genome.fa.s8364.2.7.7.80.10.50.1000.5.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  5  of  27  ( 3136 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)
948065--948391	73	4.5	72	78	10	285	47	3	5	43	1.44
948065--948443	36	10.4	37	77	11	265	46	3	5	43	1.44
948448--948481	15	2.3	15	90	5	52	23	2	0	73	0.97
956311--956359	17	2.9	17	80	16	57	83	6	10	0	0.80
956304--956376	19	3.8	19	72	18	62	79	5	15	0	0.90
956313--956365	10	5.1	10	86	13	72	86	3	9	0	0.68
956319--956366	13	3.8	14	84	13	52	85	4	10	0	0.73
956304--956376	29	2.5	29	80	14	89	79	5	15	0	0.90
956927--956969	21	2.0	22	95	4	79	37	23	11	27	1.89
956928--956975	22	2.2	22	88	7	71	43	22	10	22	1.84
957910--958041	36	3.7	36	81	7	160	26	20	13	39	1.90
958017--958173	68	2.4	68	84	5	205	31	22	8	36	1.85
958817--959539	105	7.0	105	92	2	1149	34	26	16	22	1.95
960677--960715	12	3.4	11	82	10	51	25	5	2	66	1.25
960677--960717	15	2.5	17	81	18	52	26	4	2	65	1.25
965215--965243	2	14.5	2	100	0	58	0	51	0	48	1.00
967887--967935	12	4.0	12	89	2	62	10	14	53	22	1.71
967957--968037	36	2.2	36	91	0	126	17	38	12	32	1.87
968154--968197	23	1.9	23	81	9	54	59	13	20	6	1.57
969668--969722	28	2.0	28	82	10	69	49	10	3	36	1.56
975774--975818	12	3.8	12	88	11	67	20	17	26	35	1.95
975812--975850	17	2.3	17	95	0	69	30	28	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
975775--975827	12	4.6	12	86	4	56	22	20	24	32	1.98
976121--976179	22	2.7	22	75	12	59	47	32	0	20	1.50
977300--977723	41	10.4	41	84	3	401	27	21	18	33	1.96
979851--979894	23	1.9	23	90	0	70	31	2	0	65	1.05
982216--982265	20	2.5	20	93	3	82	44	22	20	14	1.86
982636--982689	24	2.3	24	83	3	74	11	14	14	59	1.62
983831--983872	21	2.0	22	85	4	59	40	2	2	54	1.26
986052--986143	45	2.0	45	100	0	184	30	10	17	41	1.84
986330--986430	50	2.0	50	100	0	202	23	11	25	38	1.89
989660--989697	16	2.3	17	81	4	51	26	5	7	60	1.46
992094--992155	32	2.0	31	93	3	106	50	3	14	32	1.59
994744--994989	122	2.0	123	99	0	485	25	17	23	33	1.96
999941--999983	19	2.3	19	100	0	86	34	16	27	20	1.94
1003383--1003452	31	2.3	31	82	2	79	25	5	8	60	1.49
1003904--1003968	13	5.0	13	86	0	85	26	23	15	35	1.94
1003940--1004100	85	1.9	85	80	0	187	29	19	18	32	1.96
1004140--1004185	2	23.0	2	95	0	83	47	0	0	52	1.00
1009772--1010006	117	2.0	118	99	0	463	42	8	14	34	1.76
1013218--1013265	22	2.2	22	88	0	69	58	0	0	41	0.98
1017296--1017323	13	2.2	13	100	0	56	21	7	17	53	1.67
1022842--1022902	30	2.0	30	100	0	122	52	13	3	31	1.56
1029513--1029556	2	22.5	2	95	4	81	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029858--1029943	27	3.1	27	62	15	68	24	22	37	16	1.93
1029841--1029950	55	2.0	54	98	1	211	27	21	34	16	1.95
1029758--1030025	137	2.0	135	95	4	486	24	24	33	17	1.96
1030011--1030042	17	1.9	16	93	6	55	18	15	43	21	1.87
1030225--1030312	41	2.2	41	78	10	92	44	1	10	44	1.45
1031121--1031184	32	2.0	32	100	0	128	31	21	25	21	1.98
1031235--1031402	15	10.6	15	69	22	112	17	52	7	21	1.69
1031276--1031400	14	8.3	14	73	15	99	16	52	8	23	1.69
1031235--1031410	46	3.7	46	76	17	146	17	52	8	21	1.71
1031281--1031410	30	4.2	30	79	15	140	16	50	9	23	1.74
1031444--1031476	17	1.9	17	100	0	66	18	18	24	39	1.92
1031498--1031586	29	3.1	29	100	0	178	17	37	31	13	1.89
1041745--1041804	29	2.1	29	100	0	120	20	23	15	41	1.89
1043634--1043718	38	2.2	39	97	2	163	47	4	9	38	1.57
1047586--1047618	15	2.2	15	100	0	66	6	69	18	6	1.30
1053128--1053262	71	1.9	72	92	4	229	34	17	14	34	1.90
1058112--1058169	2	29.0	2	91	0	89	50	1	46	1	1.22
1074625--1074673	2	25.5	2	87	8	75	51	0	0	48	1.00
1075476--1075527	25	2.1	25	100	0	104	50	11	7	30	1.67
1083339--1083389	24	2.0	26	85	11	70	41	0	1	56	1.10
1083492--1083550	30	1.9	31	86	3	84	47	0	0	52	1.00
1087547--1087593	17	2.8	17	93	0	76	34	34	12	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091865--1091981	12	9.8	12	68	7	76	48	17	12	20	1.80
1091863--1091981	24	5.0	24	81	0	130	48	17	12	21	1.80
1091864--1091995	24	5.5	24	75	7	110	48	17	13	20	1.81
1093136--1093171	18	2.0	18	88	0	54	30	16	0	52	1.44
1094477--1094512	18	2.0	18	100	0	72	27	22	33	16	1.95
1094497--1094521	13	1.9	13	100	0	50	20	16	48	16	1.82
1096852--1096895	7	6.1	7	82	15	54	61	0	2	36	1.09
1096853--1096896	15	3.0	15	83	3	63	59	0	2	38	1.10
1097102--1097162	21	2.7	23	78	17	65	27	0	4	67	1.11
1097102--1097190	15	5.9	16	67	25	61	29	0	3	67	1.07
1098937--1099006	28	2.5	28	95	2	124	37	10	25	27	1.88
1100007--1100032	13	2.0	13	100	0	52	30	23	7	38	1.83
1120809--1120841	2	16.5	2	100	0	66	48	0	0	51	1.00
1129173--1129197	13	1.9	13	100	0	50	4	16	0	80	0.87
1129260--1129324	32	1.9	35	87	9	100	41	1	6	50	1.36
1131310--1131351	21	2.0	21	85	0	57	38	2	21	38	1.67
1139315--1139460	32	4.2	33	81	12	145	34	6	18	40	1.77
1139342--1139457	37	3.3	37	83	11	138	33	5	18	42	1.73
1143951--1144016	21	3.5	21	67	26	65	28	4	19	46	1.69
1143944--1144061	35	3.3	37	87	8	163	32	3	19	44	1.67
1149840--1149867	2	14.0	2	100	0	56	50	0	0	50	1.00
1152355--1152470	43	2.7	43	91	1	180	19	12	17	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152660--1152726	30	2.2	29	84	10	82	49	1	1	47	1.19
1152663--1152807	51	2.8	50	80	14	120	48	0	2	48	1.18
1152644--1152807	56	3.0	57	72	13	146	46	0	1	51	1.16
1152810--1152854	23	2.0	23	86	0	63	53	2	2	42	1.25
1152956--1153001	24	1.9	24	82	8	58	52	0	0	47	1.00
1153152--1153192	14	2.9	14	92	0	64	39	19	12	29	1.88
1153194--1153239	15	3.1	15	75	6	58	32	19	6	41	1.77
1153209--1153260	21	2.5	21	80	0	68	34	21	7	36	1.82
1164490--1164514	3	8.3	3	100	0	50	32	0	0	68	0.90
1166339--1166389	14	3.7	13	80	17	50	45	3	0	50	1.20
1166329--1166391	27	2.4	27	82	10	69	47	3	1	47	1.27
1166372--1166411	16	2.4	17	83	8	55	37	0	0	62	0.95
1168132--1168219	42	2.0	43	91	4	142	26	34	5	34	1.80
1169662--1169704	21	2.0	21	86	0	59	58	11	0	30	1.34
1169714--1169745	2	16.0	2	100	0	64	50	0	0	50	1.00
1170703--1170756	28	2.0	26	82	13	65	57	5	0	37	1.22
1175940--1176181	128	1.9	129	91	2	398	45	8	7	38	1.62
1182745--1182807	28	2.2	28	94	2	108	30	3	7	58	1.42
1183119--1183184	35	1.9	35	81	3	80	31	12	4	51	1.59
1188624--1188735	29	3.9	29	95	2	199	15	38	28	17	1.90
1188954--1189018	13	5.1	13	68	17	55	16	26	38	18	1.92
1188954--1189102	29	5.2	29	82	12	177	18	27	37	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190152--1190195	23	1.9	23	85	0	61	40	0	9	50	1.34
1190423--1190482	26	2.3	25	73	18	59	50	6	1	41	1.39
1190454--1190502	21	2.3	22	79	10	57	51	4	0	44	1.20
1193321--1194230	60	15.7	60	79	13	1007	40	0	12	46	1.44
1193483--1193563	24	3.3	24	67	3	72	40	0	13	45	1.44
1193543--1193569	10	2.7	10	100	0	54	40	0	18	40	1.51
1193664--1193737	13	5.4	13	69	23	53	44	0	13	41	1.44
1193719--1193881	35	5.2	35	64	27	132	40	0	14	45	1.44
1193321--1194071	169	4.4	169	81	14	929	41	0	13	45	1.44
1193602--1194230	229	2.6	235	88	8	855	40	0	13	45	1.45

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27