genome.fa.s7916.2.7.7.80.10.50.1000.5.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: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3725575

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1895 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)
1034723--1035065	172	2.0	171	96	2	636	30	20	22	26	1.98
1039069--1039112	2	23.5	2	82	13	58	52	2	0	45	1.13
1039277--1039373	21	4.8	20	74	9	81	36	23	17	22	1.95
1039360--1039567	20	10.5	20	81	7	210	35	25	18	20	1.95
1039379--1039567	59	3.2	58	84	3	218	34	24	19	21	1.96
1040239--1040285	24	2.0	24	87	8	69	25	14	21	38	1.92
1040458--1040482	12	2.1	12	100	0	50	72	0	28	0	0.86
1041874--1041963	14	5.7	14	72	23	72	43	23	24	8	1.82
1041866--1041980	33	3.5	33	97	0	221	46	20	23	9	1.80
1041888--1041985	19	5.7	19	71	22	90	43	22	23	10	1.83
1041997--1042053	14	3.7	14	75	20	60	8	24	22	43	1.81
1041981--1042061	33	2.5	33	95	0	144	8	22	22	46	1.78
1042038--1042113	21	3.7	21	80	3	100	13	25	15	46	1.82
1042037--1042114	41	1.9	41	94	0	138	14	25	15	44	1.84
1042196--1042264	32	2.2	32	91	0	111	46	20	21	11	1.82
1042215--1042264	16	3.0	18	69	22	54	44	22	22	12	1.85
1042573--1042762	20	9.6	20	78	10	185	18	19	25	36	1.95
1042575--1042723	39	3.8	39	81	8	171	21	19	24	34	1.96
1042749--1042830	21	4.0	21	70	9	69	25	15	24	34	1.95
1043011--1043076	14	4.9	14	71	14	59	60	1	9	28	1.36
1044133--1044187	2	29.5	2	85	14	82	52	0	0	47	1.00
1044123--1044188	21	3.1	21	78	10	73	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044178--1044255	39	2.0	39	100	0	156	38	10	17	33	1.84
1044706--1045472	205	3.7	209	90	5	1166	23	18	25	32	1.97
1044706--1045472	103	7.4	105	90	5	1168	23	18	25	32	1.97
1055539--1055570	14	2.2	15	94	5	57	75	0	0	25	0.81
1056592--1056623	17	1.9	16	93	6	55	65	6	6	21	1.38
1058070--1058119	2	27.0	2	77	22	56	52	0	2	46	1.12
1058070--1058119	11	4.3	12	82	12	61	52	0	2	46	1.12
1058110--1058187	39	2.0	39	100	0	156	38	10	17	33	1.84
1066292--1066338	23	2.0	23	100	0	94	40	12	25	21	1.89
1067052--1067105	24	2.2	24	84	12	67	27	1	0	70	0.98
1067709--1067792	30	2.8	30	94	0	141	40	14	9	35	1.78
1072852--1072907	22	2.5	22	82	0	76	32	30	23	14	1.94
1073466--1073591	47	2.8	45	83	5	155	29	22	7	40	1.82
1078265--1078475	64	3.3	62	76	15	205	33	19	17	28	1.95
1082034--1082075	17	2.5	17	80	7	50	59	0	21	19	1.38
1082395--1082606	64	3.3	62	76	15	198	33	19	17	28	1.95
1082372--1082538	66	2.5	62	82	11	174	33	19	18	28	1.96
1083258--1083321	30	2.1	30	82	5	76	20	17	26	35	1.94
1089351--1089429	22	3.9	18	91	6	77	29	32	21	16	1.95
1089371--1089447	22	3.5	22	98	0	145	28	32	25	12	1.93
1089997--1090159	64	2.5	65	82	9	174	25	22	19	33	1.97
1102080--1102119	20	2.0	21	85	5	55	52	2	0	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111083--1111929	365	2.3	362	86	2	1164	44	12	14	27	1.82
1111083--1111925	182	4.6	180	84	5	1034	44	12	14	27	1.82
1112316--1112380	19	3.4	19	86	0	94	49	0	16	33	1.47
1113784--1114008	64	3.5	64	80	6	208	31	21	20	27	1.98
1113843--1113880	19	2.0	19	94	0	67	28	18	21	31	1.97
1114316--1114351	12	3.0	12	91	0	63	33	5	25	36	1.79
1114490--1114680	31	6.2	31	96	0	346	39	11	15	34	1.83
1115973--1116028	24	2.5	22	77	13	60	41	1	7	50	1.40
1116697--1116735	18	2.2	18	95	0	69	53	0	41	5	1.23
1118206--1118255	19	2.6	19	93	0	82	30	2	10	58	1.42
1118772--1119862	199	5.5	198	90	1	1612	42	15	14	27	1.86
1118589--1119862	398	3.2	395	90	2	1872	42	15	13	27	1.86
1120220--1120261	15	2.8	15	85	0	57	19	50	2	28	1.60
1121421--1121464	3	14.7	3	85	0	61	38	2	31	27	1.69
1122650--1122707	24	2.4	24	88	2	80	39	0	10	50	1.37
1122664--1122700	18	2.1	18	89	0	56	37	0	8	54	1.30
1122904--1122943	21	2.0	20	85	9	55	45	15	15	25	1.84
1122885--1123573	200	3.4	201	90	2	1057	42	15	14	26	1.86
1123382--1123750	180	2.0	180	92	1	605	42	16	13	27	1.86
1122981--1124542	581	2.6	585	91	2	2472	42	15	13	28	1.85
1123562--1124542	200	4.9	200	94	0	1656	42	14	13	29	1.84
1123562--1124542	401	2.4	401	93	0	1667	42	14	13	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127578--1127608	15	2.1	15	100	0	62	32	6	6	54	1.51
1128918--1128965	22	2.1	24	84	7	64	52	2	6	39	1.39
1128952--1128998	2	25.5	2	79	16	57	51	0	0	48	1.00
1130365--1131348	105	9.4	105	93	0	1680	23	18	25	33	1.97
1142911--1142963	15	3.4	16	78	17	58	71	0	7	20	1.10
1142897--1142976	36	2.2	35	80	12	83	71	1	7	20	1.17
1142980--1143021	2	22.5	2	81	13	54	54	2	0	42	1.13
1142980--1143061	10	7.6	11	74	17	57	56	4	2	36	1.34
1144918--1145098	38	4.8	38	88	2	233	42	1	9	46	1.46
1147814--1147850	18	2.1	18	90	5	58	59	2	27	10	1.44
1150209--1150250	16	2.5	17	71	21	52	30	30	2	35	1.71
1150355--1150449	49	1.9	49	85	4	129	17	34	30	16	1.93
1154911--1154937	2	13.5	2	100	0	54	51	0	0	48	1.00
1166945--1166991	21	2.3	21	86	13	64	70	2	0	27	0.99
1167184--1167231	23	2.1	23	88	0	69	35	12	18	33	1.89
1167437--1167503	30	2.2	29	82	10	73	43	0	4	52	1.21
1167659--1167721	23	2.7	23	87	0	90	41	17	4	36	1.71
1168145--1168229	39	2.2	38	91	2	134	20	12	17	49	1.79
1169319--1169384	25	2.6	25	78	0	78	43	12	9	34	1.73
1171832--1172237	176	2.3	176	90	5	635	33	17	13	34	1.89
1172494--1172532	20	2.0	20	89	0	60	51	7	12	28	1.67
1173622--1173663	3	14.0	3	84	0	57	26	33	2	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173623--1173663	9	4.6	9	90	0	64	24	34	2	39	1.69
1173626--1173737	12	8.9	12	75	9	98	20	35	8	34	1.84
1173622--1173739	18	6.6	18	72	1	76	21	34	8	35	1.84
1175170--1175938	198	3.9	199	95	2	1365	31	16	15	36	1.90
1176057--1176105	19	2.6	19	90	6	73	57	8	2	32	1.40
1176524--1176608	37	2.2	40	91	8	140	35	20	14	30	1.92
1177924--1177989	33	2.0	33	90	0	105	22	48	0	28	1.51
1178022--1178085	21	3.1	20	77	4	65	17	31	14	37	1.89
1180306--1180352	20	2.4	19	80	19	69	21	17	10	51	1.75
1180274--1180741	179	2.6	180	90	1	697	26	16	14	42	1.87
1180808--1181282	222	2.1	221	92	5	789	40	7	8	44	1.61
1195115--1195230	60	1.9	60	80	5	135	31	22	4	41	1.73
1195351--1195466	59	2.0	60	82	1	144	42	2	19	35	1.65
1196158--1196214	26	2.1	27	84	12	73	49	1	0	49	1.11
1196171--1196208	18	2.1	19	90	5	60	47	2	0	50	1.15
1196287--1196367	27	3.0	27	72	16	69	46	1	2	49	1.23
1196383--1196433	23	2.3	22	82	3	66	54	1	1	41	1.22
1196442--1196489	25	1.9	25	91	0	78	60	0	0	39	0.97
1196419--1196498	42	2.0	42	82	9	103	56	1	0	42	1.07
1196634--1196665	14	2.3	14	94	0	55	43	9	12	34	1.75
1204060--1204122	31	2.1	31	85	8	85	50	4	1	42	1.32
1206269--1206312	2	22.0	2	100	0	88	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)
1221577--1221609	13	2.4	14	90	10	59	39	0	0	60	0.97
1224355--1224402	24	2.0	23	84	11	62	22	10	22	43	1.84
1225282--1225329	21	2.4	21	86	6	64	45	8	18	27	1.78
1225392--1225434	21	2.0	21	90	4	68	20	34	23	20	1.96
1227239--1227310	37	1.9	38	83	8	94	34	20	25	19	1.96
1227231--1227313	19	4.3	19	78	7	80	33	20	27	18	1.96
1227891--1227967	32	2.4	32	88	0	109	14	6	27	51	1.66
1228576--1228607	15	2.1	15	100	0	64	40	6	18	34	1.76
1229737--1229770	17	2.0	17	88	11	52	44	2	0	52	1.16
1230674--1230717	3	15.0	3	95	4	81	34	0	0	65	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16