genome.fa.s7985.2.7.7.80.10.50.1000.6.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: VEPZ01007985.1 Hibiscus syriacus cultivar Beakdansim tig00110430_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2235968

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1062 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)
1094592--1094674	21	4.0	21	73	6	78	25	16	24	33	1.96
1094572--1094670	42	2.4	43	77	11	100	21	18	23	37	1.94
1094811--1095272	107	4.3	108	83	6	507	38	12	10	38	1.77
1098007--1098077	34	2.1	34	91	0	115	50	5	12	30	1.63
1098021--1098081	18	3.5	18	73	8	63	52	3	11	32	1.54
1098023--1098178	78	2.0	78	93	0	267	42	7	12	37	1.71
1101959--1102116	21	7.8	20	72	7	86	38	25	17	18	1.92
1102083--1102332	20	12.5	20	83	5	247	37	24	18	19	1.94
1103015--1103061	24	2.0	24	87	8	69	25	14	21	38	1.92
1103236--1103260	12	2.1	12	100	0	50	72	0	28	0	0.86
1105402--1105530	19	7.3	19	75	17	125	8	17	28	45	1.77
1105402--1105493	33	2.8	33	93	3	150	7	18	28	45	1.76
1105578--1106046	93	5.1	93	98	0	913	45	19	13	21	1.84
1107750--1107847	14	6.3	14	70	21	61	44	22	23	9	1.81
1107745--1107859	33	3.5	33	93	0	203	46	20	22	10	1.81
1107767--1107864	19	5.7	19	70	22	90	43	22	22	11	1.84
1107876--1107932	14	3.7	14	75	20	51	10	22	22	43	1.84
1107860--1107940	33	2.5	33	93	0	135	9	20	22	46	1.80
1107916--1107993	41	1.9	41	97	0	147	12	25	16	44	1.83
1107917--1107992	21	3.7	21	83	3	109	11	25	17	46	1.82
1108072--1108142	33	2.2	33	92	0	115	47	18	22	11	1.80
1108324--1108378	22	2.5	22	81	0	74	20	16	40	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108525--1108718	20	9.6	20	80	5	203	19	19	25	35	1.95
1108527--1108698	60	2.8	60	82	0	227	19	19	26	34	1.96
1111210--1111250	21	2.0	21	85	9	57	31	21	19	26	1.97
1111587--1111635	21	2.3	22	80	16	59	44	22	0	32	1.53
1124846--1125044	60	3.3	59	83	3	211	41	6	21	31	1.78
1133196--1133224	11	2.6	11	100	0	58	55	17	10	17	1.69
1136085--1136118	5	6.6	5	96	3	59	0	2	20	76	0.92
1162095--1162202	32	3.5	31	78	8	96	40	10	12	36	1.78
1162113--1162200	29	2.9	29	80	8	88	39	11	12	36	1.79
1163331--1163405	35	2.1	35	92	0	123	33	29	28	9	1.88
1163483--1163557	24	3.2	24	88	1	116	36	21	17	25	1.95
1163487--1163563	23	3.3	23	85	3	109	36	20	18	24	1.95
1163466--1163579	47	2.4	47	79	5	124	40	19	14	25	1.90
1164712--1164747	18	2.0	18	88	0	54	30	16	0	52	1.44
1168908--1168982	35	2.1	35	92	0	123	33	29	28	9	1.88
1169060--1169134	24	3.2	24	88	1	116	36	21	17	25	1.95
1169064--1169140	23	3.3	23	85	3	109	36	20	18	24	1.95
1169043--1169156	47	2.4	47	79	5	124	40	19	14	25	1.90
1170289--1170324	18	2.0	18	88	0	54	30	16	0	52	1.44
1174578--1174614	18	2.1	18	94	0	65	27	18	5	48	1.70
1185701--1185751	2	24.5	2	84	7	66	49	0	7	43	1.32
1185707--1185731	9	2.8	9	100	0	50	48	0	16	36	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185697--1185745	24	2.1	23	92	3	80	46	0	12	40	1.41
1186635--1186677	2	22.0	2	95	4	79	51	0	0	48	1.00
1187084--1187148	27	2.4	27	100	0	130	47	4	7	40	1.53
1187662--1187703	2	21.0	2	100	0	84	50	0	0	50	1.00
1196326--1196391	21	3.1	21	82	4	71	34	10	50	4	1.58
1199337--1199381	21	2.1	21	87	0	63	31	28	24	15	1.96
1200440--1200483	15	2.8	17	70	22	51	36	6	15	40	1.74
1201072--1201138	22	3.0	22	95	2	116	19	26	28	25	1.99
1204216--1204260	21	2.1	21	87	0	63	31	28	24	15	1.96
1205321--1205364	15	2.8	17	70	22	51	36	6	15	40	1.74
1205962--1206029	22	3.0	23	89	6	95	19	23	29	27	1.98
1205955--1206021	22	3.0	22	93	2	107	19	25	28	26	1.99
1209869--1209902	16	2.1	17	94	5	61	35	26	5	32	1.81
1231983--1232030	18	2.7	18	100	0	96	16	43	20	18	1.88
1232454--1232499	22	2.1	22	100	0	92	41	15	17	26	1.88
1234203--1234259	22	2.6	22	97	2	107	17	40	22	19	1.91
1239712--1239774	21	2.9	21	85	4	81	20	36	25	17	1.94
1239756--1239795	21	1.9	21	89	0	62	25	40	25	10	1.86
1243195--1243278	12	7.0	12	77	10	91	15	19	17	47	1.83
1243195--1243278	24	3.5	24	91	0	123	15	19	17	47	1.83
1243172--1243283	48	2.3	48	78	6	120	18	16	16	47	1.83
1246985--1247150	31	5.4	31	79	0	156	30	23	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248988--1249102	43	2.6	43	81	2	131	34	11	14	39	1.82
1252223--1252256	2	17.0	2	100	0	68	50	0	50	0	1.00
1253136--1253182	22	2.1	23	88	4	69	53	0	2	44	1.12
1253144--1253187	22	2.0	22	82	8	54	54	0	2	43	1.12
1253421--1253500	42	1.9	42	84	0	106	53	11	13	21	1.70
1260894--1260936	20	2.2	20	86	0	59	34	2	0	62	1.08
1260903--1260948	20	2.2	21	77	14	51	34	0	0	65	0.93
1261161--1261357	29	6.4	29	71	19	123	49	0	7	42	1.34
1261161--1261285	60	2.1	59	82	11	148	52	0	6	40	1.33
1269282--1269316	7	5.3	7	93	6	56	22	28	31	17	1.96
1269288--1269347	17	3.4	17	86	4	66	20	25	38	16	1.93
1269341--1269430	19	4.7	19	86	6	119	26	28	25	18	1.98
1269343--1269430	9	9.1	10	77	12	85	27	29	23	19	1.98
1269349--1269430	29	2.8	30	76	12	57	26	28	25	19	1.99
1275153--1275189	2	18.5	2	100	0	74	51	48	0	0	1.00
1285119--1285242	59	2.1	60	83	4	153	40	15	9	34	1.80
1285583--1285696	59	1.9	59	89	3	176	44	14	10	29	1.79
1288608--1288647	2	20.0	2	100	0	80	50	0	0	50	1.00
1290567--1290613	22	2.1	23	88	4	69	38	25	12	23	1.90
1293791--1293836	2	23.0	2	100	0	92	50	0	0	50	1.00
1301151--1301188	3	12.7	3	94	0	67	31	2	0	65	1.06
1302117--1302289	67	2.6	67	87	4	224	28	27	27	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302591--1302662	29	2.5	29	90	0	108	38	8	12	40	1.73
1302684--1302742	30	2.0	30	93	0	100	38	5	23	32	1.77
1309042--1309211	65	2.6	64	86	5	214	28	26	27	17	1.98
1309504--1309582	29	3.0	26	82	12	106	39	10	12	37	1.77
1309604--1309662	30	2.0	30	93	0	100	38	5	23	32	1.77
1309884--1309928	23	2.0	23	86	0	63	20	24	28	26	1.99
1314406--1314455	26	1.9	25	84	15	66	46	0	0	54	1.00
1316782--1316808	14	1.9	14	100	0	54	48	44	0	7	1.31
1352250--1352289	21	1.9	21	89	0	62	10	25	40	25	1.86
1352270--1352332	20	2.9	21	79	9	65	15	25	34	23	1.95
1360486--1360539	22	2.3	23	87	6	74	22	3	1	72	1.10
1360870--1360906	15	2.6	15	83	12	51	75	0	0	24	0.80
1372733--1372761	2	14.5	2	100	0	58	51	0	48	0	1.00
1379524--1379584	30	2.0	30	90	0	95	26	29	18	26	1.98
1379766--1379892	60	2.1	58	81	7	139	37	14	10	37	1.81
1384980--1385010	13	2.4	13	100	0	62	48	16	16	19	1.81
1386852--1387091	120	2.0	119	93	0	408	41	12	4	41	1.62
1398507--1398536	15	2.0	15	100	0	60	46	6	13	33	1.69
1402538--1402603	27	2.4	27	80	5	80	19	33	21	25	1.97
1402521--1402648	60	2.1	60	82	5	152	19	32	17	29	1.95
1406081--1406108	11	2.5	11	100	0	56	28	46	10	14	1.78
1406702--1406766	18	3.5	18	79	8	76	30	30	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406701--1406777	38	2.0	38	87	5	111	31	29	15	23	1.95
1406702--1406774	18	3.9	18	76	16	69	31	31	15	21	1.94
1407354--1407475	64	1.9	64	84	0	163	27	16	20	36	1.94
1408591--1408784	96	2.0	96	96	0	361	40	11	5	42	1.64
1410277--1410309	17	1.9	17	88	11	50	66	3	3	27	1.21
1410500--1410557	28	2.1	28	90	0	89	39	18	13	27	1.89
1414138--1414412	22	12.5	22	78	6	290	44	0	8	46	1.36
1414138--1414412	44	6.3	44	87	1	392	44	0	8	46	1.36
1414138--1414412	66	4.2	66	84	3	358	44	0	8	46	1.36
1414138--1414393	109	2.3	108	84	3	289	44	0	7	46	1.35

Tables:   1   2   3   4   5   6   7   8   9