genome.fa.s9235.2.7.7.80.10.50.1000.4.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: VEPZ01009235.1 Hibiscus syriacus cultivar Beakdansim tig00112857_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1478786

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 628 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)
890040--890149	5	21.2	5	69	23	59	0	40	0	60	0.97
890035--890133	51	1.9	52	89	2	155	0	40	0	59	0.97
891211--891286	39	1.9	39	97	0	143	39	7	15	36	1.77
892861--892906	20	2.2	21	88	11	69	15	13	8	63	1.52
892930--892976	22	2.2	21	88	7	69	61	0	2	36	1.08
895717--895784	2	34.0	2	100	0	136	0	50	0	50	1.00
897876--898011	60	2.3	57	76	9	130	39	13	11	34	1.82
901562--901595	17	1.9	18	88	5	52	47	0	0	52	1.00
910562--910640	24	3.3	24	77	7	81	16	10	13	59	1.60
910678--910725	22	2.1	23	84	7	62	45	12	2	39	1.54
910678--910734	23	2.4	24	80	11	64	47	12	1	38	1.51
910672--910734	22	2.7	23	75	12	56	47	11	1	39	1.49
910998--911050	24	2.4	21	82	17	72	20	15	9	54	1.68
914536--914603	29	2.3	29	77	5	75	27	20	5	45	1.74
915799--915877	31	2.5	31	91	0	122	36	13	15	34	1.87
918357--918406	21	2.4	21	80	6	57	64	0	12	24	1.27
919860--919889	10	2.9	10	95	5	51	10	66	0	23	1.21
920522--920586	29	2.2	30	83	10	80	55	4	10	29	1.54
946877--946921	21	2.1	21	87	0	63	31	28	24	15	1.96
947502--947536	18	1.9	18	88	11	54	54	5	17	22	1.64
947593--947636	22	2.0	22	86	4	63	45	0	22	31	1.53
948411--948714	149	2.0	149	99	0	599	27	17	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948693--948737	23	2.0	23	86	0	63	20	24	28	26	1.99
951975--952019	21	2.1	21	87	0	63	31	28	24	15	1.96
952600--952634	18	1.9	18	88	11	54	54	5	17	22	1.64
952691--952734	22	2.0	22	86	4	63	45	0	22	31	1.53
953516--953818	149	2.0	148	98	0	579	27	17	20	34	1.95
953797--953841	23	2.0	23	86	0	63	20	24	28	26	1.99
958211--958242	11	3.0	11	95	4	57	43	9	0	46	1.35
963517--963572	26	2.3	23	82	14	67	64	1	1	32	1.14
964624--964690	6	11.2	6	100	0	134	32	49	17	0	1.48
965315--965400	20	4.2	20	80	2	109	41	23	19	15	1.89
965335--965425	41	2.2	41	94	0	155	36	24	18	20	1.95
966760--966825	28	2.4	27	82	7	78	56	3	3	37	1.30
966772--966828	28	2.0	28	86	6	80	52	1	1	43	1.21
966799--966837	19	2.1	19	85	9	53	48	2	2	46	1.29
967103--967129	14	1.9	14	100	0	54	44	0	7	48	1.31
984133--984162	2	15.0	2	100	0	60	50	0	0	50	1.00
988696--988720	12	2.1	12	100	0	50	24	8	32	36	1.84
991624--991659	18	1.9	19	88	5	56	66	0	2	30	1.06
992087--992150	16	4.0	16	73	16	53	40	1	0	57	1.08
995045--995088	20	2.2	20	92	4	72	18	31	18	31	1.95
996036--996071	2	18.0	2	100	0	72	50	0	0	50	1.00
997109--997153	20	2.5	18	80	19	58	22	24	13	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997122--997159	20	1.9	20	94	0	67	21	28	13	36	1.91
1001230--1001297	19	3.7	18	73	15	68	57	5	1	35	1.32
1001811--1001846	18	2.0	18	94	0	63	77	0	2	19	0.88
1017145--1017170	3	8.7	3	100	0	52	0	0	69	30	0.89
1017465--1017495	2	15.5	2	100	0	62	51	0	48	0	1.00
1018400--1018463	27	2.5	26	82	9	71	40	6	0	53	1.26
1019822--1019859	18	2.2	17	90	4	58	47	0	2	50	1.15
1020394--1020435	12	3.4	13	87	6	61	28	0	0	71	0.86
1021815--1021857	13	3.5	12	81	12	52	25	2	2	69	1.12
1024508--1024585	27	3.3	23	74	22	63	69	1	2	26	1.09
1026113--1026165	21	2.5	21	93	0	88	28	30	22	18	1.98
1026161--1026229	21	3.3	21	73	15	79	21	18	21	37	1.94
1026171--1026237	21	3.3	19	73	15	71	25	20	20	32	1.97
1026824--1026850	6	4.5	6	100	0	54	0	14	51	33	1.43
1027010--1027238	42	5.4	42	90	3	336	34	24	20	20	1.96
1026943--1027135	107	1.8	107	96	0	359	36	23	19	20	1.95
1026946--1027177	107	2.2	106	86	7	337	36	23	19	20	1.95
1026940--1027253	21	15.0	21	75	14	240	35	22	20	21	1.96
1036612--1036636	11	2.3	11	100	0	50	32	0	12	56	1.36
1039648--1039673	12	2.2	12	100	0	52	88	11	0	0	0.52
1050295--1050370	34	2.2	34	97	0	143	63	6	11	18	1.49
1051253--1051372	57	2.1	57	98	0	231	43	20	13	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052710--1052752	22	2.0	22	86	4	61	48	2	4	44	1.36
1052750--1052792	2	21.5	2	100	0	86	51	0	0	48	1.00
1057646--1057692	22	2.1	22	84	7	60	72	0	8	19	1.10
1057730--1057831	2	51.0	2	100	0	204	50	0	0	50	1.00
1058261--1058391	28	4.6	28	67	24	78	61	3	3	31	1.29
1058337--1058379	18	2.5	17	85	7	61	67	2	4	25	1.22
1063830--1063901	24	3.1	22	76	11	65	50	15	8	26	1.72
1063842--1063901	22	2.7	21	80	14	66	51	11	10	26	1.69
1064561--1064623	2	31.5	2	100	0	126	49	0	0	50	1.00
1065731--1065766	19	1.9	19	88	5	56	55	13	0	30	1.39
1067865--1067890	3	8.7	3	100	0	52	0	30	0	69	0.89
1074507--1074565	2	29.5	2	100	0	118	50	0	0	49	1.00
1074915--1074940	6	4.3	6	100	0	52	50	0	15	34	1.45
1077920--1077957	3	12.7	3	100	0	76	65	0	0	34	0.93
1082486--1082525	2	20.0	2	100	0	80	50	0	0	50	1.00
1083562--1083619	23	2.5	23	97	0	107	53	15	17	13	1.73
1084636--1084716	31	2.7	31	77	11	96	38	11	9	40	1.74
1085680--1085719	21	1.9	21	89	0	62	55	0	7	37	1.29
1088662--1088689	2	14.0	2	100	0	56	50	0	0	50	1.00
1088782--1089028	51	4.8	51	86	3	309	22	12	16	48	1.79
1088783--1089030	102	2.4	103	86	3	349	22	12	16	48	1.79
1100565--1100610	7	6.6	7	84	0	56	52	30	0	17	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100564--1100603	21	1.9	21	94	0	71	52	30	0	17	1.45
1109595--1109642	20	2.4	20	92	0	78	35	2	2	60	1.20
1110985--1111046	3	20.7	3	96	0	115	33	35	0	30	1.58
1114787--1114862	21	3.7	21	76	3	82	42	17	23	17	1.89
1114774--1114862	41	2.2	41	95	0	160	42	15	23	17	1.88
1114774--1114862	21	4.3	20	74	4	79	42	15	23	17	1.88
1114789--1114923	41	3.3	41	80	8	116	38	20	20	20	1.94
1114851--1114965	20	5.7	20	82	6	115	31	26	18	24	1.97
1114848--1114985	41	3.4	41	79	6	154	34	24	17	23	1.96
1115153--1115196	22	2.0	22	95	0	79	20	45	15	18	1.85
1115460--1115497	20	1.9	20	88	0	58	13	15	21	50	1.78
1116792--1116836	18	2.5	18	88	0	72	26	44	15	13	1.83
1117312--1117367	20	2.8	20	83	2	69	37	23	23	16	1.93
1117351--1117432	19	4.6	19	73	17	95	45	21	20	12	1.84
1117444--1117501	14	3.9	14	79	16	71	8	17	25	48	1.75
1117439--1117517	32	2.4	33	95	2	142	10	18	24	46	1.80
1117458--1117575	20	6.4	19	77	11	95	13	20	24	41	1.88
1120116--1120169	24	2.2	24	86	0	72	25	16	18	38	1.92
1120344--1120368	12	2.1	12	100	0	50	72	0	28	0	0.86
1122660--1122776	19	6.7	19	68	18	92	43	18	21	16	1.88
1122683--1122779	33	2.9	33	80	11	126	42	18	20	18	1.90
1122772--1122834	19	3.3	19	84	4	81	15	19	20	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122781--1122834	20	2.8	19	91	5	90	12	20	20	46	1.83
1122941--1122977	14	2.6	15	87	12	60	48	21	0	29	1.50
1124333--1124399	21	3.2	21	68	4	55	19	20	35	23	1.95
1124333--1124455	42	2.9	41	79	7	113	22	18	36	21	1.95
1126457--1126515	20	3.0	19	76	9	55	44	16	23	15	1.86
1126506--1126542	14	2.6	14	95	0	65	40	24	24	10	1.87
1126482--1126575	47	2.0	48	89	2	145	38	25	24	11	1.89
1126566--1126655	19	4.7	19	95	2	162	45	22	21	11	1.82
1126519--1126632	33	3.3	33	81	8	120	42	25	21	10	1.84
1126566--1126655	39	2.3	38	96	1	162	45	22	21	11	1.82

Tables:   1   2   3   4   5   6