genome.fa.s7957.2.7.7.80.10.50.1000.6.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  6  of  43  ( 5063 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)
1121573--1121664	20	4.6	20	73	2	76	20	18	21	39	1.93
1121649--1121703	20	2.7	21	77	5	58	23	20	14	41	1.89
1122467--1122513	24	2.0	24	86	0	67	29	17	19	34	1.94
1124998--1125122	19	7.4	19	65	24	91	42	19	23	15	1.88
1124998--1125124	33	3.8	33	88	4	202	41	19	23	14	1.89
1124999--1125131	66	2.0	66	95	0	239	41	19	22	16	1.90
1125153--1125199	19	2.5	19	96	0	85	12	21	21	44	1.85
1125306--1125342	14	2.6	14	91	0	65	45	24	0	29	1.53
1126695--1126761	21	3.2	21	68	4	55	19	20	35	23	1.95
1126695--1126813	42	2.8	41	80	7	105	22	18	36	22	1.95
1127035--1127219	91	2.0	90	91	6	300	47	18	12	21	1.82
1128908--1129073	40	4.4	38	85	5	198	45	19	21	12	1.83
1128908--1129078	19	9.1	19	78	10	181	45	19	22	12	1.84
1128933--1129078	52	2.6	54	82	10	179	43	21	22	12	1.85
1129074--1129120	19	2.5	19	92	0	76	8	14	25	51	1.71
1129662--1129711	20	2.5	20	83	3	64	18	22	22	38	1.94
1129701--1129773	21	3.5	21	79	3	76	36	17	21	23	1.94
1129783--1129830	20	2.3	21	85	3	62	20	22	14	41	1.89
1129824--1129876	21	2.5	22	72	6	56	37	16	22	22	1.94
1132062--1132160	51	2.0	50	85	2	135	40	1	3	55	1.22
1134958--1134993	18	2.0	18	100	0	72	27	0	33	38	1.57
1137684--1137736	20	2.7	20	100	0	106	30	16	28	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138246--1138411	59	2.8	58	84	8	219	33	13	19	34	1.90
1138246--1138417	58	2.9	58	84	6	222	33	13	19	34	1.90
1138781--1139036	68	3.8	68	89	1	370	31	15	23	29	1.95
1138986--1139225	81	3.0	80	87	3	331	37	13	22	27	1.91
1143025--1143080	21	2.7	21	97	0	103	33	25	16	25	1.95
1143153--1143376	95	2.4	93	81	6	227	30	15	26	27	1.96
1143302--1143376	19	3.6	21	79	13	84	30	13	26	29	1.94
1143694--1143866	58	3.0	58	89	5	260	34	12	18	34	1.89
1144224--1144419	68	2.9	68	95	0	356	30	14	26	29	1.95
1151149--1151178	14	2.1	14	100	0	60	23	6	36	33	1.81
1153237--1153295	20	3.0	20	82	0	82	27	22	22	28	1.99
1160999--1161047	26	1.9	26	84	12	66	28	0	4	67	1.09
1161025--1161086	25	2.4	25	83	5	70	30	3	1	64	1.19
1161037--1161079	16	2.7	16	85	7	52	30	2	2	65	1.18
1166500--1166549	24	2.1	24	85	7	66	44	2	6	48	1.39
1179287--1179353	36	1.9	35	85	11	93	52	0	1	46	1.09
1180229--1180362	68	2.0	68	93	0	232	29	32	14	23	1.95
1180508--1180655	77	1.9	78	80	4	174	37	11	6	43	1.67
1185504--1185600	43	2.2	42	85	8	124	55	3	14	26	1.54
1185877--1187841	987	2.0	980	96	0	3644	35	21	13	29	1.92
1195745--1195828	28	3.0	28	94	0	141	22	20	25	32	1.98
1198895--1198998	50	2.1	50	80	3	111	40	16	7	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205738--1205778	22	2.0	22	90	9	68	36	0	12	51	1.40
1205865--1205944	21	3.7	22	77	8	76	22	35	26	16	1.95
1206395--1206423	10	2.9	10	100	0	58	41	10	6	41	1.66
1207424--1207455	12	2.6	13	85	14	50	31	28	40	0	1.57
1209819--1209857	20	1.9	21	94	5	71	35	17	12	33	1.88
1210681--1210735	20	2.8	20	91	0	83	27	23	27	21	1.99
1214763--1214902	69	2.0	70	98	1	273	43	18	17	20	1.88
1216896--1216942	22	2.1	23	88	4	69	44	2	0	53	1.12
1216892--1216969	30	2.4	33	79	14	90	47	2	0	50	1.15
1217043--1217093	19	2.7	20	79	11	63	50	0	1	47	1.12
1217046--1217100	26	2.1	27	96	3	103	50	0	3	45	1.19
1217058--1217138	27	3.0	29	81	12	84	46	1	2	49	1.23
1217280--1217329	26	2.0	25	84	11	66	54	0	0	46	1.00
1217519--1217574	30	2.0	27	89	10	85	32	16	7	44	1.74
1220573--1220614	20	2.1	20	90	0	66	40	7	2	50	1.43
1220650--1220689	2	20.0	2	100	0	80	50	0	0	50	1.00
1222094--1222277	42	4.3	42	88	2	287	22	19	20	36	1.95
1222103--1222267	86	1.9	86	94	0	294	21	20	20	38	1.94
1222363--1222399	6	6.5	6	93	3	51	27	56	16	0	1.40
1223031--1223113	21	4.0	21	93	0	139	30	22	21	25	1.99
1223122--1223257	21	6.5	21	81	11	154	24	21	25	29	1.99
1223097--1223220	62	2.0	62	83	9	155	29	20	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234641--1234695	23	2.5	22	75	16	60	29	18	18	34	1.94
1236548--1236582	15	2.3	15	90	0	52	8	0	28	62	1.24
1239793--1239855	2	31.5	2	100	0	126	50	0	0	49	1.00
1243655--1243709	24	2.3	24	90	3	85	49	1	27	21	1.60
1243688--1243729	20	2.1	20	86	8	59	50	2	16	30	1.58
1244024--1244061	18	2.1	19	90	5	60	52	2	0	44	1.14
1246645--1246677	16	2.1	16	88	11	50	42	0	0	57	0.98
1252535--1252604	30	2.3	30	100	0	140	20	24	20	35	1.96
1253537--1253573	11	3.5	11	96	3	67	40	0	16	43	1.48
1253547--1253591	11	3.7	13	81	18	53	40	0	13	46	1.43
1253560--1254887	441	3.0	441	89	3	1946	27	18	22	31	1.97
1254679--1254720	21	2.0	21	95	0	75	14	38	7	40	1.73
1255062--1255123	26	2.4	24	80	15	70	50	6	1	41	1.38
1256587--1256635	10	5.1	10	79	13	50	79	0	4	16	0.88
1256552--1256636	8	11.0	7	74	18	55	75	2	3	18	1.06
1256562--1256636	22	3.2	22	80	12	71	74	1	4	20	1.05
1261213--1261273	24	2.7	21	74	16	59	52	4	3	39	1.39
1261470--1261633	2	84.0	2	70	21	91	49	7	2	40	1.44
1261470--1261633	24	6.8	24	70	19	103	49	7	2	40	1.44
1261470--1261633	7	21.0	8	71	19	91	49	7	2	40	1.44
1262852--1262892	21	2.0	21	90	9	66	51	19	0	29	1.47
1270909--1271362	229	2.0	229	89	2	707	34	10	33	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271463--1271602	43	3.3	42	80	6	142	41	20	12	26	1.87
1271580--1271686	41	2.6	41	75	8	101	39	14	18	27	1.90
1274990--1275032	18	2.4	18	84	0	59	30	20	25	23	1.99
1275984--1276027	22	2.0	23	86	4	63	70	0	4	25	1.06
1276056--1276125	26	2.7	26	88	2	106	47	5	0	47	1.26
1276088--1276235	39	3.8	39	88	4	194	45	6	2	45	1.41
1277209--1277259	22	2.4	21	81	15	52	74	0	5	19	1.02
1277296--1277368	26	2.9	26	93	4	123	49	5	0	45	1.25
1277319--1277438	37	3.1	37	80	11	134	46	6	0	45	1.35
1277331--1277438	41	2.8	40	90	8	170	46	7	0	45	1.37
1281512--1281608	16	6.3	15	76	13	81	71	7	16	5	1.27
1281551--1281623	15	4.3	18	73	23	61	69	6	19	4	1.27
1281514--1281638	32	4.0	30	77	15	112	72	6	16	5	1.25
1281512--1281603	15	6.1	14	75	18	78	71	7	16	4	1.25
1281513--1281639	33	4.0	34	79	12	121	72	6	15	5	1.24
1282540--1282666	44	2.9	43	83	6	157	35	13	19	31	1.91
1283049--1283400	139	2.5	140	82	2	397	30	26	15	26	1.96
1283049--1283470	139	3.0	139	78	2	346	30	25	16	27	1.97
1284796--1285107	126	2.6	118	85	7	391	24	15	15	43	1.86
1289329--1289370	21	2.0	21	81	9	50	21	21	9	47	1.79
1300504--1300559	18	3.2	18	80	10	62	66	3	3	26	1.25
1301625--1301688	21	3.1	21	77	11	60	71	0	1	26	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301644--1301686	6	6.8	6	84	10	59	76	0	0	23	0.78
1301625--1301686	32	1.9	33	90	9	101	72	0	1	25	0.94
1301640--1301691	16	3.2	16	81	7	70	71	0	0	28	0.87
1301750--1301776	13	2.1	13	100	0	54	40	7	7	44	1.60
1301747--1301876	37	3.5	37	74	16	133	37	9	6	46	1.61
1301745--1302022	35	7.6	36	73	13	149	41	8	4	45	1.56
1312685--1312771	23	3.8	23	89	0	120	25	21	24	28	1.99
1323424--1323455	16	2.0	16	100	0	64	31	25	12	31	1.92
1330590--1330623	18	1.9	17	88	5	50	73	8	11	5	1.24
1330633--1330661	3	9.7	3	100	0	58	65	0	0	34	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43