genome.fa.s8504.2.7.7.80.10.50.1000.5.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: VEPZ01008504.1 Hibiscus syriacus cultivar Beakdansim tig00111356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2056749

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  5  of  10  ( 1190 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)
947391--947435	23	2.0	22	95	4	81	68	0	0	31	0.89
947394--947433	10	4.1	10	96	3	73	70	0	0	30	0.88
947458--947710	38	7.0	35	75	14	169	43	6	5	44	1.52
947451--947713	108	2.4	107	79	13	304	42	6	5	45	1.52
947447--947685	71	3.3	73	80	10	219	44	7	5	42	1.54
947583--947607	11	2.3	11	100	0	50	44	8	8	40	1.63
947620--947644	12	2.1	12	100	0	50	40	8	8	44	1.63
947778--947816	20	2.0	20	89	0	60	48	2	7	41	1.45
951492--951536	23	2.0	23	100	0	90	17	28	26	26	1.98
954709--954801	36	2.6	36	91	0	141	20	17	22	39	1.92
963035--963360	162	2.0	162	100	0	652	29	16	26	26	1.97
966109--966425	176	1.8	176	91	2	530	31	16	5	47	1.68
966801--966856	15	3.6	15	79	9	67	42	12	12	32	1.80
966804--966854	17	3.1	17	77	11	61	43	11	9	35	1.75
967253--967307	13	4.2	13	75	13	58	49	12	3	34	1.59
967293--967391	33	3.0	33	94	1	164	45	15	7	32	1.73
967386--967425	21	1.9	21	94	0	71	47	7	15	30	1.72
969709--969755	12	3.7	12	81	15	58	17	19	17	46	1.84
969708--969747	15	2.9	14	85	14	57	20	17	15	47	1.83
970318--970411	46	2.0	46	87	0	134	27	26	28	17	1.97
974105--974129	2	12.5	2	100	0	50	52	0	48	0	1.00
977344--977399	21	2.7	21	100	0	112	44	5	19	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
981610--981672	3	20.7	3	77	3	63	61	0	3	34	1.12
981846--982290	39	11.4	39	87	0	613	21	23	13	41	1.88
982354--983409	45	23.4	45	87	2	1224	31	19	21	27	1.97
989957--989991	17	2.1	17	100	0	70	22	5	11	60	1.52
998069--998111	23	1.9	21	81	13	50	37	13	16	32	1.88
999197--999249	24	2.3	24	83	6	65	7	18	15	58	1.60
999337--999384	23	2.0	24	92	4	80	22	22	22	31	1.99
1003398--1003431	14	2.5	13	86	9	50	41	11	2	44	1.56
1003777--1003809	2	16.5	2	100	0	66	51	0	0	48	1.00
1004062--1004096	18	1.9	18	88	0	52	40	5	22	31	1.78
1007388--1007438	13	3.9	13	76	0	57	43	13	13	29	1.83
1008543--1008589	23	2.0	23	100	0	94	27	25	25	21	1.99
1008763--1008796	18	1.9	17	88	5	50	61	0	0	38	0.96
1009022--1009090	27	2.7	26	78	8	79	46	0	4	49	1.21
1009495--1009594	49	2.0	49	96	0	182	33	16	28	23	1.95
1014601--1014636	15	2.4	15	95	0	63	36	0	25	38	1.56
1015651--1015768	54	2.2	54	77	6	130	29	17	17	34	1.94
1024365--1024486	40	3.0	40	95	0	217	34	26	15	23	1.95
1028267--1028306	21	1.9	21	89	0	62	37	20	17	25	1.94
1030286--1030376	25	3.6	25	83	0	119	25	14	18	41	1.88
1034379--1034408	8	3.8	8	100	0	60	60	0	0	40	0.97
1035363--1035521	32	5.0	32	92	0	264	25	17	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037994--1038065	21	3.4	21	80	0	81	31	22	23	22	1.98
1039359--1039445	27	3.2	27	78	3	95	16	13	24	45	1.83
1039395--1039458	20	3.2	20	78	8	67	17	14	18	50	1.79
1039721--1039784	32	2.0	32	96	0	119	34	4	9	51	1.55
1040069--1040199	29	4.5	29	78	6	131	25	23	14	35	1.93
1040708--1040746	19	2.1	19	100	0	78	46	0	15	38	1.46
1041436--1041486	23	2.2	23	89	0	75	50	0	35	13	1.42
1050864--1051037	60	2.9	59	79	8	165	40	4	21	33	1.72
1060863--1061193	117	2.8	118	84	3	418	29	20	14	35	1.92
1060873--1061193	118	2.7	115	84	5	403	29	20	14	35	1.92
1062237--1062329	14	6.5	14	76	14	66	12	8	1	77	1.04
1062237--1062316	5	16.4	5	75	12	69	15	8	0	76	1.02
1065811--1065847	9	4.1	9	92	0	65	64	0	13	21	1.27
1092621--1092650	13	2.3	13	100	0	60	46	13	0	40	1.43
1101808--1101837	7	4.3	7	91	0	51	30	0	0	70	0.88
1103481--1103591	57	1.9	58	81	1	134	34	21	18	26	1.96
1105174--1105238	2	32.0	2	96	3	121	49	0	1	49	1.10
1109961--1110073	47	2.4	46	78	7	129	29	17	17	35	1.93
1110307--1110401	17	5.6	17	77	2	75	57	8	13	20	1.61
1110280--1110407	34	3.8	34	77	3	125	58	8	14	18	1.61
1110280--1110405	17	7.5	17	74	0	74	58	8	14	18	1.61
1113197--1113324	44	3.2	44	65	28	120	27	1	11	59	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113202--1113410	76	2.8	77	88	3	300	29	0	12	57	1.42
1114028--1114069	17	2.4	18	92	4	68	21	7	0	71	1.09
1114093--1114158	27	2.4	25	79	16	69	22	7	0	69	1.13
1114109--1114160	19	2.8	18	77	5	59	21	5	0	73	1.04
1115586--1115799	108	2.0	109	94	0	376	33	14	14	36	1.88
1116145--1116220	21	3.6	21	73	3	64	34	23	15	26	1.95
1116108--1116220	42	2.7	41	76	12	108	31	23	17	26	1.97
1118739--1118803	30	2.2	30	85	0	85	9	29	26	35	1.87
1118848--1118940	41	2.2	41	98	1	177	26	30	30	12	1.93
1119758--1119864	48	2.3	48	93	3	164	39	5	5	49	1.50
1120661--1120746	20	4.3	20	95	0	154	40	23	19	16	1.91
1120940--1121005	22	3.0	22	93	0	114	25	39	13	21	1.90
1121341--1121410	20	3.5	20	84	1	97	12	14	22	50	1.77
1123290--1123426	20	7.5	20	72	21	95	43	21	17	17	1.88
1123293--1123386	33	2.8	34	83	3	127	44	22	19	13	1.85
1123293--1123395	34	3.1	34	80	8	106	45	21	18	14	1.85
1125189--1125228	19	2.1	19	100	0	80	30	15	15	40	1.87
1132344--1132436	44	2.1	43	84	5	116	65	2	7	24	1.30
1136823--1136883	31	1.9	32	83	9	81	47	0	3	49	1.18
1136935--1136965	15	2.1	15	93	0	53	45	0	0	54	0.99
1137339--1137433	3	33.7	3	76	19	98	66	1	0	32	0.99
1137339--1137433	13	6.7	15	75	21	98	66	1	0	32	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137343--1137423	5	15.4	5	88	3	54	67	0	0	32	0.91
1137340--1137430	16	5.4	17	78	13	75	67	1	0	31	0.98
1137480--1137598	40	3.1	38	80	4	107	44	8	6	40	1.61
1137494--1137598	40	2.8	38	83	8	133	43	8	7	40	1.64
1137561--1137622	24	2.5	24	84	7	72	41	11	6	40	1.66
1137584--1137690	37	2.9	37	92	1	178	40	9	6	43	1.63
1138384--1138437	6	9.0	6	95	0	99	18	50	0	31	1.48
1141906--1141954	21	2.3	22	82	10	66	28	24	20	26	1.99
1147277--1147332	21	2.6	22	80	11	62	67	5	0	26	1.11
1148114--1148166	26	2.0	26	92	0	88	39	28	3	28	1.74
1150572--1150610	14	2.6	15	88	8	53	28	2	2	66	1.18
1150572--1150618	16	3.1	14	82	14	58	27	2	4	65	1.22
1153945--1154031	35	2.5	34	77	18	90	55	9	8	27	1.60
1154022--1154099	34	2.3	33	80	10	88	61	12	1	24	1.39
1156391--1156438	16	2.8	18	78	12	57	62	2	0	35	1.07
1160385--1160437	23	2.3	23	90	0	79	52	13	18	15	1.74
1163138--1163167	2	15.0	2	100	0	60	50	0	0	50	1.00
1165961--1166016	2	28.0	2	100	0	112	50	0	0	50	1.00
1171719--1171748	14	2.1	14	100	0	60	43	0	13	43	1.43
1171763--1172023	118	2.2	118	86	3	375	31	16	12	39	1.86
1171934--1171978	23	1.9	24	86	4	65	31	17	13	37	1.89
1172137--1172188	16	3.2	16	88	2	77	26	25	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174111--1174191	21	3.8	21	90	3	126	30	20	27	20	1.98
1174111--1174191	43	1.9	42	94	2	144	30	20	27	20	1.98
1175969--1176011	21	2.0	21	95	0	77	27	20	13	37	1.91
1177247--1177413	74	2.3	74	90	4	266	26	19	23	29	1.98
1177730--1177764	13	2.6	14	90	9	63	37	5	8	48	1.58
1178072--1178103	15	2.1	16	88	11	50	50	21	0	28	1.49
1181483--1181548	18	3.7	18	79	6	71	22	18	27	31	1.97
1182205--1182277	21	3.5	21	68	20	62	34	16	21	27	1.95
1192516--1192569	21	2.6	21	87	0	72	29	20	16	33	1.95
1192629--1192667	20	2.0	20	94	0	69	38	12	23	25	1.90

Tables:   1   2   3   4   5   6   7   8   9   10