genome.fa.s8078.2.7.7.80.10.50.1000.6.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: VEPZ01008078.1 Hibiscus syriacus cultivar Beakdansim tig00110580_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1434613

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 813 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)
1123895--1123929	9	3.9	9	84	0	52	5	57	25	11	1.56
1124416--1124504	35	2.6	35	87	1	126	13	0	15	70	1.16
1141432--1141478	22	2.1	22	92	0	76	36	4	12	46	1.62
1142896--1142944	14	3.5	14	83	10	57	30	2	0	67	1.02
1146334--1146386	28	2.0	27	89	10	83	73	3	18	3	1.14
1148130--1148355	36	6.4	36	76	10	207	28	20	11	39	1.88
1148054--1148319	101	2.6	101	84	4	320	30	19	12	37	1.88
1148151--1148409	138	1.9	138	88	0	392	27	20	11	39	1.88
1149190--1149442	110	2.3	110	81	4	282	35	22	18	23	1.96
1150711--1150765	13	4.5	13	86	8	71	27	16	0	56	1.40
1150835--1150909	17	4.1	18	81	11	64	37	1	0	61	1.05
1150805--1150879	25	2.9	26	80	7	73	22	6	0	70	1.10
1150864--1150918	2	28.0	2	94	3	94	47	1	0	50	1.11
1150948--1151039	39	2.2	44	83	16	117	28	3	2	66	1.19
1160542--1160572	15	2.1	15	93	0	53	45	0	0	54	0.99
1163696--1164050	177	2.0	177	100	0	710	32	10	20	37	1.86
1176913--1177163	134	1.9	134	95	0	457	25	16	30	27	1.97
1176938--1177214	134	2.1	134	88	2	414	25	18	31	25	1.97
1177223--1177362	29	4.9	28	79	8	124	43	16	13	26	1.85
1177239--1177412	29	5.9	29	81	12	169	42	13	14	29	1.84
1177498--1177570	37	2.0	36	89	5	112	35	13	9	41	1.77
1177599--1177657	31	1.9	31	93	3	102	44	11	13	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177695--1177832	36	3.8	36	81	7	138	35	10	18	35	1.86
1178411--1178450	16	2.5	16	91	0	62	22	2	27	47	1.64
1183112--1183237	47	2.8	45	84	5	164	30	20	8	40	1.83
1187231--1187278	16	3.3	15	75	24	57	8	18	0	72	1.08
1187234--1187328	6	15.7	6	77	19	58	8	20	0	71	1.11
1187261--1187334	31	2.4	31	82	8	96	6	20	0	72	1.06
1187249--1187335	12	7.2	12	76	8	70	6	19	0	73	1.05
1187335--1187364	2	15.5	2	93	6	53	50	0	0	50	1.00
1188201--1188232	16	2.0	16	93	0	55	21	12	12	53	1.71
1190161--1190284	47	2.7	46	81	6	137	30	21	8	38	1.84
1196189--1196271	2	41.5	2	100	0	166	49	0	0	50	1.00
1198354--1198384	16	1.9	16	93	0	53	35	0	3	61	1.12
1198634--1198700	35	1.9	35	81	3	82	13	5	2	77	1.07
1198632--1198750	42	2.8	40	75	19	109	13	7	3	75	1.14
1198716--1198754	20	2.0	19	85	14	53	23	2	2	71	1.10
1204056--1204173	36	3.2	36	71	4	110	27	18	15	38	1.91
1204012--1204211	72	2.7	74	84	7	223	28	17	14	40	1.88
1204191--1204270	39	2.1	39	87	0	115	32	16	15	36	1.89
1204309--1204392	36	2.3	36	91	0	132	23	19	14	42	1.87
1204525--1204586	30	2.1	30	100	0	124	29	25	12	32	1.93
1204458--1204642	96	1.9	97	85	3	257	28	24	10	36	1.89
1204528--1204607	30	2.7	30	90	3	117	32	25	11	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205884--1205927	16	2.6	17	89	10	72	43	0	6	50	1.29
1207177--1207210	16	2.1	16	88	0	50	35	2	2	58	1.28
1207290--1207341	12	4.4	12	76	11	54	36	1	1	59	1.19
1207293--1207341	24	2.1	22	85	7	62	36	2	2	59	1.21
1225780--1225910	48	2.7	48	98	0	253	19	13	10	55	1.67
1226413--1226453	2	20.5	2	100	0	82	51	0	0	48	1.00
1226976--1227016	21	2.0	21	100	0	82	24	24	31	19	1.98
1227025--1227059	14	2.5	14	100	0	70	45	11	0	42	1.40
1238584--1239032	229	2.0	227	94	1	783	45	8	7	38	1.62
1239097--1239141	20	2.3	19	88	11	72	55	11	15	17	1.68
1239263--1239309	20	2.4	19	82	10	67	53	10	17	19	1.72
1239272--1239314	20	2.3	19	88	11	63	51	11	16	20	1.75
1240856--1240906	25	2.0	25	92	0	84	33	7	19	39	1.81
1241155--1241191	18	2.1	18	89	0	56	32	5	10	51	1.60
1241147--1241193	24	2.0	24	86	0	67	34	4	14	46	1.64
1241451--1241537	39	2.2	39	95	0	156	48	20	13	17	1.81
1249765--1249805	18	2.3	18	91	4	66	63	2	4	29	1.28
1251131--1251192	31	2.0	31	100	0	124	25	12	12	48	1.77
1253693--1253782	44	2.0	44	91	0	144	43	5	10	41	1.61
1255573--1255597	12	2.1	12	100	0	50	60	32	0	8	1.26
1259433--1259489	28	2.0	28	96	0	105	49	24	5	21	1.70
1263203--1263264	31	2.0	32	83	3	81	33	11	9	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267038--1267077	19	2.1	19	95	0	71	17	45	17	20	1.86
1267429--1267500	10	7.2	10	84	4	65	81	6	1	9	0.92
1267420--1267487	22	3.0	22	82	6	66	82	7	2	7	0.93
1267435--1267496	32	1.9	32	90	0	97	82	8	0	9	0.85
1268757--1268789	16	1.9	18	88	11	52	36	0	3	60	1.12
1269319--1269403	35	2.5	33	78	14	91	27	8	10	54	1.63
1271563--1271650	23	3.8	23	73	13	90	31	25	25	18	1.97
1275599--1275630	2	16.0	2	100	0	64	50	0	0	50	1.00
1276796--1276840	18	2.5	18	96	0	81	48	15	0	35	1.45
1277484--1277512	2	14.5	2	100	0	58	51	0	0	48	1.00
1278124--1278209	24	3.7	24	76	16	90	31	25	23	19	1.98
1278124--1278217	23	4.0	24	78	14	106	30	25	23	20	1.98
1279302--1279440	54	2.6	54	90	0	224	23	15	28	32	1.95
1280586--1280665	29	2.7	29	88	9	117	53	3	6	36	1.44
1284547--1284595	25	2.0	25	83	0	62	32	22	16	28	1.95
1284625--1284669	21	2.1	21	87	4	63	24	33	22	20	1.97
1285221--1285276	21	2.6	22	85	2	78	32	19	26	21	1.97
1290366--1290863	259	1.9	256	91	5	808	27	13	18	40	1.88
1291219--1291265	18	2.7	18	90	3	69	27	27	8	36	1.86
1291803--1291847	2	22.5	2	100	0	90	48	0	0	51	1.00
1293961--1294005	21	2.1	22	91	4	74	22	33	24	20	1.97
1294556--1294611	21	2.6	22	82	2	69	32	19	25	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311515--1311565	27	2.0	25	88	11	68	68	9	5	15	1.36
1311680--1311741	26	2.4	26	91	0	97	35	22	14	27	1.93
1313358--1314474	215	5.3	216	89	3	1673	50	8	12	28	1.69
1314557--1314683	2	63.0	2	75	10	116	47	2	3	47	1.31
1314588--1314702	42	2.7	42	78	9	126	44	3	5	46	1.42
1314715--1314817	42	2.5	39	78	6	98	43	7	5	42	1.57
1314847--1314896	9	5.7	9	77	13	50	44	0	6	50	1.26
1314897--1314962	7	9.4	7	79	0	69	19	0	36	43	1.51
1314894--1314954	21	2.9	21	95	0	104	21	0	34	44	1.53
1314897--1314977	28	3.0	27	78	10	85	20	0	32	46	1.51
1314965--1315017	6	8.8	6	97	0	88	16	11	16	54	1.70
1315036--1315108	20	3.4	20	77	17	74	39	4	1	54	1.28
1315049--1315097	25	2.0	24	88	7	73	36	4	2	57	1.30
1315060--1315152	33	2.9	31	77	16	84	40	5	4	49	1.45
1315076--1315211	33	4.2	31	88	5	166	43	7	5	43	1.56
1315110--1315379	18	14.7	20	68	24	154	42	9	7	40	1.66
1315173--1315494	53	5.9	53	73	21	229	41	9	6	42	1.62
1315076--1315377	18	16.7	18	66	24	113	42	8	6	41	1.63
1315216--1315369	80	1.9	80	88	9	233	41	9	7	41	1.65
1315425--1315497	2	34.0	2	74	17	58	43	5	2	47	1.40
1315425--1315497	20	3.6	20	83	9	87	43	5	2	47	1.40
1315451--1315519	34	2.0	36	85	5	97	46	7	2	43	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315374--1315589	53	4.2	48	73	19	154	43	7	4	43	1.54
1315758--1315810	21	2.5	21	81	6	72	20	24	18	35	1.95
1315817--1315893	21	3.7	21	94	0	136	38	18	23	19	1.93
1315882--1315996	20	5.7	20	75	6	79	34	26	14	23	1.94
1315879--1316016	41	3.4	41	73	2	143	36	25	14	23	1.93
1316489--1316547	20	3.0	20	87	0	73	15	18	22	44	1.87
1316684--1316738	25	2.2	24	78	15	58	20	9	18	52	1.71
1317867--1317914	18	2.7	18	90	0	78	27	45	10	16	1.80
1318455--1318500	20	2.3	20	84	0	56	41	28	17	13	1.86
1318494--1318576	19	4.6	19	81	14	113	45	20	20	13	1.84

Tables:   1   2   3   4   5   6   7