genome.fa.s8206.2.7.7.80.10.50.1000.7.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: VEPZ01008206.1 Hibiscus syriacus cultivar Beakdansim tig00110828_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504526

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1041 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)
1035763--1035787	12	2.1	12	100	0	50	72	0	28	0	0.86
1038115--1038179	19	3.4	19	97	2	121	15	21	16	46	1.84
1038288--1038322	14	2.5	14	90	0	61	45	20	0	34	1.51
1040278--1040370	33	2.8	33	93	0	159	47	21	19	11	1.81
1040241--1040375	19	7.6	19	76	16	128	45	23	18	11	1.82
1040297--1040353	14	3.7	14	75	20	51	45	22	19	12	1.83
1040371--1040499	19	7.3	19	72	17	107	9	16	28	45	1.78
1040371--1040462	33	2.8	33	88	3	132	8	17	28	45	1.78
1040543--1040923	93	4.1	93	98	0	735	46	18	12	22	1.83
1042625--1042714	14	5.7	14	74	23	81	42	23	25	8	1.83
1042617--1042731	33	3.5	33	93	0	203	46	20	23	9	1.80
1042624--1042736	19	6.8	18	71	23	79	44	22	23	9	1.82
1042755--1042807	18	2.8	19	80	8	63	13	26	20	39	1.89
1042755--1042828	20	3.8	19	78	7	78	13	24	18	43	1.86
1042908--1042978	33	2.2	33	94	0	124	47	16	23	11	1.79
1043159--1043213	22	2.5	22	81	0	74	20	16	40	23	1.91
1043359--1043552	20	9.6	20	81	5	212	19	19	25	36	1.95
1043359--1043552	60	3.2	60	82	0	244	19	19	25	36	1.95
1043539--1043621	21	4.0	21	71	6	69	25	15	24	34	1.95
1055989--1056097	57	1.9	58	92	5	186	33	19	5	41	1.74
1055989--1056097	29	3.8	29	90	4	177	33	19	5	41	1.74
1056656--1056714	31	1.9	31	96	0	109	28	27	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061334--1061467	57	2.3	58	92	5	218	36	19	4	39	1.72
1061334--1061471	29	4.8	29	91	3	217	36	19	4	39	1.72
1062326--1062389	27	2.3	28	81	10	69	64	6	1	28	1.27
1065973--1066016	2	22.0	2	100	0	88	50	0	0	50	1.00
1067571--1067625	18	2.8	19	86	10	67	18	23	30	27	1.97
1068248--1068298	12	4.7	10	77	17	57	19	9	13	56	1.65
1068248--1068298	22	2.3	22	86	0	66	19	9	13	56	1.65
1069205--1069239	12	2.9	12	91	0	52	0	22	0	77	0.78
1069502--1069665	2	82.0	2	100	0	328	0	0	50	50	1.00
1085265--1085334	34	2.1	34	97	0	131	25	5	21	47	1.73
1085936--1086210	136	2.0	135	97	2	505	41	9	9	39	1.71
1087810--1087848	2	19.5	2	100	0	78	51	0	0	48	1.00
1096021--1096312	151	2.0	146	95	3	530	22	20	25	30	1.98
1096734--1096827	21	4.5	21	92	5	129	18	35	26	20	1.95
1097342--1097438	33	2.9	34	85	3	133	55	4	3	37	1.35
1097340--1097445	34	3.2	33	82	8	133	54	4	2	37	1.36
1097822--1098201	128	3.0	128	95	0	670	33	19	23	23	1.97
1105636--1105715	37	2.2	39	82	17	109	56	10	7	26	1.59
1105634--1105720	35	2.5	33	78	15	95	56	9	6	27	1.56
1105711--1105770	9	6.9	9	72	27	58	66	13	0	20	1.24
1105723--1105777	13	4.7	12	72	19	53	67	10	0	21	1.21
1105951--1105982	3	10.7	3	93	0	55	31	37	0	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108057--1108090	17	1.9	18	88	5	52	64	5	0	29	1.17
1109047--1109145	49	2.0	49	84	5	130	42	15	2	40	1.58
1113760--1113808	23	2.1	23	88	7	73	24	14	20	40	1.89
1113816--1113875	22	2.7	22	82	5	68	15	11	21	51	1.74
1114079--1114143	28	2.3	28	97	0	121	46	13	18	21	1.84
1114080--1114133	16	3.6	16	69	19	53	46	12	20	20	1.83
1121905--1122486	259	2.2	258	86	4	805	43	18	10	28	1.82
1123898--1123945	17	2.9	17	84	3	62	41	25	2	31	1.67
1124158--1124195	3	13.0	3	94	5	69	68	0	0	31	0.90
1124867--1124891	12	2.1	12	100	0	50	24	0	8	68	1.16
1125534--1125563	15	2.0	15	93	0	51	56	6	0	36	1.26
1128601--1128638	20	1.9	20	88	0	58	26	36	23	13	1.91
1134328--1134488	64	2.5	65	78	7	161	31	21	20	26	1.98
1135146--1135208	31	2.0	31	90	0	99	19	17	23	39	1.92
1139159--1139283	31	4.0	31	93	2	207	20	19	22	38	1.94
1144983--1145111	44	3.0	44	87	1	179	28	17	17	37	1.92
1149640--1149720	23	3.5	23	87	0	126	22	20	13	43	1.87
1149639--1149726	46	1.9	46	92	0	149	20	22	13	43	1.87
1149920--1150067	39	3.8	38	87	7	190	37	2	16	43	1.62
1150149--1150201	28	1.9	27	88	3	79	32	1	16	49	1.57
1150270--1150329	30	2.1	29	84	12	79	48	0	8	43	1.33
1150542--1150596	18	3.4	18	65	31	52	38	0	9	52	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150620--1150659	21	1.9	21	94	0	71	30	0	12	57	1.36
1150829--1150932	30	3.4	30	86	4	129	40	0	11	47	1.46
1150875--1150921	15	3.1	16	69	12	53	46	0	12	40	1.42
1153213--1153254	17	2.5	17	80	0	57	57	2	0	40	1.12
1153195--1153303	59	1.9	58	88	9	170	52	5	3	38	1.42
1153382--1153410	14	2.1	14	100	0	58	44	6	0	48	1.29
1153385--1153472	8	10.5	8	70	24	58	50	11	0	38	1.39
1153388--1153465	35	2.3	34	85	10	99	51	11	0	37	1.38
1153418--1153482	27	2.4	27	97	0	121	50	10	0	38	1.37
1153714--1153877	18	10.2	17	67	15	71	47	9	0	43	1.35
1153689--1153944	49	5.4	47	90	6	376	45	10	0	43	1.39
1153782--1153861	13	6.3	13	71	17	53	45	12	0	42	1.42
1157629--1157732	50	2.2	48	83	11	133	49	7	0	42	1.38
1157693--1157754	28	2.1	30	94	5	110	56	12	0	30	1.37
1158301--1158365	32	2.0	32	96	0	121	13	35	21	29	1.92
1158361--1158416	29	1.9	29	92	0	94	14	30	32	23	1.94
1159407--1159435	3	9.7	3	100	0	58	34	0	0	65	0.93
1159888--1160009	58	2.1	58	84	4	156	31	16	18	32	1.93
1160357--1160399	22	2.0	22	100	0	86	51	13	0	34	1.42
1160359--1160407	22	2.2	22	88	3	71	55	14	0	30	1.40
1160347--1160924	54	10.8	54	73	17	417	51	13	0	34	1.45
1160362--1160767	77	5.2	77	77	16	424	51	14	0	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160460--1160567	31	3.5	30	91	6	164	52	13	1	31	1.51
1160456--1160939	32	16.4	32	70	23	239	52	12	0	34	1.45
1160550--1160636	21	3.9	22	77	11	97	51	13	0	34	1.42
1160516--1160713	98	2.0	98	82	9	244	52	13	0	33	1.41
1160725--1160767	22	2.0	22	100	0	86	51	13	0	34	1.42
1160727--1160775	22	2.2	22	88	3	71	55	14	0	30	1.40
1160910--1161059	15	10.0	15	91	0	237	48	0	0	50	1.05
1161576--1162081	252	2.0	254	98	0	989	46	6	8	37	1.61
1165458--1165528	31	2.3	31	95	0	124	22	18	21	38	1.94
1165472--1165538	31	2.2	31	91	0	107	19	20	25	34	1.96
1165472--1165548	31	2.5	31	87	4	93	22	19	24	33	1.97
1166692--1166726	17	2.1	17	94	0	61	5	20	11	62	1.48
1169753--1169777	13	1.9	13	100	0	50	84	0	0	16	0.63
1170072--1170120	19	2.5	19	80	9	55	69	4	6	20	1.27
1171488--1172012	253	2.1	253	94	0	917	24	18	25	31	1.98
1173697--1173764	8	8.8	8	77	11	61	1	13	5	79	0.98
1173707--1173762	15	3.7	15	90	6	87	0	12	7	80	0.90
1173707--1173763	23	2.5	22	91	5	96	0	12	7	80	0.89
1175232--1175277	21	2.2	21	100	0	92	32	26	28	13	1.93
1180800--1180850	25	2.0	27	88	7	79	70	5	7	15	1.30
1187035--1187098	20	3.2	20	71	20	53	71	0	14	14	1.14
1187210--1187234	13	1.9	13	100	0	50	84	0	0	16	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187313--1187351	19	2.1	19	85	0	51	76	2	2	17	1.01
1188728--1188776	2	25.5	2	80	15	59	48	0	4	46	1.20
1189939--1190146	75	2.8	76	84	3	251	23	31	23	21	1.98
1195921--1195982	23	2.7	23	100	0	124	20	33	25	19	1.96
1195921--1196004	23	3.8	21	87	7	80	22	34	25	17	1.96
1197948--1197989	17	2.6	16	85	7	57	14	0	26	59	1.35
1198687--1198743	21	2.7	21	97	0	105	28	35	22	14	1.93
1198611--1198818	96	2.2	96	84	2	265	23	32	23	20	1.98
1201467--1201518	15	3.3	15	75	17	52	51	0	13	34	1.41
1204909--1205136	81	2.9	76	80	10	242	37	8	14	39	1.77

Tables:   1   2   3   4   5   6   7   8   9