genome.fa.s8209.2.7.7.80.10.50.1000.4.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   28   29   30   

This is table  4  of  30  ( 3569 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)
984075--984120	21	2.2	20	84	7	56	41	2	10	45	1.51
994384--994471	19	4.6	19	75	9	72	47	5	15	30	1.69
996056--996095	18	2.3	18	87	12	57	65	0	7	27	1.20
996674--996711	18	2.0	19	90	10	60	71	5	2	21	1.19
1008480--1008532	22	2.4	22	90	0	88	26	35	16	20	1.94
1013624--1013772	77	1.9	78	80	9	171	46	4	5	43	1.47
1022406--1022468	20	3.1	20	86	4	81	15	15	28	39	1.89
1026110--1026150	21	2.0	21	95	0	73	14	19	26	39	1.90
1026111--1026197	23	3.9	22	80	5	77	14	14	27	42	1.86
1042873--1042910	20	1.9	20	88	0	58	39	2	15	42	1.61
1044546--1044660	19	6.1	19	85	0	140	46	6	18	29	1.73
1052408--1052451	21	2.1	21	100	0	88	40	9	18	31	1.81
1062860--1062932	9	8.6	9	77	8	55	17	0	27	54	1.43
1062861--1062931	17	4.2	17	70	15	58	18	0	28	53	1.45
1073945--1073979	16	2.2	16	90	5	54	54	2	0	42	1.15
1073939--1074045	51	2.1	51	82	6	128	56	2	0	40	1.20
1077825--1077849	10	2.5	10	100	0	50	60	20	0	20	1.37
1078574--1078657	44	1.9	44	90	0	132	41	10	15	32	1.81
1080255--1080299	23	2.0	23	86	0	63	26	28	24	20	1.99
1080278--1080581	149	2.0	149	96	0	563	34	20	17	27	1.95
1081098--1081132	18	1.9	18	88	11	54	22	17	5	54	1.64
1081712--1081756	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084411--1084713	45	6.8	45	91	2	479	32	20	6	40	1.79
1084509--1084579	21	3.2	21	64	11	52	32	16	8	42	1.79
1084426--1084713	89	3.2	89	93	1	479	32	19	7	40	1.79
1084411--1084713	134	2.3	135	91	3	479	32	20	6	40	1.79
1087089--1087148	31	2.0	30	87	9	86	36	1	25	36	1.66
1087371--1087425	23	2.4	23	84	0	74	20	27	25	27	1.99
1095835--1095884	12	4.0	13	85	12	61	28	2	0	70	0.99
1096369--1096443	40	1.9	37	84	7	96	66	5	20	8	1.37
1096368--1096449	39	2.2	37	80	8	94	64	4	20	9	1.42
1097924--1097986	22	2.8	22	82	2	81	26	25	11	36	1.90
1102251--1102303	23	2.3	23	96	0	97	33	26	18	20	1.96
1107324--1107403	23	3.6	22	74	6	72	25	22	25	27	2.00
1107394--1107442	20	2.5	20	100	0	98	22	20	24	32	1.98
1107322--1107423	44	2.3	44	81	5	118	24	21	25	28	1.99
1111819--1111975	76	2.1	76	87	10	223	25	18	15	40	1.89
1113564--1114233	133	5.0	133	82	4	714	32	19	18	29	1.96
1114831--1115309	45	10.7	44	77	5	324	41	18	16	22	1.89
1114831--1115309	90	5.3	90	77	5	441	41	18	16	22	1.89
1114831--1115271	135	3.3	134	79	5	410	42	19	16	22	1.89
1114831--1115323	180	2.7	178	86	2	612	42	18	16	22	1.89
1115062--1115357	135	2.2	132	80	5	319	40	18	16	23	1.90
1117672--1117699	2	14.0	2	100	0	56	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)
1127618--1127649	16	2.0	16	100	0	64	68	0	31	0	0.90
1133887--1133932	22	2.1	22	100	0	92	34	17	23	23	1.96
1134684--1134731	23	2.2	22	85	7	62	54	0	10	35	1.35
1140968--1141059	2	46.0	2	97	0	175	48	0	1	50	1.08
1141528--1141576	3	16.3	3	100	0	98	67	0	0	32	0.91
1141574--1141598	2	12.5	2	100	0	50	52	0	0	48	1.00
1141988--1142032	20	2.2	20	100	0	90	24	8	37	28	1.86
1141891--1142170	151	1.9	150	82	3	339	22	16	33	27	1.96
1142020--1142264	130	1.9	131	87	2	359	22	16	31	29	1.96
1142346--1142385	20	2.0	20	95	0	71	42	10	17	30	1.82
1142536--1142666	37	3.6	36	80	8	149	38	12	20	28	1.90
1143839--1143885	13	3.2	15	79	11	53	2	14	4	78	0.99
1143846--1143893	11	4.2	11	82	15	53	2	14	4	79	0.98
1143887--1143926	18	2.2	18	90	0	62	5	15	5	75	1.15
1145125--1145212	23	3.8	23	79	5	106	32	23	25	18	1.97
1146636--1146678	22	2.0	22	90	0	68	16	25	27	30	1.97
1148185--1148251	27	2.5	26	81	15	68	55	8	13	22	1.66
1151368--1151418	25	2.0	25	84	0	66	5	50	25	17	1.68
1151373--1151426	25	2.2	25	82	0	63	9	51	22	16	1.72
1155429--1155469	11	3.7	11	84	12	57	48	0	0	51	1.00
1155429--1155470	6	7.5	6	79	15	54	50	0	0	50	1.00
1155433--1155474	22	2.0	22	85	4	59	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)
1155809--1155858	21	2.4	21	96	0	91	22	22	34	22	1.97
1158314--1158364	20	2.5	20	100	0	102	27	17	25	29	1.98
1160316--1160344	13	2.2	13	100	0	58	31	31	0	37	1.58
1163485--1163518	18	1.9	18	88	5	52	14	29	32	23	1.94
1165613--1165693	31	2.5	33	74	11	78	33	13	1	51	1.49
1169775--1169830	22	2.5	22	79	2	67	51	0	0	48	1.00
1170184--1170496	156	2.0	153	92	6	524	51	6	10	32	1.60
1171502--1171555	3	18.0	3	81	7	65	59	0	1	38	1.08
1173331--1173406	32	2.4	32	84	6	93	44	6	6	42	1.56
1178808--1178842	2	17.5	2	88	11	54	48	0	2	48	1.16
1178898--1178922	2	12.5	2	100	0	50	52	0	0	48	1.00
1179964--1180012	15	3.4	15	76	21	59	22	4	2	71	1.13
1179955--1180012	28	2.0	29	93	3	100	24	5	1	68	1.19
1180289--1180350	2	31.0	2	100	0	124	50	0	0	50	1.00
1184753--1184813	19	3.1	20	90	4	97	18	22	37	21	1.94
1187376--1187413	20	1.9	20	100	0	76	15	23	36	23	1.94
1187379--1187434	22	2.7	20	86	5	67	21	23	32	23	1.98
1195577--1195640	22	3.1	21	80	10	62	26	15	26	31	1.96
1195972--1196513	112	5.0	108	90	4	827	31	18	17	31	1.94
1195972--1196523	166	3.4	166	91	1	889	31	18	17	31	1.95
1195972--1196523	54	10.1	54	89	3	827	31	18	17	31	1.95
1197901--1197956	8	7.4	8	74	21	50	44	1	0	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197900--1197961	23	2.7	24	79	16	69	45	1	0	53	1.10
1197900--1197957	15	3.8	15	74	26	59	44	1	0	53	1.10
1199919--1199984	12	5.5	12	78	5	62	39	37	10	12	1.77
1199798--1199953	75	2.0	78	86	6	221	37	38	7	17	1.77
1199943--1200025	12	6.9	12	81	0	76	30	45	10	13	1.77
1199914--1200025	36	3.1	36	84	0	125	33	42	10	13	1.79
1204500--1204528	14	2.1	14	100	0	58	44	6	6	41	1.58
1207382--1207825	218	2.0	218	98	0	852	31	10	19	38	1.86
1208868--1208922	22	2.5	22	83	11	78	23	23	27	25	2.00
1208894--1208959	21	3.1	21	70	25	57	25	21	21	31	1.98
1209908--1210018	20	5.5	19	75	11	96	36	22	16	24	1.94
1210186--1210229	22	2.0	22	90	0	70	20	43	15	20	1.88
1210492--1210550	20	3.0	20	87	0	73	16	18	22	42	1.89
1212693--1212760	19	3.8	19	81	14	92	48	17	20	13	1.80
1213014--1213105	20	4.6	20	73	2	76	20	18	21	39	1.93
1213090--1213141	20	2.5	21	87	3	70	21	23	17	38	1.93
1214142--1214178	12	3.1	12	92	0	65	72	0	24	2	0.97
1216440--1216496	19	2.9	20	76	5	62	36	22	21	19	1.95
1216467--1216564	19	5.7	19	67	22	81	41	20	23	14	1.89
1216468--1216567	33	3.0	33	85	11	159	40	20	23	17	1.92
1216560--1216601	19	2.2	19	91	0	66	16	19	23	40	1.91
1216569--1216635	19	3.8	19	75	18	81	11	22	20	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216742--1216778	14	2.6	14	91	0	65	45	24	0	29	1.53
1218476--1218660	91	2.0	90	90	6	291	46	18	12	22	1.82
1220327--1220436	33	3.0	37	80	15	129	42	20	23	12	1.87
1220327--1220463	19	7.6	19	72	18	105	43	20	23	12	1.85
1220335--1220463	52	2.4	53	88	2	188	42	21	23	12	1.87
1220468--1220512	19	2.4	19	88	0	63	11	13	26	48	1.75
1221067--1221119	20	2.7	20	85	8	72	26	16	24	32	1.97
1221129--1221181	21	2.5	20	79	8	70	33	18	26	20	1.96
1224738--1224909	73	2.4	73	90	2	256	31	11	16	39	1.85
1225117--1225173	23	2.5	23	85	0	60	31	10	10	47	1.72

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   28   29   30