genome.fa.s9075.2.7.7.80.10.50.1000.6.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: VEPZ01009075.1 Hibiscus syriacus cultivar Beakdansim tig00112508_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1223780

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 743 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)
967743--967859	26	5.0	25	64	26	76	22	18	11	47	1.80
967770--967847	20	3.6	20	66	24	59	21	21	10	46	1.81
971278--971311	16	2.1	17	88	5	52	35	0	0	64	0.94
971273--971317	23	2.0	23	81	0	54	40	0	0	60	0.97
979062--979098	18	2.1	17	90	5	56	10	40	5	43	1.63
983893--983967	30	2.5	31	91	2	116	30	9	12	48	1.72
984344--984449	39	2.7	39	70	21	96	36	16	1	44	1.59
984713--984771	21	2.6	22	82	15	75	42	6	1	49	1.39
984697--984759	21	2.5	24	73	26	60	46	3	0	50	1.17
984717--984785	25	2.6	27	76	21	74	42	5	1	50	1.35
984768--984827	25	2.3	27	82	5	79	38	1	1	58	1.18
985133--985306	94	1.9	94	81	0	213	31	12	17	39	1.86
987820--987904	29	3.0	28	94	3	143	16	37	28	17	1.92
988144--988216	37	2.0	37	97	0	137	21	21	36	19	1.95
988206--988232	13	2.1	13	100	0	54	22	18	37	22	1.95
988743--988786	21	2.1	21	91	0	70	29	0	15	54	1.42
989287--989347	18	3.3	18	74	14	61	37	0	11	50	1.39
989580--989644	26	2.6	25	79	13	62	50	6	1	41	1.36
992491--993396	60	15.7	60	82	9	1025	40	0	13	46	1.45
992544--992632	21	4.4	20	66	17	58	41	0	13	44	1.43
992625--992719	49	2.2	41	73	26	104	40	0	12	47	1.42
992653--992733	24	3.3	24	68	3	81	38	0	16	45	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992713--992739	10	2.7	10	100	0	54	40	0	18	40	1.51
992775--992937	35	5.2	35	63	27	105	41	0	12	46	1.41
992821--992913	11	7.8	11	69	17	53	41	0	12	45	1.42
993291--993386	14	8.2	11	70	24	54	39	0	14	45	1.45
993338--993385	14	3.6	14	83	16	75	35	0	18	45	1.50
993338--993386	25	2.0	25	100	0	98	36	0	18	44	1.50
995231--995264	15	2.2	16	94	5	61	55	5	0	38	1.24
995317--995422	30	3.5	30	87	5	142	47	14	0	38	1.44
995321--995375	15	3.6	16	70	20	55	43	14	0	41	1.45
995560--995595	17	2.1	17	100	0	72	41	41	0	16	1.48
995785--995837	27	2.0	27	100	0	106	41	24	15	18	1.89
995860--995914	22	2.3	23	79	17	60	40	18	20	21	1.92
996105--996133	12	2.4	12	100	0	58	20	34	34	10	1.87
999110--999174	21	3.1	21	80	4	69	23	30	10	35	1.89
999775--999837	24	2.6	24	84	0	90	44	17	15	22	1.86
1006431--1006470	2	20.5	2	94	5	73	50	0	0	50	1.00
1006574--1006607	2	17.5	2	87	6	52	50	0	2	47	1.16
1006523--1006621	48	2.1	47	81	11	112	59	1	7	32	1.31
1006579--1006620	21	2.0	21	81	9	50	57	0	2	40	1.12
1008129--1008882	98	7.4	103	92	4	1093	22	18	24	34	1.96
1009629--1009675	9	5.7	9	83	16	57	0	25	0	74	0.82
1009629--1009676	18	2.8	17	87	9	71	0	25	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009634--1009678	9	5.0	9	88	0	72	0	26	0	73	0.84
1016817--1016860	23	1.9	23	86	9	63	70	4	6	18	1.27
1021645--1021697	2	26.5	2	96	0	97	50	0	0	49	1.00
1025328--1025361	17	2.0	17	94	0	59	23	5	32	38	1.79
1032222--1032612	136	2.9	136	83	5	502	32	26	16	24	1.96
1036564--1036613	2	25.0	2	100	0	100	50	0	0	50	1.00
1048976--1049027	26	2.0	26	84	0	68	48	9	9	32	1.69
1050433--1050458	13	2.0	13	100	0	52	23	0	23	53	1.46
1064857--1064894	19	2.0	19	89	0	58	57	10	18	13	1.63
1068184--1068231	18	2.7	18	80	9	62	41	0	4	54	1.20
1068721--1068828	41	2.6	42	85	2	146	24	11	13	50	1.74
1069017--1069049	16	2.0	17	88	5	50	42	0	0	57	0.98
1069026--1069140	52	2.2	50	78	15	128	46	1	0	51	1.17
1069080--1069182	29	3.5	28	78	17	95	43	0	1	53	1.18
1069185--1069229	23	2.0	23	86	0	63	53	2	2	42	1.25
1069561--1069600	20	2.0	20	85	0	53	35	17	7	40	1.78
1069574--1069644	28	2.4	30	93	4	119	33	19	4	42	1.71
1069573--1069644	15	4.9	15	76	6	85	33	19	5	41	1.75
1070979--1071047	3	23.0	3	80	11	79	37	2	0	59	1.12
1070970--1071047	21	3.9	21	80	13	92	35	2	0	61	1.10
1072487--1072538	27	1.9	28	84	7	72	40	1	0	57	1.10
1072613--1072657	22	2.0	22	86	8	63	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072478--1072716	118	2.0	124	81	6	292	40	8	8	42	1.66
1080340--1080675	115	2.9	115	93	0	557	34	14	19	30	1.93
1082636--1082801	54	3.1	54	94	0	287	36	16	24	22	1.94
1083159--1083237	22	3.6	22	89	0	113	32	16	13	36	1.88
1083645--1084503	113	7.5	112	84	5	989	37	13	19	29	1.90
1083638--1084506	343	2.5	342	85	4	1143	37	13	19	29	1.90
1083676--1084497	229	3.6	228	86	4	1061	37	13	19	29	1.90
1084747--1084815	3	23.0	3	82	5	86	39	1	0	59	1.06
1086372--1086416	22	2.0	22	86	8	63	42	0	0	57	0.98
1086233--1086475	118	2.0	125	80	8	277	41	7	8	41	1.64
1087301--1087337	16	2.2	17	90	4	58	43	0	0	56	0.99
1087287--1087337	26	2.0	26	84	7	68	43	0	0	56	0.99
1095949--1095995	24	2.0	24	95	0	85	36	8	23	31	1.85
1096252--1096292	20	2.0	20	90	0	64	34	0	0	65	0.93
1096277--1096308	15	2.3	15	89	10	50	37	3	0	59	1.13
1098629--1098682	15	3.5	15	78	9	54	37	12	14	35	1.85
1098632--1098665	17	2.0	17	94	0	59	32	11	14	41	1.82
1098854--1098903	21	2.4	21	93	0	82	30	24	24	22	1.99
1099102--1099156	13	4.2	13	75	13	58	49	12	3	34	1.59
1099142--1099240	33	3.0	33	91	1	155	46	14	7	32	1.71
1099237--1099283	21	2.2	22	88	3	69	57	4	8	29	1.48
1101556--1101596	13	2.9	14	82	10	57	21	17	12	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103355--1103400	22	2.1	22	84	8	58	26	6	0	67	1.15
1106421--1107847	134	10.7	133	82	4	1512	30	16	22	30	1.96
1121524--1121598	31	2.5	30	79	12	75	70	0	4	25	1.04
1121664--1121712	14	3.1	15	82	17	55	63	0	4	32	1.13
1121683--1121740	18	3.1	18	80	11	71	68	0	5	25	1.10
1121689--1121746	18	3.1	18	72	18	55	70	0	5	24	1.07
1124319--1124356	20	1.9	20	94	0	67	39	10	23	26	1.87
1127347--1127541	2	96.0	2	64	22	52	43	4	5	47	1.46
1127435--1127509	15	5.3	14	72	15	57	37	4	6	52	1.47
1127815--1127859	17	2.4	19	82	10	58	22	33	4	40	1.74
1128327--1128427	46	2.2	47	85	7	136	22	29	5	41	1.77
1128488--1128589	46	2.2	46	91	0	159	26	26	5	41	1.78
1128318--1128610	161	1.8	161	83	1	390	22	26	6	44	1.76
1135872--1135914	20	2.2	20	86	0	59	34	20	13	30	1.92
1138549--1138578	13	2.2	14	94	5	53	56	0	0	43	0.99
1138716--1138752	19	1.9	19	94	0	65	43	27	0	29	1.55
1139029--1139123	48	2.0	48	82	0	118	31	29	12	26	1.93
1139964--1140141	92	2.0	89	91	3	284	41	6	15	37	1.72
1141594--1141639	17	2.7	17	93	0	74	34	15	15	34	1.89
1147018--1147076	24	2.5	22	79	17	64	61	0	1	37	1.07
1147021--1147095	27	2.8	28	78	12	84	57	1	1	40	1.16
1150029--1150060	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153294--1153350	22	2.8	20	76	12	62	52	0	3	43	1.18
1153406--1153460	26	2.1	27	83	10	69	56	1	1	40	1.21
1153665--1153755	21	4.4	21	75	14	91	54	1	1	42	1.14
1153647--1153734	23	3.5	24	72	20	65	55	0	1	43	1.07
1159496--1159536	12	3.4	12	89	0	55	41	0	39	19	1.52
1159508--1159543	6	6.0	6	93	0	54	36	2	47	13	1.58
1160827--1160856	3	10.0	3	100	0	60	33	0	0	66	0.92
1162096--1162129	15	2.5	13	86	13	50	35	2	2	58	1.28
1162144--1162181	2	19.0	2	100	0	76	50	0	0	50	1.00
1162366--1162418	2	26.5	2	96	0	97	47	1	0	50	1.12

Tables:   1   2   3   4   5   6   7