genome.fa.s8072.2.7.7.80.10.50.1000.4.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: VEPZ01008072.1 Hibiscus syriacus cultivar Beakdansim tig00110570_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1263316

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 528 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)
995573--995679	40	2.7	40	78	9	112	28	23	11	36	1.89
996592--996645	24	2.2	24	90	0	81	20	16	22	40	1.91
999202--999264	20	3.2	20	82	8	74	46	20	17	15	1.85
1000798--1000873	21	3.7	21	85	7	102	25	18	34	22	1.96
1001017--1001058	4	10.5	4	84	0	57	69	2	2	26	1.13
1001260--1001306	21	2.2	21	85	7	60	34	34	14	17	1.90
1002237--1002315	20	4.1	20	80	6	108	26	29	21	22	1.99
1002238--1002312	38	2.0	38	89	0	114	26	30	21	21	1.98
1002483--1003210	364	2.0	364	100	0	1456	34	18	7	38	1.81
1007887--1008137	31	8.1	31	74	12	228	32	17	18	31	1.94
1007890--1008086	32	6.3	31	75	15	176	32	17	17	32	1.93
1007887--1008113	63	3.7	63	92	1	361	33	17	17	31	1.94
1012311--1012491	32	5.8	32	79	15	216	33	18	17	30	1.94
1012291--1012508	63	3.5	63	96	0	400	33	18	17	30	1.94
1012291--1012547	31	8.2	31	76	12	240	32	19	17	30	1.95
1014881--1014973	18	4.9	18	78	10	105	26	31	20	21	1.98
1014880--1014973	38	2.5	38	87	0	143	26	30	20	22	1.98
1014880--1014976	20	5.1	20	79	8	121	26	29	20	22	1.99
1017088--1017112	13	1.9	13	100	0	50	60	0	40	0	0.97
1017405--1017503	42	2.4	42	89	0	144	21	18	31	29	1.97
1019000--1019083	20	4.2	20	84	6	107	50	19	14	16	1.79
1019607--1019649	19	2.2	20	91	4	70	39	20	23	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024649--1024730	29	2.8	29	84	0	101	18	40	29	12	1.87
1024950--1025033	29	2.9	29	83	0	96	13	29	39	17	1.88
1026297--1026356	23	2.6	23	86	0	84	23	21	15	40	1.91
1026750--1026814	27	2.3	29	76	10	73	35	1	15	47	1.55
1026964--1027015	22	2.3	23	90	6	81	28	0	17	53	1.44
1027202--1027279	30	2.6	29	84	15	97	43	2	8	44	1.49
1027223--1027303	22	3.3	22	71	23	72	44	1	12	41	1.50
1029623--1029758	59	2.3	59	75	17	147	48	7	4	39	1.51
1029885--1029979	3	32.7	3	75	6	70	38	6	1	53	1.33
1029821--1030087	26	10.6	26	78	11	225	43	8	1	46	1.41
1029846--1029978	23	5.4	23	80	12	131	42	7	0	49	1.36
1029838--1030172	26	13.7	23	72	18	134	43	8	0	47	1.39
1029924--1030160	98	2.5	97	85	10	342	44	8	1	46	1.41
1030109--1030163	12	4.7	12	86	8	78	43	1	0	54	1.10
1030342--1030376	17	2.0	18	94	5	63	37	5	0	57	1.23
1030374--1030610	49	4.8	49	96	0	438	45	11	0	42	1.40
1034005--1034045	22	1.9	21	85	5	55	2	29	2	65	1.18
1034383--1034436	28	1.9	28	100	0	108	57	14	0	27	1.38
1034378--1034443	28	2.4	28	87	10	107	56	12	0	31	1.36
1034413--1034461	21	2.3	21	85	3	71	53	16	0	30	1.43
1035014--1035069	29	1.9	29	100	0	112	17	28	39	14	1.89
1043841--1043878	12	2.8	13	88	11	51	36	7	0	55	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044016--1044041	2	13.0	2	100	0	52	50	0	0	50	1.00
1044151--1044232	23	3.6	23	89	0	128	28	26	24	20	1.99
1049119--1049163	18	2.5	18	82	17	58	35	11	0	53	1.37
1049119--1049160	12	3.5	13	81	15	54	35	9	0	54	1.33
1049129--1049175	21	2.1	22	84	7	60	36	8	0	55	1.31
1049419--1049479	23	2.7	23	92	0	86	24	26	27	21	1.99
1053590--1053629	21	2.0	20	85	5	53	37	5	7	50	1.53
1053762--1053802	21	1.9	22	90	5	66	75	0	4	19	0.98
1054431--1054493	19	3.2	19	75	4	54	55	12	0	31	1.37
1054396--1054593	64	2.8	68	80	14	199	57	11	2	28	1.45
1056331--1056387	20	2.7	21	78	8	62	80	3	1	14	0.92
1060269--1060299	15	2.1	15	100	0	62	6	25	25	41	1.79
1061959--1062006	15	2.8	17	84	12	55	68	0	6	25	1.12
1062671--1062876	68	2.8	73	85	10	264	57	12	0	29	1.41
1062721--1062876	76	2.0	79	90	7	250	60	9	1	28	1.36
1065051--1065162	56	2.0	56	100	0	224	33	10	19	35	1.87
1066270--1066482	51	4.3	49	76	10	218	49	14	10	26	1.75
1066270--1066492	102	2.2	97	82	8	254	48	13	10	27	1.75
1066826--1066862	17	2.2	18	85	9	51	43	5	2	48	1.40
1071362--1071420	31	1.9	31	89	3	93	42	8	20	28	1.81
1072068--1072389	165	2.0	157	93	6	556	17	18	32	32	1.94
1079998--1080036	20	1.9	21	84	5	53	64	5	7	23	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080444--1080502	26	2.2	26	81	3	73	30	5	1	62	1.26
1094323--1094358	18	2.0	18	100	0	72	77	11	11	0	0.99
1097994--1098048	28	2.0	28	86	6	78	43	3	5	47	1.44
1101020--1101048	10	2.9	10	100	0	58	27	10	0	62	1.28
1101194--1101232	19	2.1	19	85	0	51	33	0	10	56	1.33
1101251--1101399	63	2.3	64	81	10	171	28	0	15	55	1.45
1101538--1101860	161	2.0	161	95	0	574	29	16	17	37	1.91
1102120--1102162	17	2.5	17	78	17	52	16	4	2	76	1.05
1102642--1102691	25	2.0	25	96	0	91	30	16	26	28	1.96
1103457--1103685	127	1.8	127	83	1	307	17	18	18	44	1.86
1111880--1111929	25	2.0	25	88	0	73	28	20	22	30	1.98
1114146--1114229	37	2.3	38	85	6	111	33	4	17	44	1.70
1118423--1118517	31	3.1	31	80	3	111	34	21	17	26	1.95
1118651--1118686	17	2.0	19	89	10	58	38	11	5	44	1.63
1119174--1119297	64	1.9	65	86	4	180	25	18	19	36	1.94
1119177--1119333	64	2.5	63	82	6	174	26	20	19	34	1.96
1122576--1122614	19	2.1	19	85	4	53	56	17	15	10	1.66
1126550--1126613	21	3.4	20	66	29	59	31	4	18	45	1.70
1126542--1126663	35	3.4	36	84	6	158	35	4	16	43	1.69
1133576--1133646	29	2.4	30	88	4	99	40	4	1	53	1.29
1133729--1133831	29	3.7	28	83	12	124	55	0	1	41	1.17
1133881--1133919	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133942--1134004	30	2.2	30	83	11	78	53	1	7	36	1.40
1133929--1133996	30	2.3	29	82	7	84	61	1	5	30	1.28
1141703--1141729	2	13.5	2	100	0	54	51	0	48	0	1.00
1146423--1146467	10	4.8	10	73	15	51	62	0	2	35	1.08
1146442--1146487	21	2.1	22	88	11	69	60	2	4	32	1.28
1146492--1146552	26	2.3	26	77	0	68	16	3	9	70	1.27
1168306--1168377	30	2.4	30	90	0	108	30	31	20	16	1.95
1180658--1180708	22	2.2	23	93	6	86	43	13	7	35	1.73
1184666--1184692	4	6.8	4	100	0	54	74	0	0	25	0.83
1184815--1184840	13	2.0	13	100	0	52	53	0	7	38	1.30
1186567--1186613	25	1.9	24	86	4	67	46	0	2	51	1.13
1187659--1187703	21	2.1	21	87	4	63	57	2	4	35	1.31
1193212--1193373	2	82.0	2	65	22	58	45	3	4	46	1.38
1193339--1193369	13	2.4	13	94	0	53	54	3	0	41	1.16
1193354--1193409	29	1.9	29	82	7	69	44	3	3	48	1.37
1193295--1193490	21	9.0	21	69	22	104	45	4	2	46	1.37
1194638--1194700	24	2.6	24	100	0	126	6	19	26	47	1.73
1195257--1195283	14	1.9	14	100	0	54	55	7	7	29	1.55
1195266--1195328	18	3.3	18	72	12	54	49	4	1	44	1.33
1204957--1205050	31	3.1	30	69	13	75	47	8	5	38	1.57
1205779--1205835	29	1.9	30	85	7	80	42	1	0	56	1.10
1210837--1210884	15	3.1	15	87	3	60	62	2	0	35	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211266--1211342	3	25.0	3	87	10	95	36	0	0	63	0.95
1215043--1215104	32	2.0	32	93	3	108	14	16	9	59	1.60
1216512--1216589	26	3.2	25	67	22	76	24	23	10	42	1.85
1216527--1216601	20	3.5	20	70	20	62	26	25	10	37	1.89
1218385--1218412	14	2.0	14	100	0	56	50	28	0	21	1.49
1218957--1219074	36	3.3	36	81	8	141	33	16	12	37	1.86
1218957--1219091	71	1.9	72	81	4	166	32	19	14	34	1.91
1219177--1219258	36	2.3	36	78	4	94	36	19	12	31	1.89
1219232--1219470	105	2.3	102	83	7	288	30	20	11	37	1.88
1219416--1219535	36	3.4	36	77	11	106	30	21	12	35	1.91

Tables:   1   2   3   4   5