genome.fa.s9174.2.7.7.80.10.50.1000.5.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: VEPZ01009174.1 Hibiscus syriacus cultivar Beakdansim tig00112737_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1358226

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 802 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)
879550--879596	20	2.4	19	82	6	58	19	27	19	34	1.96
879538--879604	19	3.5	19	79	4	80	16	23	22	37	1.94
881473--881508	14	2.6	14	90	0	54	30	0	22	47	1.52
881596--881711	33	3.4	33	81	11	142	44	19	21	13	1.85
881625--881711	19	4.8	19	86	10	130	48	17	20	13	1.81
881730--881780	20	2.5	20	96	0	93	13	23	21	41	1.89
881730--881787	20	2.9	20	92	0	80	17	20	22	39	1.92
885373--885464	19	5.4	19	66	24	78	43	19	20	16	1.88
885373--885485	33	3.4	32	86	4	163	43	20	21	15	1.88
885924--886050	33	3.8	33	83	4	175	42	20	22	14	1.88
884933--886036	551	2.0	551	98	0	2154	34	18	19	27	1.95
885925--886057	66	2.0	66	92	0	221	41	20	21	16	1.90
885904--886054	19	8.7	19	65	21	71	41	21	21	15	1.89
886050--886092	20	2.2	20	83	4	52	18	18	20	41	1.90
886233--886269	14	2.6	14	91	0	65	45	24	0	29	1.53
889794--889830	14	2.6	14	86	0	56	40	21	24	13	1.89
889770--889861	47	1.9	48	88	2	141	39	23	23	13	1.90
889854--889924	19	3.7	19	90	3	115	46	22	19	11	1.81
889745--889924	20	9.1	19	71	19	118	43	21	22	12	1.86
889920--889964	19	2.4	19	88	0	72	6	15	24	53	1.66
890558--890611	20	2.7	20	94	0	90	27	18	22	31	1.97
890682--890722	21	2.0	21	85	0	55	34	31	17	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
891206--891278	32	2.3	32	88	6	112	17	6	36	38	1.77
891986--892013	2	14.0	2	100	0	56	50	0	0	50	1.00
892707--892780	37	2.0	38	89	2	114	33	17	8	40	1.79
892716--892789	37	2.0	37	86	7	105	35	16	8	40	1.78
894395--895444	530	2.0	518	96	2	1920	38	18	13	29	1.89
906030--906088	29	2.0	29	100	0	118	23	13	13	49	1.78
910721--910779	29	2.0	29	100	0	118	23	13	13	49	1.78
916864--916966	14	7.1	13	73	21	71	40	1	1	55	1.22
916864--916974	31	3.9	27	75	16	91	38	1	1	57	1.20
919771--919808	20	1.9	20	94	0	67	31	21	13	34	1.91
929000--929029	14	2.1	14	100	0	60	33	16	13	36	1.88
939547--939617	6	11.5	6	80	5	70	53	18	18	9	1.71
939537--939617	19	4.3	18	79	6	72	51	18	19	9	1.73
939537--939613	25	2.8	28	88	11	106	50	18	20	10	1.75
939553--939617	25	2.6	25	97	0	121	53	18	18	9	1.70
939635--939671	13	2.7	14	84	15	51	40	2	21	35	1.68
942463--942521	29	2.0	29	96	0	109	50	13	11	23	1.74
947116--947171	29	1.9	29	96	0	103	48	14	14	23	1.80
948337--948389	10	5.5	10	80	8	65	20	1	0	77	0.87
948336--948389	19	2.8	19	81	10	74	22	1	0	75	0.89
948330--948389	29	2.0	30	87	3	86	25	1	0	73	0.93
948336--948389	9	5.8	9	77	16	56	22	1	0	75	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
952559--952631	31	2.4	31	85	0	101	5	34	13	46	1.67
953262--953295	16	2.1	17	88	5	52	41	17	2	38	1.65
960014--960334	103	3.1	103	98	0	624	26	13	23	36	1.91
960350--960418	23	3.0	23	86	0	93	21	20	26	31	1.98
966068--966388	103	3.1	103	99	0	633	26	13	23	36	1.92
966404--966472	23	3.0	23	86	0	93	21	20	26	31	1.98
967526--967797	83	3.3	82	78	8	282	36	19	15	29	1.92
970295--970325	2	15.5	2	100	0	62	48	0	0	51	1.00
970321--970410	7	13.1	7	71	4	76	35	0	0	64	0.94
970319--970417	9	11.7	9	70	12	57	35	0	0	64	0.94
970305--970428	41	3.2	41	85	13	174	38	0	0	61	0.96
970311--970403	34	2.7	34	98	1	177	37	0	0	62	0.96
970356--970437	41	2.0	41	97	0	155	37	0	0	62	0.96
970430--970467	20	1.9	20	89	10	60	18	10	31	39	1.85
970895--970963	35	2.0	35	94	0	120	62	8	0	28	1.25
974718--974786	36	1.9	36	85	5	95	40	5	8	44	1.59
974771--975123	37	9.8	37	72	17	262	44	3	7	44	1.51
974899--975022	63	2.0	62	81	7	144	43	4	8	43	1.54
974989--975071	32	2.5	32	78	7	85	45	3	7	43	1.49
974993--975124	38	3.7	37	75	16	125	45	2	6	45	1.42
976699--976733	6	5.7	6	96	3	61	31	0	0	68	0.90
981834--982491	169	3.9	169	85	2	820	35	20	17	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
981834--982472	254	2.5	253	86	2	861	35	21	18	24	1.95
981834--982472	85	7.5	85	87	1	834	35	21	18	24	1.95
983104--983438	35	9.2	34	75	21	135	44	4	7	43	1.53
983185--983241	11	4.8	11	72	16	51	45	5	10	38	1.61
983134--983472	36	9.2	38	82	12	372	44	3	7	44	1.49
983321--983477	35	4.5	31	82	16	134	43	2	5	47	1.40
983496--983527	5	6.6	5	92	7	57	18	0	0	81	0.70
983486--983527	19	2.2	19	87	8	59	21	0	2	76	0.90
983482--983526	14	3.3	14	90	3	65	22	0	2	75	0.91
984839--984872	16	2.1	16	88	0	50	29	0	0	70	0.87
986399--986436	12	3.2	12	86	13	53	28	7	0	63	1.23
989795--989855	26	2.4	26	77	2	61	31	6	13	49	1.67
998123--998293	57	3.0	57	86	0	236	37	31	16	14	1.89
1003205--1003243	20	1.9	20	84	5	51	43	7	2	46	1.46
1003308--1003535	57	4.0	57	88	0	314	37	29	17	15	1.91
1010538--1010633	34	2.8	34	79	14	101	48	6	5	39	1.51
1015172--1015210	18	2.2	18	95	0	69	56	0	2	41	1.13
1018258--1018336	31	2.5	30	74	13	79	48	1	1	49	1.17
1018325--1018393	34	2.0	35	97	2	131	57	0	0	42	0.98
1018333--1018406	34	2.2	34	90	4	114	58	1	0	40	1.07
1021449--1021520	22	3.4	22	73	11	78	16	19	26	37	1.93
1021470--1021535	19	3.3	19	72	12	69	18	19	21	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021429--1021535	41	2.6	41	92	4	171	15	20	23	40	1.91
1021611--1021647	6	6.5	6	96	3	60	29	54	16	0	1.43
1021977--1022055	40	2.0	39	87	4	115	32	18	20	27	1.96
1022157--1022194	6	6.5	6	96	3	69	0	15	52	31	1.43
1022279--1022344	19	3.3	19	72	12	69	40	21	19	18	1.91
1022294--1022365	22	3.4	22	73	11	87	37	25	19	18	1.94
1022272--1022385	41	2.8	41	93	4	185	40	22	19	17	1.91
1022357--1022425	20	3.4	20	76	4	84	39	24	20	15	1.92
1022354--1022454	41	2.5	41	96	0	184	37	24	17	19	1.94
1022354--1022458	21	5.1	21	69	4	88	38	25	17	19	1.93
1038367--1038754	54	7.4	54	84	9	446	26	18	19	36	1.94
1038370--1038754	103	3.7	104	81	10	426	26	17	19	36	1.94
1040110--1040163	28	2.0	28	85	3	74	35	0	11	53	1.36
1040550--1040601	21	2.4	22	71	12	54	42	0	3	53	1.19
1041638--1041678	15	2.7	15	92	0	73	39	19	41	0	1.52
1041638--1041691	15	3.6	15	87	0	63	38	16	42	1	1.59
1042105--1042129	6	4.2	6	100	0	50	16	0	52	32	1.44
1052315--1052496	89	2.0	89	98	0	355	31	10	27	30	1.91
1058146--1058219	36	2.1	36	100	0	148	36	13	8	41	1.74
1058211--1058279	25	2.7	25	73	13	68	46	2	8	42	1.49
1058298--1058351	28	1.9	28	84	0	72	42	5	9	42	1.60
1058670--1058712	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058882--1058958	27	2.9	27	94	0	136	31	31	0	37	1.58
1059824--1059857	17	2.0	17	94	0	59	35	23	20	20	1.96
1061733--1061785	20	2.6	21	77	19	67	20	5	11	62	1.49
1062276--1062329	18	3.3	16	81	18	67	35	0	1	62	1.06
1062773--1062811	19	2.1	19	95	0	69	20	35	17	25	1.95
1062759--1062919	65	2.5	65	86	3	218	30	25	16	27	1.97
1062759--1062939	64	2.8	64	83	2	220	29	25	17	27	1.98
1069150--1069193	21	2.1	21	86	0	61	9	36	15	38	1.80
1069533--1069570	8	4.8	8	90	0	58	13	2	34	50	1.55
1070243--1070281	19	2.1	19	95	0	69	20	35	17	25	1.95

Tables:   1   2   3   4   5   6   7