genome.fa.s7884.2.7.7.80.10.50.1000.6.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: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2814991

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1544 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)
1083138--1083243	22	4.9	22	95	2	180	25	26	23	24	2.00
1084132--1084186	27	2.1	25	83	6	65	40	1	0	58	1.09
1088826--1088869	5	8.8	5	100	0	88	61	0	0	38	0.96
1089337--1089403	25	2.8	25	90	4	102	37	19	0	43	1.51
1089661--1089722	31	2.0	32	90	3	99	33	24	20	20	1.97
1091354--1091402	9	5.4	9	83	9	55	42	2	0	55	1.11
1109551--1109590	20	2.0	20	85	9	55	17	12	17	52	1.74
1110185--1110305	43	2.8	44	75	2	120	20	24	22	32	1.98
1111430--1111459	2	15.0	2	100	0	60	50	0	0	50	1.00
1113188--1113243	19	2.9	19	91	0	94	32	5	26	35	1.79
1113677--1114261	40	14.9	40	86	5	728	35	21	20	21	1.96
1114045--1114196	53	2.7	57	88	10	222	32	21	22	23	1.98
1114119--1114242	19	6.5	19	72	15	85	36	20	20	22	1.95
1114103--1114261	21	8.1	21	70	14	97	35	20	21	22	1.96
1114163--1114231	35	2.0	35	88	0	102	36	15	21	26	1.94
1117004--1117066	18	3.3	18	80	8	54	41	11	0	47	1.39
1117074--1117225	31	5.0	29	73	13	119	36	7	0	55	1.33
1117230--1117599	30	12.6	29	73	10	270	49	1	9	39	1.44
1117265--1117325	24	2.5	24	74	10	61	47	0	8	44	1.33
1117586--1117635	18	2.7	18	78	3	55	42	0	14	44	1.44
1129037--1129074	20	1.9	20	100	0	76	31	21	23	23	1.98
1129122--1129178	21	2.6	22	75	10	55	38	5	14	42	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142515--1142549	17	2.1	17	100	0	70	40	31	28	0	1.57
1144609--1144683	33	2.3	33	100	0	150	22	21	18	37	1.94
1147762--1147857	30	3.3	30	76	11	83	40	0	1	58	1.05
1147995--1148083	17	5.2	17	74	15	76	43	0	3	52	1.17
1147994--1148041	22	2.2	22	100	0	96	43	0	4	52	1.20
1149692--1149761	21	3.3	21	80	7	79	18	28	24	28	1.98
1150418--1150445	14	2.0	14	100	0	56	57	14	0	28	1.38
1150533--1150595	23	2.7	23	92	0	99	33	15	0	50	1.45
1150640--1151223	138	4.3	138	91	0	922	33	21	21	23	1.97
1151994--1152051	19	3.1	19	80	9	82	17	20	29	32	1.95
1152711--1152754	21	2.0	22	82	4	54	59	25	2	13	1.46
1160578--1160734	65	2.4	64	88	5	219	32	16	20	30	1.95
1161192--1161230	16	2.4	16	91	0	60	23	43	33	0	1.54
1164326--1164413	26	3.4	26	75	10	72	43	0	1	55	1.07
1164393--1164434	21	2.0	21	85	0	57	50	0	0	50	1.00
1164615--1164662	24	2.0	25	83	4	62	64	4	6	25	1.35
1166082--1166138	19	2.8	20	75	20	57	47	0	0	52	1.00
1178690--1178815	66	1.9	66	85	6	175	34	23	20	21	1.97
1183393--1183427	13	2.7	13	100	0	70	22	34	8	34	1.85
1186670--1187230	43	13.0	43	89	0	836	28	14	30	26	1.95
1187264--1187384	42	2.9	41	79	6	136	25	22	19	32	1.98
1187527--1187611	42	2.0	42	82	8	102	23	15	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188470--1188844	131	2.8	131	84	1	473	33	21	17	28	1.96
1188725--1189073	88	4.0	88	83	4	436	34	20	16	27	1.95
1192550--1192585	14	2.5	15	90	4	56	16	25	33	25	1.96
1198647--1198680	5	6.6	5	96	3	59	76	0	23	0	0.79
1201389--1201422	16	2.2	15	89	5	50	67	8	23	0	1.18
1204714--1204758	15	3.0	15	83	0	54	42	8	0	48	1.34
1207806--1207832	14	1.9	14	100	0	54	40	22	7	29	1.81
1208541--1209015	183	2.6	183	88	1	668	43	12	16	27	1.84
1211121--1211153	15	2.2	15	94	0	57	18	9	63	9	1.49
1211238--1211278	21	2.0	21	100	0	82	43	9	29	17	1.80
1211315--1211380	33	2.0	33	93	0	114	30	0	46	22	1.52
1211573--1211646	33	2.2	33	95	0	130	52	0	43	4	1.20
1213212--1213260	19	2.5	20	90	9	84	30	2	10	57	1.43
1213495--1216481	200	14.9	200	96	0	5427	36	14	18	30	1.91
1217995--1218034	12	3.3	12	85	0	53	40	7	32	20	1.80
1217995--1218034	18	2.2	18	86	0	53	40	7	32	20	1.80
1220540--1221379	182	4.6	182	93	1	1418	42	12	17	28	1.85
1221515--1221677	87	1.9	87	96	0	299	33	13	11	41	1.80
1221599--1221643	23	2.0	23	86	0	63	37	15	8	37	1.79
1223524--1223598	29	2.6	29	87	8	91	42	24	5	28	1.76
1230600--1230753	29	5.6	29	72	12	99	50	15	3	30	1.62
1235464--1235533	32	2.2	31	80	7	79	38	10	14	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239920--1239973	16	3.4	16	78	0	63	48	29	12	9	1.73
1240055--1240111	18	3.1	19	75	12	57	59	0	1	38	1.08
1243081--1243132	2	26.0	2	100	0	104	50	0	0	50	1.00
1245592--1245639	3	15.0	3	79	12	51	66	2	2	29	1.14
1245599--1245639	7	6.1	7	88	5	59	70	2	0	26	0.99
1245592--1245639	19	2.5	20	89	3	71	66	2	2	29	1.14
1245793--1246312	72	7.2	72	83	3	634	28	18	15	37	1.92
1249372--1249414	19	2.3	19	100	0	86	6	23	11	58	1.57
1251589--1251985	206	1.9	206	96	0	740	30	20	17	31	1.96
1257716--1257776	13	4.7	13	97	0	113	6	40	6	45	1.56
1260247--1260281	15	2.4	14	86	9	52	65	0	0	34	0.93
1266579--1266622	23	2.0	23	82	13	56	50	9	2	38	1.47
1267830--1267864	10	3.5	10	96	0	61	25	28	34	11	1.91
1267813--1267881	35	2.0	35	91	0	111	26	26	34	13	1.92
1274833--1274874	13	3.0	14	86	6	59	9	19	50	21	1.75
1275904--1275975	2	36.0	2	85	10	94	45	0	4	50	1.21
1276962--1277066	31	3.4	31	95	0	183	19	9	17	54	1.69
1286315--1286372	3	19.0	3	82	10	73	34	0	0	65	0.93
1287665--1287711	20	2.3	21	75	10	53	25	4	8	61	1.43
1287752--1287804	23	2.2	23	83	10	61	43	3	0	52	1.19
1291751--1291782	15	2.1	15	94	0	55	28	18	6	46	1.73
1295656--1295686	12	2.6	12	94	0	53	35	16	0	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299111--1299181	11	5.8	11	71	20	52	77	1	18	2	0.97
1300543--1300858	83	3.7	83	88	8	497	27	12	21	37	1.90
1300543--1300908	83	4.1	92	90	5	473	30	13	19	36	1.90
1301796--1302474	113	6.0	113	84	2	792	38	12	19	29	1.89
1301811--1302473	337	2.0	340	90	1	1044	38	12	19	29	1.88
1302392--1302681	120	2.4	121	79	10	333	40	14	21	23	1.90
1302511--1302576	36	1.9	35	81	9	82	43	12	22	21	1.85
1302819--1302876	3	19.0	3	82	10	73	34	0	0	65	0.93
1304264--1304316	23	2.2	23	83	10	61	43	3	0	52	1.19
1307396--1307514	3	39.7	3	96	0	220	33	1	0	64	1.03
1307513--1307557	22	2.1	21	84	8	56	62	2	0	35	1.08
1307974--1308055	42	1.9	43	80	7	96	68	9	21	0	1.18
1308952--1308990	18	2.2	18	85	0	51	35	2	5	56	1.35
1320356--1320427	28	2.4	31	76	21	82	77	0	19	2	0.88
1320366--1320427	24	2.6	24	85	7	74	79	0	17	3	0.87
1320361--1320426	10	6.9	9	78	14	62	80	0	16	3	0.84
1320359--1320420	17	3.6	16	79	14	70	79	0	17	3	0.87
1321566--1322239	84	8.0	84	97	0	1260	28	13	22	35	1.92
1322951--1323602	113	5.8	113	95	0	1135	38	13	18	29	1.89
1323926--1324043	3	39.3	3	94	0	209	33	2	0	63	1.08
1324042--1324086	22	2.1	21	84	8	56	62	2	0	35	1.08
1324503--1324584	42	1.9	43	80	7	96	68	9	21	0	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325480--1325518	18	2.2	18	85	0	51	35	2	5	56	1.35
1328788--1328838	16	2.9	18	80	11	52	54	3	0	41	1.19
1330166--1330261	3	31.0	3	85	6	129	60	1	0	38	1.04
1330167--1330261	25	3.8	25	84	5	138	60	1	0	38	1.04
1330166--1330266	22	4.7	21	87	7	130	59	0	0	39	1.04
1330415--1330482	20	3.4	19	91	4	100	25	17	35	22	1.95
1330556--1330742	45	4.2	45	88	2	268	34	20	22	22	1.96
1330766--1332511	45	38.8	45	91	0	2765	33	18	22	24	1.97
1330645--1330863	121	1.8	121	89	2	350	32	21	21	24	1.98
1333161--1333218	22	2.6	22	94	0	98	36	15	15	32	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13