genome.fa.s8032.2.7.7.80.10.50.1000.5.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: VEPZ01008032.1 Hibiscus syriacus cultivar Beakdansim tig00110514_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1200719

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 598 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)
1035825--1035873	18	2.7	18	93	0	89	28	44	12	14	1.81
1036408--1036453	20	2.3	20	88	0	65	36	26	21	15	1.93
1036454--1036518	20	3.2	20	93	0	103	15	23	26	35	1.94
1036489--1036544	20	2.8	20	88	0	76	23	16	28	32	1.96
1036454--1036538	40	2.1	40	82	4	100	17	20	27	35	1.95
1036888--1036946	21	2.8	21	78	0	73	23	40	13	22	1.89
1036883--1036972	40	2.2	42	86	4	130	22	40	15	22	1.91
1036886--1037002	42	2.8	42	81	5	114	23	38	17	21	1.93
1038577--1038623	20	2.3	20	88	0	67	17	23	21	38	1.93
1038588--1038632	20	2.2	20	100	0	90	15	24	26	33	1.95
1038857--1038953	20	4.8	20	93	0	149	28	19	26	24	1.99
1038866--1038994	20	6.4	20	83	5	125	25	18	26	29	1.98
1038923--1039016	41	2.3	43	80	14	117	21	19	22	37	1.95
1038984--1039035	20	2.5	21	87	3	70	21	21	17	40	1.91
1039233--1039266	12	2.9	12	86	4	52	17	41	5	35	1.74
1039821--1039874	24	2.2	24	90	0	81	22	16	20	40	1.91
1042394--1042516	33	3.7	33	87	0	183	47	16	22	13	1.82
1042526--1042638	33	3.4	33	96	0	199	13	21	19	46	1.84
1042547--1042638	19	5.4	19	71	24	96	14	21	18	45	1.84
1042745--1042781	14	2.6	14	91	0	65	45	24	0	29	1.53
1044121--1044187	21	3.2	21	68	4	55	19	20	35	23	1.95
1044121--1044243	42	2.9	41	79	7	113	22	18	36	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044461--1044645	91	2.0	90	89	6	282	47	18	12	21	1.82
1046338--1046489	14	8.7	19	67	25	93	44	20	23	11	1.85
1046366--1046483	33	3.5	33	94	1	200	42	22	23	11	1.85
1046493--1046585	33	2.8	32	88	4	123	10	19	24	45	1.82
1046523--1046591	19	3.8	19	70	26	69	11	20	21	46	1.82
1047129--1047222	20	4.6	20	77	7	82	22	22	18	37	1.94
1047190--1047360	41	4.2	41	69	8	132	31	18	19	29	1.96
1047294--1047345	20	2.5	21	87	3	70	21	23	17	38	1.93
1048349--1048550	41	4.9	41	90	3	316	21	23	24	30	1.99
1048631--1048673	6	7.5	6	97	2	72	30	53	16	0	1.43
1049465--1049576	21	5.4	21	68	18	74	33	23	22	21	1.98
1049463--1049627	41	4.0	42	91	3	271	32	24	20	23	1.98
1049461--1049635	83	2.1	84	92	2	291	31	25	20	22	1.98
1049486--1049556	21	3.4	21	72	18	76	30	29	21	18	1.97
1050263--1050321	29	2.0	29	80	6	66	40	3	11	44	1.58
1052367--1052460	18	5.3	18	70	14	88	37	20	14	27	1.92
1052360--1052472	35	3.2	35	100	0	226	38	19	13	29	1.90
1052391--1052452	21	3.3	21	66	29	66	35	19	14	30	1.92
1052532--1052561	16	1.9	15	93	6	51	50	0	3	46	1.18
1058758--1058814	21	2.9	18	74	20	51	28	14	22	35	1.93
1064538--1064616	34	2.4	33	91	4	131	63	3	7	25	1.38
1065887--1065927	22	1.9	21	85	5	55	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065951--1066194	39	6.4	40	81	11	250	47	6	1	44	1.39
1066048--1066233	34	5.3	34	78	15	168	45	8	2	43	1.47
1066007--1066238	108	2.1	108	85	7	319	46	7	2	43	1.44
1075698--1075766	32	2.1	34	89	10	108	62	7	14	15	1.53
1079011--1079078	5	14.0	5	73	17	63	76	0	2	20	0.92
1079003--1079078	29	2.6	29	77	4	82	76	0	5	18	0.97
1080313--1080364	19	2.8	20	80	16	58	65	0	1	32	1.04
1080371--1080529	35	4.1	39	79	11	175	46	5	3	44	1.42
1080399--1080535	42	3.3	42	73	18	128	46	5	2	45	1.37
1080443--1080658	44	5.1	41	69	20	140	47	7	1	43	1.40
1080381--1080657	81	3.3	78	79	16	261	48	7	2	42	1.43
1080515--1080547	2	16.5	2	100	0	66	48	0	0	51	1.00
1080438--1080629	88	2.1	92	88	6	288	48	6	1	43	1.36
1080616--1080734	34	3.3	35	78	11	127	44	9	2	43	1.49
1087123--1087160	20	1.9	20	94	0	67	44	18	7	28	1.78
1088825--1088929	37	2.8	37	88	0	147	40	15	12	31	1.84
1089572--1089674	23	4.5	24	72	25	89	30	3	0	66	1.10
1089622--1089673	10	4.6	11	83	11	54	26	1	0	71	0.97
1089541--1089675	20	6.7	20	70	19	75	28	3	1	66	1.17
1089572--1089681	21	4.9	22	74	20	68	30	4	0	65	1.12
1094098--1094147	14	3.6	14	82	17	68	80	6	14	0	0.90
1095757--1097031	106	12.0	106	90	0	1890	34	24	18	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097716--1097820	37	2.8	37	85	0	138	40	15	13	31	1.85
1097848--1098178	165	2.0	166	99	0	655	32	18	17	32	1.94
1098634--1098684	20	2.5	20	81	12	68	35	1	1	60	1.19
1098634--1098684	18	2.7	18	85	11	59	35	1	1	60	1.19
1098661--1098729	21	3.2	21	78	11	61	27	2	2	66	1.20
1098612--1098729	21	5.6	20	72	18	55	30	3	2	63	1.24
1100740--1100811	17	4.2	17	83	5	83	37	13	8	40	1.75
1114430--1114534	39	2.7	39	89	1	149	30	12	22	34	1.91
1116655--1116679	13	1.9	13	100	0	50	40	4	8	48	1.51
1122350--1122390	20	2.0	20	100	0	82	24	4	34	36	1.77
1133615--1133647	2	16.5	2	100	0	66	48	0	0	51	1.00
1134823--1134847	6	4.2	6	100	0	50	16	0	0	84	0.63
1134899--1134949	21	2.4	21	80	6	59	21	23	0	54	1.44
1134912--1134964	9	5.6	9	77	18	54	20	22	0	56	1.42
1146185--1146327	74	1.9	73	80	8	164	32	23	19	24	1.97
1147038--1147111	35	2.1	35	82	5	87	24	4	5	66	1.30
1147189--1147238	21	2.4	21	76	6	57	16	12	4	68	1.35
1147356--1147404	24	2.0	26	84	8	66	12	20	2	65	1.35
1148980--1149019	12	3.6	12	83	12	50	45	5	0	50	1.23
1149006--1149370	22	16.6	22	91	3	574	40	0	10	48	1.38
1149436--1149471	17	2.1	17	89	0	54	19	11	8	61	1.54
1153091--1153128	13	2.9	14	88	11	55	42	13	5	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153380--1153420	17	2.4	17	95	0	73	58	7	0	34	1.26
1156077--1156127	14	3.4	14	76	23	59	52	1	21	23	1.57
1156075--1156137	31	2.0	31	100	0	126	47	3	22	26	1.66
1156508--1156905	36	11.1	36	82	2	408	39	17	11	31	1.85
1156508--1156905	178	2.2	179	81	1	465	39	17	11	31	1.85
1157400--1157431	2	16.0	2	100	0	64	50	0	0	50	1.00
1157705--1157825	19	6.4	19	74	0	98	42	19	7	30	1.79
1165914--1165956	22	2.0	22	86	4	61	39	11	23	25	1.88
1167042--1167335	39	7.7	38	86	4	378	44	4	8	42	1.54
1167042--1167335	114	2.6	114	91	3	466	44	4	8	42	1.54
1167299--1167345	24	2.0	24	91	0	76	44	2	10	42	1.51
1169863--1169897	17	2.0	18	88	5	54	5	17	5	71	1.25
1180173--1180202	15	2.0	15	100	0	60	40	20	6	33	1.78
1180733--1180951	38	5.7	38	83	6	248	44	3	10	41	1.56
1180733--1180951	39	5.7	37	84	8	271	44	3	10	41	1.56
1180926--1180972	24	2.0	24	82	0	58	48	4	8	38	1.53
1181098--1181130	3	11.7	3	87	12	52	27	0	0	72	0.85
1181358--1181407	22	2.2	23	92	3	84	42	30	18	10	1.82
1182938--1183118	94	1.9	92	81	4	211	38	11	23	27	1.88
1183541--1183640	45	2.2	45	92	0	164	45	11	22	22	1.83
1188021--1188060	20	2.0	21	85	14	57	42	5	7	45	1.54
1188284--1188324	19	2.3	18	87	8	57	26	29	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188319--1188402	38	2.2	37	83	8	98	32	20	15	32	1.94
1188226--1188368	65	2.2	65	79	7	157	32	22	17	27	1.96
1188349--1188409	18	3.4	17	72	16	59	27	19	18	34	1.95
1188332--1188406	38	1.9	39	91	2	125	32	18	16	33	1.93
1194263--1194397	42	3.2	41	66	22	98	26	26	23	22	2.00
1194263--1194463	86	2.3	86	86	0	267	28	25	22	22	1.99
1195827--1195869	18	2.4	18	84	0	59	20	9	0	69	1.15
1196008--1196112	23	4.5	23	68	17	56	24	6	0	67	1.20

Tables:   1   2   3   4   5

The End!