genome.fa.s8826.2.7.7.80.10.50.1000.5.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  5  of  18  ( 2089 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)
1012353--1012746	194	2.0	198	96	3	726	33	1	13	51	1.50
1012646--1012703	27	2.1	28	81	15	68	32	3	13	50	1.59
1012752--1012800	24	2.0	24	84	4	62	42	0	10	46	1.37
1012812--1012866	18	3.4	18	65	31	52	38	0	9	52	1.33
1013097--1013191	30	3.1	30	81	13	97	40	3	11	45	1.56
1015555--1015638	14	5.3	15	69	23	57	53	5	2	38	1.38
1015639--1015784	12	11.5	13	65	23	62	45	10	2	41	1.51
1015573--1015713	11	13.2	10	68	24	60	48	9	2	39	1.47
1015626--1015704	24	3.5	22	73	19	65	50	10	1	37	1.44
1015735--1015787	25	2.1	25	100	0	106	45	11	3	39	1.58
1015926--1016102	49	3.7	49	90	2	279	42	12	1	42	1.52
1016024--1016130	13	7.4	14	68	21	53	41	14	0	42	1.52
1016033--1016177	74	1.9	75	91	4	240	43	13	0	42	1.49
1019683--1019786	42	2.5	40	77	11	102	47	9	0	43	1.36
1019759--1019807	21	2.3	21	85	3	71	53	16	0	30	1.43
1020063--1020112	21	2.3	23	82	6	59	46	6	16	32	1.71
1020412--1020613	100	2.0	101	94	0	352	14	41	22	21	1.90
1020582--1020661	29	2.8	29	94	0	142	8	25	36	30	1.86
1021043--1021109	30	2.2	31	83	5	91	26	23	11	37	1.90
1041699--1041830	67	2.0	67	83	3	167	46	7	5	40	1.55
1042968--1042999	16	2.0	16	100	0	64	25	25	12	37	1.91
1044302--1044360	21	2.8	21	94	0	109	6	32	42	18	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046760--1047214	159	2.9	159	83	4	600	50	6	16	26	1.68
1046760--1047279	159	3.3	156	82	5	595	50	5	16	27	1.68
1050119--1050182	23	2.8	22	80	7	65	25	6	0	68	1.12
1050145--1050182	12	3.2	12	81	7	51	23	2	0	73	0.95
1050357--1050405	17	2.8	18	79	11	57	14	10	0	75	1.04
1054055--1055117	86	12.6	86	81	4	1189	35	21	18	24	1.95
1054055--1055117	169	6.3	168	86	3	1386	35	21	18	24	1.95
1055065--1055161	51	1.9	51	91	2	160	35	24	14	25	1.94
1056705--1056739	18	1.9	18	88	0	52	17	5	0	77	0.96
1056841--1056890	4	13.0	4	76	16	52	22	2	2	74	1.03
1056846--1056889	24	2.0	21	86	13	61	22	2	2	72	1.07
1056841--1056890	7	6.5	8	80	11	52	22	2	2	74	1.03
1057697--1057728	2	16.0	2	100	0	64	50	0	0	50	1.00
1058548--1058635	28	3.1	27	77	12	88	39	6	6	46	1.57
1058498--1058635	30	4.7	29	72	9	111	41	5	5	47	1.51
1058675--1058788	29	3.9	29	81	4	120	42	8	7	40	1.65
1059466--1059511	23	2.0	24	82	4	58	45	0	19	34	1.51
1060252--1060287	17	2.1	17	89	0	54	69	2	13	13	1.30
1060277--1060330	23	2.3	23	87	3	72	68	1	0	29	1.00
1060288--1060352	21	3.2	20	82	8	69	67	1	1	29	1.09
1060278--1060354	21	3.7	22	72	16	65	70	1	1	27	1.03
1060324--1060389	9	7.1	9	72	13	53	71	0	6	22	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060324--1060393	24	3.0	24	74	17	74	71	0	5	22	1.07
1060425--1060531	41	2.7	41	78	13	107	66	1	8	23	1.29
1061747--1061819	31	2.4	31	88	0	101	23	12	13	50	1.75
1063616--1063660	20	2.2	20	84	7	56	68	6	17	6	1.33
1064198--1064248	26	2.0	26	92	7	86	35	11	27	25	1.91
1067482--1067544	32	2.0	32	87	0	90	34	11	17	36	1.85
1068467--1068519	2	26.5	2	100	0	106	49	0	0	50	1.00
1076737--1076880	67	2.1	67	92	0	234	46	22	9	22	1.79
1087451--1087483	15	2.2	15	89	10	50	42	0	0	57	0.98
1087639--1087676	20	1.9	20	88	0	58	21	26	10	42	1.85
1093620--1093669	22	2.3	22	96	0	91	34	10	44	12	1.75
1099307--1099404	24	4.1	23	84	7	124	26	13	18	41	1.87
1099307--1099404	48	2.0	48	88	0	142	26	13	18	41	1.87
1100020--1100053	16	2.2	16	94	5	61	58	5	5	29	1.45
1101789--1101829	3	14.0	3	94	5	75	65	0	0	34	0.93
1101791--1101825	17	2.1	17	100	0	70	65	0	0	34	0.93
1101789--1101828	20	2.0	20	100	0	80	65	0	0	35	0.93
1101993--1102096	43	2.5	40	81	7	120	24	19	31	25	1.98
1102027--1102393	134	2.7	133	82	4	398	24	17	30	27	1.97
1102394--1102473	28	2.9	28	90	3	117	46	15	16	22	1.84
1102609--1102741	36	3.8	33	73	18	101	39	11	16	32	1.84
1102709--1102846	64	2.2	63	86	1	186	42	13	12	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102805--1102892	38	2.4	37	77	11	90	39	11	13	35	1.81
1102767--1102950	101	1.8	101	83	6	248	40	13	12	34	1.82
1103076--1103143	30	2.3	30	82	5	75	36	11	20	30	1.89
1103367--1103425	31	1.9	31	89	3	93	40	15	13	30	1.86
1103463--1103571	35	3.1	35	78	4	112	36	10	17	35	1.83
1103463--1103599	36	3.8	35	77	5	105	35	11	17	35	1.86
1103852--1103935	36	2.3	36	82	12	100	36	7	19	36	1.79
1103999--1104139	71	2.0	72	85	4	196	36	10	20	32	1.87
1104005--1104139	36	3.8	36	85	4	175	34	11	20	34	1.88
1104493--1104540	4	12.0	4	82	8	62	29	0	22	47	1.51
1105707--1105825	12	9.7	12	76	19	104	0	15	8	75	1.08
1105754--1105825	28	2.6	28	78	12	69	1	16	6	75	1.10
1105790--1105824	15	2.3	15	95	0	61	2	17	5	74	1.14
1107151--1107183	17	2.0	17	88	5	50	36	24	6	33	1.80
1107613--1107680	32	2.1	33	84	13	88	61	10	11	16	1.56
1110129--1110174	2	24.0	2	91	8	78	47	0	0	52	1.00
1110128--1110173	15	3.1	15	90	9	76	45	0	0	54	0.99
1110129--1110174	17	2.7	17	100	0	92	47	0	0	52	1.00
1110800--1110837	19	2.0	20	89	5	60	10	23	50	15	1.75
1116573--1116628	2	28.5	2	96	3	105	51	0	0	48	1.00
1117287--1117315	13	2.1	14	93	6	51	55	0	0	44	0.99
1117499--1117533	17	2.0	18	88	5	54	60	0	2	37	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117933--1117985	22	2.2	24	87	9	74	22	18	41	16	1.90
1118587--1118617	14	2.2	14	100	0	62	38	29	0	32	1.57
1118768--1118985	111	2.0	108	91	2	355	36	8	9	45	1.68
1124499--1124603	49	2.2	46	86	11	142	27	22	23	25	2.00
1124516--1124616	49	2.0	50	86	5	143	31	18	21	27	1.97
1124629--1124755	51	2.5	51	85	1	157	18	33	31	16	1.94
1125005--1125037	16	2.1	16	100	0	66	12	33	12	42	1.79
1143693--1143719	2	13.5	2	100	0	54	48	0	0	51	1.00
1145195--1145289	12	7.6	13	76	17	80	50	3	2	44	1.29
1145195--1145288	14	6.6	14	73	18	72	51	3	2	43	1.29
1145242--1145289	2	24.5	2	95	4	89	50	0	0	50	1.00
1145359--1145442	29	3.2	25	75	14	64	55	7	1	35	1.35
1145634--1146006	130	2.8	131	78	5	378	31	16	18	33	1.93
1151367--1151589	45	4.9	45	86	1	286	27	22	12	37	1.90
1151366--1151637	90	3.0	89	82	4	253	26	22	11	40	1.87
1151367--1151634	135	2.0	136	81	3	317	26	22	11	39	1.87
1151671--1151825	81	1.9	81	89	0	238	30	21	12	35	1.90
1151759--1152302	68	8.0	68	88	1	786	31	25	13	30	1.93
1152513--1152719	57	3.7	58	87	6	300	38	18	9	34	1.83
1152513--1152718	113	1.8	113	87	6	310	38	18	8	34	1.82
1157412--1157455	21	2.0	22	82	4	54	15	18	6	59	1.58
1157631--1157670	21	1.9	21	90	10	64	60	5	15	20	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160928--1160999	24	3.0	24	84	8	101	51	15	13	19	1.76
1160928--1161036	48	2.3	49	82	6	125	48	14	16	20	1.81
1160928--1161036	24	4.5	25	76	11	93	48	14	16	20	1.81
1163422--1163463	20	2.2	18	87	8	57	21	23	38	16	1.93
1170268--1170351	42	2.0	42	100	0	168	23	16	33	26	1.96
1171061--1171098	20	1.9	20	84	10	51	50	7	15	26	1.72
1172263--1172345	28	2.9	28	92	1	130	53	10	2	33	1.49
1172357--1172398	19	2.2	19	86	0	57	14	33	33	19	1.91
1176294--1176364	20	3.5	20	79	9	81	46	11	19	22	1.81
1176719--1176800	37	2.3	35	81	8	85	17	10	42	29	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18