19	2.4	21	75	13	55	68	2	4	25	1.19
1345842--1345889	18	2.5	20	83	10	64	66	2	4	27	1.21
1355011--1355047	18	2.1	18	94	0	65	16	18	16	48	1.81
1355007--1355052	18	2.9	15	79	17	56	17	17	15	50	1.79
1368098--1368134	20	1.9	19	89	10	58	45	10	24	18	1.81
1368598--1368752	80	1.9	80	97	0	292	39	20	18	21	1.93
1371704--1371741	17	2.2	18	85	4	51	63	7	2	26	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371854--1371878	7	3.6	7	100	0	50	76	0	0	24	0.80
1376625--1376686	31	2.0	31	100	0	124	29	16	16	38	1.90
1380640--1380686	24	2.0	24	87	8	69	25	2	6	65	1.27
1382343--1382384	19	2.3	18	92	8	68	50	11	16	21	1.77
1384533--1384597	21	3.1	21	80	6	69	40	15	29	15	1.88
1384631--1384695	33	2.0	33	90	3	105	29	0	47	23	1.52
1386472--1386508	18	2.1	18	94	0	65	29	2	10	56	1.47
1386635--1387699	193	5.5	193	94	5	1729	36	15	16	32	1.90
1389122--1389197	18	4.5	17	77	6	75	36	7	35	19	1.81
1389122--1389206	6	14.3	6	77	2	64	37	7	35	20	1.80
1389137--1389210	3	25.0	3	73	2	60	36	5	35	22	1.78
1389125--1389206	12	6.9	12	83	2	94	36	7	35	20	1.81
1390520--1391314	178	4.4	182	91	6	1236	35	14	15	33	1.88
1393754--1393805	21	2.4	22	87	9	79	36	5	17	40	1.73
1394226--1394261	18	2.1	17	89	5	54	30	5	11	52	1.59
1394516--1394602	39	2.2	39	91	0	147	48	19	13	18	1.81
1394728--1394813	38	2.2	39	89	2	138	47	19	13	18	1.82
1394431--1394854	211	2.0	211	99	0	832	40	18	14	26	1.90
1395233--1395300	23	3.0	23	88	0	100	33	4	22	39	1.74
1395228--1395325	46	2.1	45	78	10	101	31	6	19	42	1.75
1395304--1395363	21	2.9	21	94	0	102	28	15	10	46	1.77
1395686--1395753	23	3.0	23	88	0	100	33	4	22	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395326--1396100	424	1.8	427	94	4	1384	40	8	12	39	1.72
1397732--1397777	22	2.1	22	87	0	65	36	4	0	58	1.18
1397803--1397849	21	2.2	21	92	0	76	68	8	6	17	1.37
1405112--1405136	12	2.1	12	100	0	50	16	40	8	36	1.77
1406611--1406679	18	3.9	17	73	5	57	63	1	1	33	1.12
1416981--1417035	23	2.4	24	78	9	60	47	3	1	47	1.30
1431054--1431142	32	3.0	30	80	12	119	34	19	16	29	1.94
1431054--1431142	28	3.0	28	84	12	108	34	19	16	29	1.94
1436092--1436140	25	2.1	22	81	11	62	59	0	0	40	0.98
1436094--1436142	23	2.0	24	88	7	73	57	0	0	42	0.99

Tables:   1   2   3   4   5   6   7