genome.fa.s8338.2.7.7.80.10.50.1000.8.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: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2210178

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

This is table  8  of  12  ( 1386 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)
1177359--1177408	19	2.5	20	77	3	57	46	28	16	10	1.78
1179162--1179453	94	3.1	94	93	2	468	22	12	18	47	1.81
1179910--1179976	21	3.2	21	66	6	55	23	35	20	19	1.95
1179858--1179976	42	2.8	42	81	5	107	22	36	18	22	1.95
1181327--1181362	14	2.6	14	95	0	63	33	0	22	44	1.53
1181469--1181553	19	4.7	19	79	16	101	45	22	21	10	1.82
1181469--1181563	19	5.3	18	80	12	90	44	23	20	12	1.85
1181563--1181689	33	3.8	33	91	0	200	14	23	16	45	1.84
1181598--1181709	19	6.4	19	68	20	82	15	22	17	44	1.86
1181683--1181755	20	3.6	20	70	17	69	23	19	24	32	1.97
1184205--1184258	24	2.2	24	86	0	72	40	14	16	27	1.88
1184997--1185143	20	7.3	20	86	6	172	23	19	26	29	1.98
1185181--1185233	21	2.5	20	85	8	79	33	16	26	22	1.96
1186257--1186398	64	2.2	65	87	6	200	29	22	19	28	1.98
1192469--1192507	20	2.0	20	89	0	60	23	0	12	64	1.28
1194725--1194884	65	2.5	63	82	8	189	31	24	16	27	1.96
1201009--1201166	64	2.5	63	81	7	167	34	16	21	27	1.95
1202399--1202494	30	3.2	30	83	2	104	17	19	28	34	1.95
1204338--1204366	14	2.0	15	93	6	51	68	0	20	10	1.18
1208011--1208110	24	4.2	24	92	0	155	34	27	22	17	1.95
1209375--1209430	20	2.8	20	94	0	94	33	16	19	30	1.94
1209945--1209990	14	3.2	15	82	17	62	60	0	30	8	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211167--1211235	23	3.0	23	78	0	75	33	26	23	17	1.96
1211627--1211651	2	12.5	2	100	0	50	48	0	0	52	1.00
1212826--1212986	64	2.5	63	79	6	171	23	24	18	33	1.96
1214482--1214545	23	2.8	23	82	0	92	32	26	25	15	1.95
1215011--1215061	2	25.5	2	100	0	102	50	0	0	49	1.00
1216160--1216320	64	2.5	65	84	6	195	23	26	19	31	1.98
1220394--1220433	21	1.9	21	85	10	55	17	0	5	77	0.94
1221708--1221746	20	1.9	19	85	10	51	38	5	2	53	1.37
1222576--1222609	4	8.2	4	87	6	50	23	2	0	73	0.97
1222576--1222610	13	2.8	13	91	4	54	22	2	0	74	0.95
1223015--1223059	22	2.0	22	100	0	90	26	17	17	37	1.93
1226415--1226457	2	21.5	2	100	0	86	48	0	0	51	1.00
1226563--1226606	19	2.5	17	82	13	61	43	0	29	27	1.55
1226573--1226619	19	2.5	19	96	0	85	44	0	29	25	1.54
1227367--1227416	21	2.4	21	87	12	68	48	28	2	22	1.62
1227841--1227900	21	2.9	21	87	9	79	51	26	1	20	1.56
1227847--1227879	14	2.4	14	94	0	57	51	24	0	24	1.48
1228517--1228589	14	5.2	14	78	6	76	52	23	0	24	1.48
1228516--1228589	28	2.6	28	85	4	96	51	24	0	24	1.49
1228538--1228585	21	2.3	21	81	0	60	52	27	0	20	1.47
1228517--1228589	7	10.4	7	79	5	51	52	23	0	24	1.48
1228751--1228821	14	5.7	14	68	27	61	50	4	0	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228749--1228822	24	3.1	24	98	1	141	48	4	0	47	1.20
1228844--1228891	22	2.0	22	88	11	69	39	2	0	58	1.10
1228862--1228934	29	2.5	28	73	8	74	42	2	2	52	1.30
1231975--1232018	23	2.0	21	87	12	63	65	0	0	34	0.93
1238562--1238609	21	2.3	21	100	0	96	41	14	18	25	1.88
1245317--1245368	27	1.9	27	88	0	77	32	11	26	28	1.91
1248709--1248745	19	2.1	19	85	10	51	37	0	0	62	0.96
1259118--1259152	19	1.9	18	88	11	54	11	31	5	51	1.61
1266968--1267013	24	1.9	24	82	8	58	28	2	19	50	1.60
1267075--1267139	21	3.0	21	93	2	112	18	24	32	24	1.97
1274868--1274962	32	3.0	32	80	6	111	22	11	28	37	1.89
1275267--1275319	19	2.7	19	71	11	54	41	1	0	56	1.10
1275543--1275580	19	2.1	19	85	5	51	39	5	0	55	1.23
1275655--1275722	32	2.1	33	86	8	95	14	13	32	39	1.85
1284800--1284866	24	2.8	23	82	8	82	46	0	1	52	1.09
1285070--1285633	71	7.7	72	87	6	771	46	0	4	47	1.28
1285051--1285633	223	2.6	222	91	3	939	47	0	4	47	1.27
1285306--1285427	38	3.2	38	63	15	97	45	0	6	47	1.34
1288447--1288497	15	3.5	15	89	2	68	23	25	0	50	1.49
1288458--1288496	15	2.6	15	100	0	78	20	25	0	53	1.45
1288677--1288719	19	2.3	18	80	11	50	44	11	2	41	1.53
1290702--1290753	22	2.3	23	83	12	63	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311208--1311268	17	3.7	16	79	18	63	50	24	3	21	1.63
1311610--1312040	43	10.1	42	82	7	381	33	18	21	26	1.96
1315375--1315431	22	2.5	22	82	5	60	45	14	19	21	1.85
1315464--1315505	20	2.0	21	90	4	68	23	33	21	21	1.97
1318937--1319061	31	4.0	32	74	9	114	33	18	18	29	1.95
1319285--1319329	19	2.5	17	82	7	54	35	20	2	42	1.64
1319736--1319789	2	27.0	2	100	0	108	50	0	0	50	1.00
1321064--1321210	42	3.5	41	69	18	97	36	19	15	28	1.93
1320946--1321189	83	3.0	83	80	4	282	35	20	14	29	1.92
1321720--1321799	17	4.8	16	75	17	67	18	2	25	53	1.57
1321671--1321799	49	2.6	49	86	3	161	17	3	23	55	1.59
1321845--1321888	6	7.5	6	92	2	54	54	0	38	6	1.27
1321830--1321888	12	5.0	11	83	6	55	55	0	38	5	1.22
1321830--1321885	18	3.1	17	80	10	58	55	0	39	5	1.23
1324762--1324809	16	2.9	16	87	3	60	62	0	2	35	1.07
1324921--1324992	37	1.9	37	91	0	117	25	9	13	51	1.72
1325142--1325172	14	2.2	14	94	0	53	35	22	6	35	1.80
1325239--1325289	26	2.0	26	88	0	75	25	13	19	41	1.88
1330496--1330529	17	2.0	17	88	11	52	35	0	14	50	1.44
1331132--1331156	12	2.1	12	100	0	50	24	40	8	28	1.83
1334507--1334544	20	1.9	20	88	0	58	15	26	36	21	1.93
1334678--1334702	12	2.1	12	100	0	50	44	0	8	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336076--1336188	60	1.9	60	81	7	140	44	4	17	33	1.69
1337680--1337728	23	2.1	23	84	0	62	40	10	18	30	1.84
1337741--1338445	199	3.5	196	81	7	737	30	14	14	40	1.85
1339843--1340699	199	4.3	199	87	3	1188	28	14	15	42	1.86
1339847--1340699	396	2.1	399	90	1	1338	28	14	15	41	1.86
1341023--1341091	28	2.5	28	97	0	129	47	8	11	31	1.70
1343052--1343093	15	2.8	15	88	0	66	26	2	52	19	1.58
1343531--1343985	182	2.5	182	90	1	716	27	14	13	45	1.82
1343824--1344145	163	2.0	163	84	4	427	27	12	13	46	1.78
1343987--1344853	182	4.8	181	85	3	1057	27	14	13	44	1.82
1343506--1344819	530	2.5	533	86	5	1735	27	14	13	44	1.82
1343987--1344833	367	2.3	364	84	3	1091	27	14	13	44	1.82
1364089--1364153	13	5.5	13	78	14	54	36	1	0	61	1.05
1364058--1364144	16	5.3	16	78	13	79	37	2	0	59	1.10
1365000--1365045	16	2.9	16	87	6	58	34	2	36	26	1.69
1367421--1367502	29	2.8	29	94	1	137	32	14	9	42	1.79
1372189--1372270	29	2.8	29	94	1	137	32	14	9	42	1.79
1375196--1375555	178	2.0	178	94	1	632	29	18	6	45	1.74
1377535--1377578	23	1.9	23	100	0	88	18	18	25	38	1.92
1379837--1379884	24	2.0	24	83	0	60	41	2	6	50	1.39
1380118--1380162	23	2.0	23	95	0	81	40	24	15	20	1.91
1380628--1380674	24	1.9	25	87	12	71	42	4	10	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385538--1385989	231	2.0	231	99	0	886	37	17	15	28	1.91
1389522--1389580	23	2.6	23	88	0	82	32	13	27	27	1.94
1395032--1395072	16	2.5	17	92	7	68	41	14	29	14	1.86
1397767--1397804	17	2.2	18	81	13	53	2	31	0	65	1.06
1403388--1403418	3	10.3	3	92	0	53	32	0	0	67	0.91
1403502--1403538	16	2.3	16	95	0	65	35	29	27	8	1.85
1403794--1404449	329	2.0	329	94	0	1152	34	19	22	23	1.96
1405324--1405365	11	3.3	12	84	15	50	23	4	0	71	1.05
1405628--1405695	21	3.3	21	91	2	102	39	16	22	22	1.92
1405668--1405823	41	3.8	42	79	9	137	33	23	18	23	1.97

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