genome.fa.s8721.2.7.7.80.10.50.1000.7.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: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2464137

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1342 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)
1181354--1182473	163	7.0	161	80	9	1213	32	21	13	32	1.92
1181354--1181990	164	3.9	162	84	4	841	32	21	13	32	1.91
1181848--1182136	146	2.0	143	91	2	461	32	24	11	31	1.91
1186796--1186865	36	1.9	37	94	2	124	44	11	12	31	1.78
1197445--1197504	23	2.6	23	81	2	66	43	18	20	18	1.88
1199884--1199947	25	2.6	25	87	5	76	26	3	4	65	1.27
1201768--1201807	21	2.0	20	85	5	53	27	15	0	57	1.38
1210148--1210179	2	16.5	2	93	6	57	50	0	0	50	1.00
1213634--1213667	15	2.3	15	100	0	68	41	0	11	47	1.40
1213878--1213935	22	2.8	20	70	17	55	67	5	3	24	1.27
1214111--1214136	10	2.6	10	100	0	52	30	0	0	69	0.89
1216451--1216589	24	5.7	24	85	10	192	52	0	0	46	1.11
1216407--1216564	74	2.2	73	85	7	205	55	1	0	43	1.12
1216578--1216628	12	4.4	11	80	9	57	66	1	0	31	1.03
1216511--1216612	48	2.1	47	82	12	118	52	0	0	45	1.13
1218144--1218181	12	3.5	11	86	10	51	36	0	2	60	1.11
1218625--1218675	24	2.2	23	82	10	59	50	0	0	49	1.00
1220118--1220180	22	3.0	20	84	11	81	25	23	22	28	1.99
1220137--1220180	22	2.0	22	100	0	88	27	22	22	27	1.99
1220283--1220346	30	2.1	31	94	2	112	28	21	12	37	1.90
1224791--1224833	20	2.3	19	88	8	61	27	30	9	32	1.88
1234239--1234299	3	20.3	3	100	0	122	67	0	32	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234713--1235242	112	4.8	112	91	2	825	46	13	14	25	1.80
1235071--1235417	175	2.0	172	92	1	568	47	14	14	23	1.80
1235243--1235460	112	1.9	113	86	0	312	43	14	16	26	1.85
1235829--1235876	23	2.1	23	92	0	78	39	18	8	33	1.81
1236208--1236256	23	2.1	23	88	0	71	63	4	0	32	1.13
1250482--1250524	20	2.3	18	81	14	52	18	16	4	60	1.52
1251615--1251649	3	11.7	3	100	0	70	65	0	0	34	0.93
1251868--1251950	20	3.8	20	73	17	76	43	3	1	51	1.26
1258790--1258824	2	17.5	2	100	0	70	51	0	0	48	1.00
1261132--1261223	31	3.0	30	81	6	105	36	20	15	27	1.92
1266878--1266921	23	1.9	23	81	9	54	34	6	6	52	1.55
1267607--1267640	16	2.1	17	94	5	61	52	5	0	41	1.25
1267644--1267717	19	4.4	18	74	22	65	41	0	8	50	1.32
1267653--1267722	14	4.4	16	73	22	76	42	0	7	50	1.30
1267662--1267729	14	4.6	14	70	29	52	44	0	5	50	1.26
1267624--1267744	47	2.5	49	83	14	171	44	2	5	47	1.40
1267646--1267714	25	2.9	24	76	16	81	43	0	7	49	1.30
1267657--1267732	25	3.2	25	65	16	70	44	0	5	50	1.24
1270122--1270369	130	1.9	130	92	0	415	35	14	13	36	1.85
1270136--1270400	130	2.0	129	81	4	300	39	12	13	34	1.82
1270697--1270759	28	2.3	27	78	8	63	46	1	3	49	1.27
1270839--1270872	16	2.0	18	88	11	54	64	5	2	26	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270995--1271037	21	2.0	21	100	0	86	39	0	13	46	1.44
1271006--1271091	35	2.5	35	84	0	100	37	1	20	40	1.61
1273028--1273054	13	2.1	13	100	0	54	37	14	25	22	1.93
1276532--1276574	20	2.2	20	91	0	68	32	11	20	34	1.89
1285099--1285141	20	2.2	20	91	0	68	32	11	20	34	1.89
1300234--1300286	16	3.2	16	72	5	52	41	26	1	30	1.66
1300461--1300524	23	2.8	23	87	0	92	28	26	26	18	1.98
1300540--1300860	103	3.1	103	95	0	579	36	23	13	26	1.92
1302343--1302387	21	2.1	21	87	0	63	15	24	28	31	1.96
1307190--1307498	145	2.1	145	98	0	600	47	9	7	35	1.64
1308421--1308491	10	7.0	10	78	12	74	32	2	8	56	1.44
1308426--1308492	32	2.1	32	86	5	91	29	2	7	59	1.40
1308421--1308490	20	3.5	19	79	12	86	32	2	8	55	1.45
1315632--1315662	2	15.5	2	100	0	62	0	48	0	51	1.00
1325154--1325233	35	2.3	35	88	0	124	41	23	1	33	1.63
1325154--1325249	35	2.7	34	79	9	104	39	25	3	32	1.71
1326166--1326259	35	2.7	35	81	0	116	29	2	25	42	1.67
1327331--1327379	21	2.3	21	86	6	64	34	0	8	57	1.29
1327958--1328323	193	1.9	185	82	6	448	51	8	12	28	1.68
1329221--1329267	2	23.5	2	100	0	94	48	0	0	51	1.00
1333765--1334509	254	2.9	252	85	9	937	26	15	19	38	1.92
1334773--1334886	44	2.6	44	94	0	201	37	20	15	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337913--1337952	2	20.0	2	100	0	80	50	0	0	50	1.00
1338053--1338103	20	2.5	20	83	6	66	35	23	11	29	1.90
1338176--1338283	39	2.7	40	84	5	130	36	25	12	25	1.92
1338112--1338291	20	8.9	20	75	8	102	35	22	12	30	1.91
1338288--1338329	20	2.1	20	100	0	84	14	14	19	52	1.75
1338369--1338446	39	2.0	40	85	7	106	21	14	28	35	1.92
1342935--1342960	2	13.0	2	100	0	52	50	0	0	50	1.00
1347461--1347520	28	2.1	29	81	9	70	51	1	1	45	1.21
1348148--1348192	20	2.2	20	92	7	74	26	22	13	37	1.91
1354783--1354813	16	1.9	16	93	0	53	45	3	3	48	1.34
1356590--1356699	48	2.3	48	83	0	130	18	20	29	32	1.96
1356590--1356721	48	2.8	48	81	2	122	18	19	30	31	1.96
1356835--1356935	48	2.1	48	84	0	130	18	15	32	32	1.93
1361975--1362074	24	4.2	24	69	14	80	21	14	16	49	1.80
1374908--1374965	24	2.4	23	80	8	62	20	12	15	51	1.75
1375125--1375154	2	15.0	2	100	0	60	50	0	0	50	1.00
1379943--1379973	2	15.5	2	100	0	62	48	0	0	51	1.00
1384507--1384615	24	4.5	24	72	4	94	20	13	16	49	1.79
1403712--1403763	22	2.4	22	83	0	59	15	25	25	34	1.95
1404034--1404071	18	2.1	19	85	14	53	36	13	0	50	1.42
1404471--1404537	34	2.0	33	94	2	116	49	7	0	43	1.31
1404483--1404543	17	3.6	17	67	8	52	47	6	1	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417800--1418040	20	11.8	20	89	4	302	22	25	17	35	1.95
1417800--1418040	123	2.0	123	94	0	428	22	25	17	35	1.95
1417800--1418062	103	2.6	103	90	3	397	22	25	17	35	1.95
1417798--1418038	83	2.9	80	87	5	320	22	25	17	34	1.95
1418075--1418128	20	2.7	19	88	8	81	9	18	18	53	1.70
1419160--1419207	2	24.0	2	95	0	87	47	0	2	50	1.12
1423471--1423666	32	6.2	32	77	7	123	29	22	16	31	1.96
1423471--1423549	31	2.5	31	83	6	106	30	22	15	31	1.95
1423492--1423569	31	2.5	31	85	4	95	30	23	15	30	1.95
1424390--1424497	32	3.2	32	63	14	83	30	23	12	34	1.91
1424391--1424529	68	2.0	68	100	0	278	33	20	14	31	1.93
1424555--1424592	19	2.0	19	94	0	67	21	39	7	31	1.82
1426373--1426974	249	2.4	250	90	1	940	30	17	17	34	1.93
1426874--1426970	42	2.3	42	87	0	131	24	19	21	34	1.97
1427144--1427190	3	16.0	3	86	4	51	38	4	0	57	1.18
1431051--1431091	2	20.5	2	100	0	82	51	0	0	48	1.00
1434676--1434756	20	4.1	19	81	9	90	39	16	20	23	1.92
1434676--1434756	40	2.0	40	87	0	117	39	16	20	23	1.92
1434759--1434904	57	2.6	57	83	0	175	33	23	15	26	1.95
1435256--1435304	20	2.5	20	96	0	89	26	14	28	30	1.95
1435201--1435361	77	2.1	77	95	0	286	26	14	24	34	1.94
1435276--1435418	57	2.5	57	97	0	268	25	15	25	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435408--1435502	20	4.7	20	80	1	109	20	16	16	46	1.84
1436687--1436728	20	2.1	20	100	0	84	33	9	19	38	1.84
1440159--1440190	3	10.7	3	93	0	55	68	28	0	3	1.04
1442804--1442854	23	2.2	23	89	0	75	23	27	23	25	2.00
1444227--1444414	32	5.9	32	76	7	170	31	26	14	27	1.95
1447002--1447045	23	2.0	22	81	4	52	40	2	9	47	1.48
1450360--1450437	29	2.6	30	77	4	86	15	20	8	55	1.67
1450353--1450453	30	3.4	29	76	4	94	13	17	7	60	1.57
1469426--1469489	17	3.9	17	75	19	73	81	3	15	0	0.82
1469428--1469480	13	4.2	13	81	11	58	83	1	15	0	0.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12