genome.fa.s8569.2.7.7.80.10.50.1000.7.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: VEPZ01008569.1 Hibiscus syriacus cultivar Beakdansim tig00111493_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1513883

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 943 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)
1158628--1158733	2	54.0	2	94	3	189	50	0	0	49	1.07
1159010--1159574	105	5.4	105	95	0	1004	24	17	24	34	1.96
1160410--1160447	1	38.0	1	89	0	58	0	0	5	94	0.30
1168767--1168798	17	1.9	16	93	6	55	65	6	6	21	1.38
1168905--1168935	2	15.5	2	93	0	53	45	0	3	51	1.17
1170323--1170383	2	31.0	2	93	3	106	49	0	1	49	1.10
1172406--1172453	2	24.0	2	100	0	96	50	0	0	50	1.00
1182054--1182139	10	8.8	10	69	19	56	31	29	23	16	1.96
1182054--1182139	19	4.4	20	81	7	79	31	29	23	16	1.96
1182065--1182139	29	2.5	31	76	8	84	32	28	24	16	1.96
1187578--1187621	18	2.4	19	92	3	72	22	22	18	36	1.95
1187583--1187653	31	2.3	32	79	13	85	26	26	12	33	1.92
1195413--1195463	16	3.2	16	75	2	50	23	7	9	58	1.56
1196891--1196925	18	1.9	18	88	0	52	42	8	17	31	1.79
1201621--1201699	34	2.3	34	97	0	149	35	26	15	22	1.94
1201880--1202225	121	2.9	121	88	0	487	35	26	15	22	1.94
1203830--1203880	16	3.2	16	80	2	59	25	5	9	58	1.52
1204853--1204903	20	2.5	20	96	0	93	45	9	23	21	1.82
1204853--1204909	20	2.9	19	92	5	80	45	8	24	21	1.80
1206235--1206298	32	2.0	32	96	0	119	48	18	7	25	1.75
1206483--1206666	37	5.3	37	65	19	117	46	12	13	28	1.79
1206524--1206628	31	3.2	31	69	19	95	50	11	10	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206395--1206714	68	4.8	68	87	3	454	47	11	11	29	1.74
1209335--1209371	11	3.5	11	82	14	51	43	13	0	43	1.44
1209398--1209463	30	2.3	29	86	5	89	59	10	7	22	1.56
1212554--1212898	158	2.2	159	90	3	545	45	7	19	27	1.76
1212554--1212937	158	2.4	157	87	3	425	45	6	20	27	1.76
1213766--1213795	2	15.0	2	100	0	60	50	0	0	50	1.00
1213799--1213833	2	17.5	2	100	0	70	51	0	48	0	1.00
1214876--1214970	43	2.2	43	86	0	127	40	7	11	41	1.69
1214986--1215019	2	17.0	2	100	0	68	50	0	0	50	1.00
1216992--1217056	27	2.3	27	94	5	112	46	18	0	35	1.50
1218340--1218393	22	2.4	22	96	3	99	37	11	0	51	1.37
1224639--1224686	21	2.3	21	88	0	69	45	12	6	35	1.67
1226616--1226694	31	2.7	29	84	7	104	62	2	3	31	1.27
1228029--1228575	273	2.0	272	91	2	875	26	21	22	30	1.98
1230539--1230581	20	2.2	20	100	0	86	27	48	0	23	1.51
1233235--1233365	69	1.9	68	85	4	183	57	7	16	19	1.62
1233664--1233698	17	2.1	17	89	5	54	48	5	2	42	1.41
1242221--1242262	22	1.9	22	85	0	57	38	21	9	30	1.85
1242220--1242268	22	2.2	22	77	0	53	42	20	8	28	1.80
1248110--1248169	22	2.7	22	78	0	57	40	20	8	31	1.82
1256688--1256745	29	2.0	29	89	0	89	13	36	27	22	1.92
1256804--1256855	20	2.6	20	96	0	95	25	28	30	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256887--1256950	29	2.2	29	97	0	119	21	29	34	14	1.93
1256894--1256966	29	2.8	26	87	10	87	21	28	35	13	1.92
1257025--1257168	29	5.0	29	89	1	218	22	30	32	13	1.93
1261007--1261082	21	3.6	21	76	13	84	35	26	19	18	1.95
1260980--1261072	42	2.2	42	92	0	150	36	24	17	21	1.94
1261001--1261067	23	3.1	23	72	16	79	38	23	19	17	1.93
1262237--1262283	17	2.6	17	83	12	51	74	2	8	14	1.15
1272957--1273001	19	2.5	19	89	7	67	40	20	0	40	1.52
1279005--1279049	14	3.2	14	93	0	81	24	0	17	57	1.40
1279157--1279229	34	2.1	34	87	0	101	35	8	8	47	1.63
1279739--1279809	21	3.4	20	75	14	72	28	25	26	19	1.99
1281275--1281368	30	3.2	30	73	10	79	58	1	0	40	1.05
1288825--1289287	190	2.4	189	82	2	525	31	17	17	32	1.94
1290868--1290900	13	2.5	13	100	0	66	36	18	6	39	1.75
1291955--1292009	17	3.3	17	78	16	62	65	0	0	34	0.93
1291962--1292009	16	3.0	16	82	8	62	68	0	0	31	0.90
1291975--1292000	11	2.4	11	100	0	52	73	0	0	26	0.84
1292099--1292162	27	2.4	27	89	0	92	34	1	15	48	1.55
1293677--1294121	134	3.3	132	84	3	570	32	22	15	30	1.94
1294315--1294355	18	2.2	19	91	4	66	34	2	0	63	1.08
1298363--1298418	23	2.5	22	80	11	60	64	1	10	23	1.35
1299027--1299059	17	1.9	17	88	11	50	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309759--1309819	23	2.7	23	94	0	113	27	27	27	16	1.97
1311422--1311474	19	2.8	19	94	0	97	22	28	16	32	1.96
1314745--1314908	83	2.0	83	84	4	215	38	5	12	43	1.65
1316284--1316351	23	3.0	23	73	16	70	27	8	14	48	1.74
1316284--1316376	46	2.0	46	82	13	113	25	8	18	47	1.77
1316463--1316523	29	2.2	27	82	11	70	19	6	3	70	1.24
1320164--1320242	30	2.6	30	91	2	122	12	7	5	74	1.19
1320654--1320680	14	1.9	14	100	0	54	7	7	0	85	0.75
1322410--1322487	23	3.4	23	74	15	90	25	7	14	52	1.67
1327609--1327643	13	2.7	13	100	0	70	34	8	14	42	1.76
1334864--1334888	13	1.9	13	100	0	50	32	8	16	44	1.76
1337873--1337924	21	2.5	21	81	3	61	38	19	25	17	1.93
1337913--1338047	20	6.7	20	79	7	121	33	23	18	24	1.97
1337910--1338041	61	2.2	61	85	0	183	35	23	17	23	1.95
1338215--1338258	22	2.0	22	90	0	70	20	45	13	20	1.85
1338512--1338570	20	3.0	20	84	0	64	16	16	22	44	1.87
1339889--1339933	18	2.5	18	88	0	72	26	44	15	13	1.83
1340415--1340455	20	2.0	20	85	0	55	36	24	21	17	1.94
1340455--1340565	19	6.4	19	68	18	64	13	20	21	44	1.86
1340472--1340529	14	3.9	14	77	16	62	12	17	22	48	1.80
1340455--1340545	32	2.8	33	93	3	157	13	18	20	47	1.82
1340530--1340573	20	2.3	19	88	4	61	18	25	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342430--1342465	14	2.6	14	90	0	54	30	0	22	47	1.52
1342548--1342586	20	2.0	20	94	0	69	46	30	10	12	1.75
1342592--1342634	19	2.3	19	100	0	86	46	16	20	16	1.84
1342592--1342644	19	2.8	19	91	0	61	49	15	20	15	1.80
1342682--1342731	20	2.5	20	96	3	93	16	24	28	32	1.96
1343719--1343772	24	2.2	24	90	0	81	25	16	16	40	1.89
1343947--1343971	12	2.1	12	100	0	50	72	0	28	0	0.86
1346263--1346346	19	4.7	19	75	14	97	42	20	20	16	1.89
1346311--1346358	19	2.5	19	72	0	51	37	18	16	27	1.92
1346342--1346416	19	4.2	19	75	16	70	16	21	20	42	1.89
1346283--1346349	33	2.0	33	97	0	125	38	20	19	20	1.93
1346373--1346417	19	2.4	19	96	0	81	13	20	20	46	1.83
1347917--1348122	42	4.9	41	73	9	164	22	17	36	22	1.94
1347947--1348122	84	2.1	84	98	0	343	23	17	38	21	1.93
1348339--1348525	91	2.0	90	90	6	295	47	19	11	21	1.81
1348669--1348806	63	2.2	63	85	2	143	26	37	15	19	1.92
1348692--1348822	63	2.1	63	100	0	262	23	37	18	20	1.94
1350274--1350423	19	8.1	19	82	8	184	45	20	22	12	1.84
1350419--1350463	19	2.4	19	84	0	63	6	15	26	51	1.68
1351057--1351110	20	2.7	20	97	0	99	25	18	24	31	1.97
1351902--1351944	19	2.3	18	88	11	61	62	2	0	34	1.08
1351903--1351943	10	4.3	9	82	11	55	65	2	0	31	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353223--1353258	2	18.5	2	94	5	65	50	0	0	50	1.00
1354171--1354246	33	2.3	33	95	0	134	32	14	17	35	1.90
1368245--1368348	20	5.1	20	69	16	70	56	5	12	25	1.58
1368286--1368346	10	5.8	10	71	9	50	59	6	11	22	1.55
1368280--1368360	23	3.7	23	75	12	80	61	6	8	23	1.47
1368280--1368379	43	2.3	43	82	3	121	62	7	8	23	1.48
1368417--1368453	18	2.1	18	89	0	56	35	0	5	59	1.20
1369024--1369966	3	320.0	3	79	12	1048	0	37	0	61	0.99
1371203--1371261	31	1.9	31	92	0	100	40	6	8	44	1.61
1371276--1371596	54	6.0	52	72	16	152	52	8	0	39	1.36

Tables:   1   2   3   4   5   6   7   8