genome.fa.s9350.2.7.7.80.10.50.1000.5.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: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2139524

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1079 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)
1058157--1058220	21	3.0	21	81	4	74	15	25	35	23	1.94
1063956--1064009	21	2.6	21	100	0	108	18	24	38	18	1.93
1066516--1066555	20	2.0	20	85	0	53	57	2	0	40	1.12
1075521--1075545	13	1.9	13	100	0	50	16	4	0	80	0.87
1077786--1077843	28	2.1	27	84	6	73	32	5	1	60	1.29
1077786--1077846	29	2.1	28	82	8	70	31	4	1	62	1.26
1088492--1088558	23	3.0	21	79	16	73	77	0	20	1	0.85
1088500--1088560	31	2.0	31	90	3	97	77	0	19	3	0.91
1088496--1088549	7	7.3	7	85	10	63	77	0	20	1	0.86
1088932--1088966	18	1.9	18	88	0	52	34	2	2	60	1.26
1090661--1090706	23	2.0	23	91	0	74	23	15	23	36	1.93
1090670--1090716	23	2.0	23	87	0	67	27	14	19	38	1.91
1090674--1090723	23	2.2	23	81	0	55	34	16	14	36	1.88
1091210--1091238	2	14.5	2	100	0	58	48	0	0	51	1.00
1097606--1097652	24	2.0	24	86	0	67	29	14	21	34	1.93
1098928--1099082	73	2.1	74	81	9	178	23	16	13	46	1.82
1098334--1101036	657	4.2	656	79	9	2595	30	12	15	41	1.84
1100207--1100404	72	2.8	71	83	4	218	22	17	17	42	1.88
1100839--1101030	73	2.7	71	81	3	240	23	17	14	43	1.86
1102166--1102190	4	6.2	4	100	0	50	76	0	0	24	0.80
1103891--1104007	44	2.7	44	93	0	198	31	24	21	22	1.98
1103915--1103995	23	3.6	23	71	6	76	28	25	24	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103894--1104011	21	5.4	21	70	7	92	31	25	22	21	1.98
1105064--1105097	17	2.0	17	88	0	50	44	11	2	41	1.56
1105739--1105822	32	2.6	32	90	0	123	32	20	21	26	1.98
1109623--1109753	69	1.9	69	90	0	208	35	21	12	29	1.91
1111794--1111867	18	3.6	19	73	19	60	27	22	24	25	2.00
1117218--1117290	21	3.4	21	77	7	83	32	26	21	19	1.97
1117209--1117298	44	2.0	44	89	4	137	33	23	21	22	1.97
1118678--1118715	19	2.0	19	90	10	60	31	18	10	39	1.85
1124922--1124962	19	2.2	19	95	0	73	39	7	29	24	1.82
1127228--1127279	27	1.9	27	100	0	104	19	7	21	51	1.71
1128338--1128852	134	3.8	134	84	3	635	29	25	16	28	1.97
1128302--1128852	268	2.1	267	84	6	704	30	24	16	28	1.97
1129468--1129492	4	6.2	4	100	0	50	76	0	0	24	0.80
1131012--1131099	25	3.1	27	67	27	67	17	6	13	62	1.52
1130995--1131140	56	2.6	56	93	2	242	18	8	10	62	1.52
1131031--1131120	28	3.2	28	63	17	69	17	11	8	62	1.53
1130994--1131162	56	3.0	55	88	5	227	19	9	10	60	1.57
1138178--1138246	23	3.0	23	78	4	77	28	26	21	23	1.99
1138262--1138479	103	2.1	103	97	0	409	37	24	13	24	1.92
1138956--1138996	20	2.0	20	90	0	64	14	24	31	29	1.95
1139023--1139065	21	2.0	21	86	0	59	18	23	25	32	1.97
1140441--1140478	18	2.1	18	100	0	76	52	18	5	23	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144001--1144078	19	3.9	19	73	15	68	37	15	23	24	1.93
1144534--1144591	22	2.7	23	84	10	70	25	20	17	36	1.94
1149372--1149626	127	2.0	130	84	2	336	21	18	12	47	1.81
1149844--1149881	6	6.3	6	87	0	58	76	0	2	21	0.91
1149847--1149885	12	3.2	12	81	3	51	74	0	5	20	1.01
1149821--1149873	18	2.9	18	78	15	63	71	3	3	20	1.17
1149810--1149879	11	6.0	11	74	12	50	72	4	2	20	1.14
1152744--1152782	12	3.2	12	88	0	51	76	2	0	20	0.90
1154067--1154297	120	2.0	120	82	5	292	45	8	7	38	1.63
1154322--1154380	21	2.8	20	76	18	57	52	0	0	47	1.00
1155768--1155858	3	29.7	3	84	10	114	61	0	1	37	1.03
1156097--1157121	112	9.2	111	93	0	1638	28	20	14	36	1.92
1158290--1158338	16	2.8	17	78	12	55	46	6	10	36	1.63
1158691--1158766	8	9.2	8	77	12	50	9	7	0	82	0.83
1158700--1158763	22	2.7	23	85	14	85	10	6	0	82	0.82
1158688--1158768	9	8.2	10	78	19	66	11	9	0	79	0.95
1162157--1162195	9	4.4	9	93	3	62	61	0	15	23	1.33
1169849--1169890	20	2.2	19	86	4	57	64	2	0	33	1.07
1169987--1170026	19	2.0	20	85	9	55	60	2	7	30	1.38
1169977--1170040	23	3.0	22	74	23	64	59	1	4	34	1.28
1170083--1170118	3	12.0	3	93	0	63	63	0	2	33	1.08
1171497--1171575	8	9.8	9	71	23	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171497--1171567	12	5.8	13	85	8	89	53	0	0	46	1.00
1171492--1171574	15	5.6	14	76	12	76	55	0	0	44	0.99
1174116--1174304	45	4.0	45	75	17	204	27	25	10	37	1.88
1174134--1174322	98	1.9	98	92	0	315	27	24	10	37	1.89
1176521--1176571	24	2.1	24	85	0	66	41	19	19	19	1.91
1176565--1176661	46	2.1	46	90	0	149	31	21	27	18	1.97
1176565--1176661	23	4.2	23	82	0	113	31	21	27	18	1.97
1176900--1176949	19	2.9	16	75	16	55	46	20	10	24	1.81
1185164--1185279	53	2.2	53	90	6	182	25	18	17	38	1.92
1187653--1187697	19	2.2	21	88	7	67	62	0	6	31	1.21
1187635--1187685	10	5.2	10	75	20	54	68	0	1	29	1.00
1187649--1187697	22	2.3	21	83	16	57	63	0	6	30	1.19
1187637--1187699	26	2.4	26	76	5	65	66	0	4	28	1.12
1188440--1188487	25	2.0	24	83	4	60	60	14	0	25	1.34
1190213--1190325	5	22.8	5	76	8	97	71	0	3	23	1.07
1190213--1190326	21	5.5	21	72	11	92	71	0	3	23	1.06
1195810--1195868	15	3.3	19	71	24	56	71	0	5	23	1.06
1195811--1195883	27	2.8	26	76	13	62	71	0	6	21	1.09
1210786--1210817	13	2.5	13	100	0	64	31	21	15	31	1.95
1217511--1217604	44	2.1	45	88	2	136	36	19	5	39	1.74
1217530--1217617	44	2.0	44	88	0	131	34	21	6	37	1.80
1217716--1217874	59	2.7	58	79	10	137	31	21	11	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217834--1218158	59	5.5	59	73	6	214	29	24	9	36	1.87
1217805--1218169	118	3.1	118	88	2	495	29	23	10	36	1.88
1221728--1221817	30	3.0	30	78	1	90	37	7	11	43	1.69
1223022--1223142	50	2.4	50	97	0	233	48	14	1	34	1.54
1224030--1224071	21	2.0	21	100	0	84	47	19	9	23	1.78
1228911--1228945	17	2.1	17	89	10	54	0	2	8	88	0.61
1229691--1229796	50	2.3	48	84	11	132	50	12	1	34	1.51
1230296--1230591	148	2.0	147	92	2	486	34	17	16	31	1.92
1230835--1230873	17	2.3	17	86	0	51	41	7	7	43	1.62
1235326--1235587	82	3.2	81	77	6	228	32	17	14	35	1.91
1235316--1235540	41	5.5	41	80	3	159	30	16	14	38	1.88
1235771--1235820	20	2.5	20	80	0	64	14	32	14	40	1.85
1236864--1236897	17	2.0	17	88	0	50	47	5	0	47	1.26
1237698--1237746	25	1.9	25	87	4	71	81	6	4	8	0.97
1237667--1237808	38	3.9	36	71	13	96	76	5	3	14	1.11
1237779--1237928	9	15.0	10	72	17	59	76	1	4	18	1.04
1237812--1237841	13	2.2	14	94	5	53	86	0	13	0	0.57
1237868--1237914	17	2.7	17	86	3	67	80	0	2	17	0.80
1237883--1237933	10	5.3	9	82	17	59	84	1	0	13	0.71
1237587--1237933	14	22.9	14	67	22	79	75	3	6	15	1.13
1237886--1237933	21	2.2	23	88	7	73	83	2	0	14	0.74
1237762--1237925	17	8.9	17	68	17	62	76	1	4	17	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237687--1237927	101	2.4	99	77	14	235	76	2	4	16	1.07
1237934--1237958	13	1.9	13	100	0	50	64	24	8	4	1.38
1239437--1240900	171	8.5	170	81	3	1405	25	18	21	34	1.96
1239456--1240900	431	3.4	428	82	3	1672	25	17	21	34	1.96
1239437--1240889	602	2.4	601	86	2	1991	26	18	21	34	1.96
1241812--1242005	99	2.0	99	85	0	262	30	17	15	35	1.92
1244764--1244799	15	2.2	18	85	14	51	75	2	11	11	1.16
1244777--1244875	18	5.3	19	67	13	55	73	3	7	16	1.17
1244846--1244879	12	2.7	13	86	4	52	79	0	11	8	0.94
1244908--1244949	12	3.4	12	84	15	59	80	7	0	11	0.88

Tables:   1   2   3   4   5   6   7   8   9