genome.fa.s9463.2.7.7.80.10.50.1000.6.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  6  of  20  ( 2327 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)
1118649--1118779	20	6.6	20	88	3	122	31	22	19	26	1.98
1118693--1118780	20	4.4	20	92	0	131	26	26	20	27	1.99
1119601--1119654	24	2.2	24	93	0	90	20	18	20	40	1.91
1119844--1119880	14	2.6	14	91	4	56	51	21	21	5	1.68
1121914--1121947	6	5.7	6	92	0	59	61	17	2	17	1.46
1121913--1121959	18	2.6	18	82	0	58	55	25	2	17	1.53
1122253--1122526	20	14.6	20	72	14	201	33	23	18	24	1.97
1122014--1122282	140	1.9	139	97	0	511	28	13	15	42	1.85
1122285--1122378	34	2.8	34	85	0	116	38	26	17	18	1.92
1122516--1122573	20	2.9	20	81	0	62	13	17	24	44	1.85
1124694--1124760	20	3.5	18	82	11	71	37	25	17	19	1.94
1124705--1124760	20	2.8	20	88	0	76	37	23	17	21	1.94
1124954--1125003	18	2.8	18	100	0	100	42	6	20	32	1.76
1126732--1126858	20	6.4	20	87	2	123	43	24	17	14	1.87
1127460--1127593	20	6.7	20	87	0	178	25	21	25	27	1.99
1127458--1127628	40	4.2	40	82	3	182	27	21	23	27	1.99
1129514--1129549	2	19.0	2	88	11	58	47	0	0	52	1.00
1129560--1129593	11	3.0	11	87	8	50	67	0	0	32	0.91
1129558--1129612	23	2.4	24	79	14	62	60	0	3	36	1.15
1129657--1129690	14	2.3	15	90	5	52	70	5	0	23	1.09
1130924--1131012	3	30.0	3	80	15	105	64	0	0	35	0.94
1131267--1133093	45	40.8	45	88	1	2535	33	19	22	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134159--1134318	54	3.0	54	81	1	187	28	17	15	38	1.90
1135504--1135623	41	3.0	41	72	7	113	27	22	16	33	1.96
1139025--1139067	20	2.2	19	87	4	59	65	4	9	20	1.40
1139032--1139098	27	2.6	26	82	13	84	62	7	11	17	1.51
1141441--1141474	17	1.9	18	94	5	61	67	0	11	20	1.21
1142338--1142371	11	3.0	11	87	8	50	67	0	2	29	1.05
1142338--1142378	12	3.5	12	86	3	57	65	0	2	31	1.05
1142435--1142468	14	2.3	15	90	5	52	70	5	0	23	1.09
1143687--1143764	3	26.0	3	87	5	113	61	0	0	38	0.96
1144971--1145024	24	2.2	24	96	0	99	38	16	5	38	1.72
1148517--1148610	46	2.0	46	97	0	179	17	21	40	21	1.91
1149394--1149459	20	3.3	20	67	24	59	19	0	19	60	1.36
1149390--1149485	40	2.4	39	82	5	104	20	1	18	59	1.44
1149429--1149570	75	1.9	75	88	5	218	25	1	18	54	1.51
1157946--1158159	75	2.9	75	82	6	242	26	5	14	53	1.61
1165373--1165463	44	2.1	44	84	11	127	56	9	13	20	1.66
1180159--1180199	22	1.9	21	85	5	55	51	0	9	39	1.35
1180239--1180294	16	3.2	16	71	28	51	67	1	3	26	1.16
1180239--1180309	37	1.9	37	83	11	92	69	1	4	25	1.15
1181567--1181650	3	27.0	3	76	7	69	58	0	0	41	0.98
1181599--1181656	18	3.2	18	80	7	73	58	0	0	41	0.98
1181567--1181662	24	3.9	24	72	9	68	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181786--1181884	45	2.2	45	94	0	171	36	20	21	22	1.95
1181821--1183072	76	16.6	76	94	1	2087	34	21	19	23	1.96
1181821--1183072	302	4.2	302	94	1	2151	34	21	19	23	1.96
1183749--1183801	22	2.4	22	90	0	88	39	13	13	33	1.83
1188673--1188759	7	11.4	8	85	11	121	0	22	0	77	0.78
1188673--1188759	15	5.7	15	88	8	122	0	22	0	77	0.78
1188722--1188796	26	3.0	26	85	11	88	2	22	8	66	1.31
1194299--1194354	16	3.2	16	71	28	51	67	1	3	26	1.16
1194299--1194369	37	1.9	37	83	11	92	69	1	4	25	1.15
1195628--1195708	3	26.0	3	80	7	81	58	0	0	41	0.98
1198202--1198232	15	2.1	15	94	5	55	58	0	0	41	0.98
1198374--1198411	15	2.5	15	100	0	76	21	7	18	52	1.70
1201428--1201470	2	22.5	2	90	9	72	48	0	0	51	1.00
1203148--1203201	20	2.7	20	97	0	99	35	25	18	20	1.95
1205509--1205554	18	2.5	18	86	10	58	2	32	21	43	1.65
1207128--1207213	23	3.8	23	87	1	111	18	25	33	22	1.96
1213558--1213949	197	2.0	197	89	3	599	41	16	17	24	1.89
1218316--1218438	23	5.5	23	76	18	100	28	27	21	21	1.99
1218345--1218438	44	2.1	45	86	7	129	27	27	22	22	1.99
1218310--1218438	67	1.9	67	90	0	204	27	27	21	23	1.99
1218500--1218531	13	2.3	15	89	10	50	37	15	0	46	1.46
1219108--1219150	20	2.1	21	82	4	52	25	25	16	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225272--1225357	44	2.0	44	86	4	120	33	25	16	24	1.95
1225416--1225447	13	2.3	15	89	10	50	37	15	0	46	1.46
1225914--1226044	54	2.4	54	87	1	172	29	23	16	31	1.96
1228847--1228880	17	1.9	18	88	5	52	35	17	8	38	1.81
1229025--1229152	58	2.2	59	81	6	145	32	17	11	37	1.87
1229071--1229346	118	2.4	117	79	4	270	31	21	10	36	1.87
1229689--1229727	19	2.1	19	85	0	51	30	20	15	33	1.94
1235707--1235740	17	1.9	18	88	5	52	35	17	8	38	1.81
1235961--1236216	117	2.2	117	81	4	291	31	22	10	35	1.89
1235859--1236215	59	6.1	59	71	9	214	30	21	12	36	1.90
1236613--1236659	19	2.6	18	86	10	60	27	27	19	25	1.99
1250519--1250545	2	13.5	2	100	0	54	51	0	0	48	1.00
1251077--1251447	43	8.6	43	72	8	211	26	18	23	31	1.97
1251077--1251325	86	2.9	86	77	2	257	25	18	24	31	1.98
1251093--1251325	129	1.8	129	84	5	319	25	19	24	30	1.98
1251852--1251932	21	3.9	21	91	0	117	0	38	20	40	1.53
1253634--1253669	18	2.0	18	88	0	54	41	13	2	41	1.59
1259258--1259415	84	1.9	82	83	7	203	32	15	13	37	1.87
1259250--1259581	82	4.0	82	77	6	253	31	18	14	34	1.92
1267021--1267515	56	8.8	56	92	0	785	35	17	11	35	1.86
1273175--1273226	17	3.2	17	75	10	54	32	3	13	50	1.60
1274368--1274398	11	2.8	11	95	0	53	38	9	22	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279307--1279334	14	2.0	14	100	0	56	28	14	21	35	1.92
1280196--1280221	2	13.0	2	100	0	52	50	0	0	50	1.00
1284120--1284183	27	2.3	29	76	17	82	43	3	0	53	1.16
1285085--1285210	26	5.2	25	69	19	72	42	3	0	53	1.25
1285141--1285177	19	1.9	19	89	10	58	43	0	2	54	1.14
1285097--1285221	23	5.3	23	71	27	77	43	3	0	52	1.22
1285083--1285221	46	2.9	47	70	21	128	42	3	0	53	1.23
1285141--1285236	20	4.6	19	76	17	66	38	2	2	57	1.22
1287481--1287514	10	3.3	10	84	8	50	2	11	5	79	1.02
1290469--1290610	64	2.2	64	82	8	164	27	19	23	29	1.98
1293219--1293272	20	2.7	20	91	0	90	25	25	22	25	2.00
1309735--1309816	21	3.8	21	86	3	101	25	29	26	18	1.98
1310179--1310209	10	3.1	10	95	0	53	41	3	9	45	1.53
1314360--1314454	27	3.5	27	95	1	163	20	10	22	47	1.80
1315418--1315460	9	4.5	10	85	8	63	18	37	30	13	1.90
1315767--1315829	32	2.0	32	84	12	85	25	1	11	61	1.38
1315805--1315952	64	2.3	65	78	14	173	29	1	15	54	1.50
1319558--1319609	14	3.5	14	78	7	50	19	7	0	73	1.07
1319552--1319611	11	5.4	11	72	18	52	16	6	1	75	1.10
1319551--1319610	5	12.0	5	76	13	52	18	6	1	73	1.14
1320377--1320402	10	2.6	10	100	0	52	92	0	0	7	0.39
1321986--1322035	19	2.7	18	78	9	55	24	4	2	70	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325033--1325087	11	4.9	11	73	20	51	18	7	0	74	1.04
1330094--1330311	97	2.2	97	84	6	264	39	20	11	28	1.87
1331271--1331332	27	2.3	27	91	0	97	17	9	24	48	1.77
1332223--1332262	19	2.1	19	95	0	71	5	25	42	27	1.75
1332316--1332365	20	2.5	20	93	0	82	16	26	34	24	1.95
1342595--1342633	20	2.0	19	85	5	51	46	7	10	35	1.67
1344917--1344942	13	2.0	13	100	0	52	69	15	0	15	1.20
1345886--1345966	33	2.5	33	82	11	98	46	4	3	44	1.42
1345887--1345994	26	3.9	27	78	19	107	48	5	3	42	1.44
1346013--1346063	11	4.5	11	79	11	59	50	1	0	47	1.12

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20