genome.fa.s9175.2.7.7.80.10.50.1000.6.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  6  of  51  ( 6037 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)
970570--970677	33	2.9	38	86	8	127	12	22	18	46	1.83
972113--972306	63	3.1	63	98	0	379	20	18	37	24	1.94
972931--972997	21	3.2	21	64	6	55	25	35	19	19	1.95
972875--972997	42	2.9	42	81	4	115	23	36	17	22	1.94
974777--974835	20	3.0	20	87	0	73	42	22	18	16	1.89
975974--976022	13	3.8	13	91	0	80	18	46	18	16	1.84
976000--976040	18	2.3	18	95	0	73	19	48	21	9	1.77
975973--976046	13	5.3	13	78	15	76	17	45	20	16	1.85
975987--976046	31	1.9	31	93	0	102	18	46	20	15	1.84
976038--976068	7	4.4	7	91	0	53	12	32	25	29	1.93
977363--977398	18	2.0	18	88	0	54	52	0	16	30	1.44
978552--978625	23	3.2	23	83	9	96	24	17	21	36	1.95
978558--978632	24	3.2	24	88	1	116	25	17	21	36	1.95
980820--980868	13	3.8	13	91	0	80	18	46	18	16	1.84
980846--980886	18	2.3	18	95	0	73	19	48	21	9	1.77
980819--980892	13	5.3	13	78	15	76	17	45	20	16	1.85
980833--980892	31	1.9	31	93	0	102	18	46	20	15	1.84
980884--980914	7	4.4	7	91	0	53	12	32	25	29	1.93
982209--982244	18	2.0	18	88	0	54	52	0	16	30	1.44
983398--983471	23	3.2	23	83	9	96	24	17	21	36	1.95
983404--983478	24	3.2	24	88	1	116	25	17	21	36	1.95
984468--984540	20	3.7	20	92	0	119	26	19	28	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
984448--984583	41	3.3	41	78	8	152	25	17	24	33	1.97
993499--993532	12	2.7	13	86	9	52	44	8	5	41	1.60
994784--994826	14	3.1	14	96	3	79	74	0	4	20	1.00
994833--995134	35	8.5	33	76	15	207	45	6	2	45	1.44
994833--995134	36	8.5	35	77	11	249	45	6	2	45	1.44
994965--995003	21	1.9	20	84	5	51	43	2	5	48	1.38
994833--995212	36	10.4	36	73	15	232	46	6	3	44	1.45
995120--995144	2	12.5	2	100	0	50	48	0	0	52	1.00
995199--995229	2	16.0	2	93	6	55	48	0	0	51	1.00
996004--996379	84	4.5	84	83	4	425	25	17	22	34	1.96
1000068--1000101	16	2.1	17	94	5	61	29	32	5	32	1.81
1000949--1000998	19	2.6	19	96	0	91	48	2	16	34	1.57
1001026--1001100	28	2.6	28	81	12	73	72	2	8	17	1.21
1001066--1001115	19	2.6	19	83	3	64	70	2	10	18	1.25
1001094--1001127	15	2.2	16	89	5	52	70	5	5	17	1.28
1001105--1001242	23	6.3	21	75	15	68	81	0	11	6	0.91
1001137--1001239	1	103.0	1	66	0	53	83	0	14	1	0.73
1001137--1001239	6	17.7	6	91	4	167	83	0	14	1	0.73
1002351--1002409	6	9.5	6	81	7	64	74	0	1	23	0.91
1002352--1002400	3	15.7	3	79	8	53	73	0	2	24	0.94
1002377--1002429	24	2.1	25	83	13	65	69	0	3	26	1.05
1002352--1002424	38	1.9	38	83	10	96	72	0	2	24	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002478--1002658	35	5.2	33	75	15	168	45	6	2	45	1.40
1002459--1003105	36	17.9	35	77	15	499	46	5	2	45	1.38
1002429--1003106	113	6.2	108	78	12	402	46	5	2	45	1.38
1002724--1002763	2	20.5	2	94	5	73	47	0	0	52	1.00
1002687--1002799	61	1.9	60	87	7	169	46	2	1	49	1.26
1002743--1003105	187	1.9	190	92	2	617	46	4	2	45	1.38
1002429--1003134	74	9.8	72	76	15	500	46	5	2	45	1.38
1008946--1008982	14	2.6	14	95	0	65	32	16	27	24	1.96
1015459--1015538	32	2.5	32	78	17	85	48	1	0	50	1.08
1021383--1021420	20	1.9	20	88	0	58	34	10	13	42	1.78
1045516--1045664	74	2.0	74	93	0	253	38	16	13	30	1.87
1050902--1050954	2	26.5	2	100	0	106	50	0	0	49	1.00
1051482--1051522	20	2.0	20	85	0	55	48	2	4	43	1.37
1051619--1051653	18	2.1	16	89	10	52	51	0	0	48	1.00
1051778--1051843	24	3.0	22	77	14	64	57	1	6	34	1.33
1051794--1051843	24	2.2	23	85	7	66	56	2	6	36	1.36
1055538--1055575	20	2.0	20	90	10	62	26	26	13	34	1.93
1055530--1055580	20	2.9	18	76	21	54	23	25	15	35	1.94
1060131--1060173	17	2.5	17	80	3	50	27	16	9	46	1.77
1061230--1061256	2	13.5	2	100	0	54	48	0	0	51	1.00
1066131--1066213	29	2.8	29	92	1	139	43	9	14	32	1.78
1078855--1078914	29	2.0	31	84	12	81	48	6	13	31	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080132--1080748	308	2.0	308	95	0	1108	28	9	21	40	1.84
1080217--1080844	308	2.0	305	83	5	793	31	9	20	38	1.85
1081119--1081159	21	1.9	22	90	5	66	39	17	19	24	1.92
1090119--1090143	13	1.9	13	100	0	50	40	12	24	24	1.88
1095140--1095201	19	3.2	20	76	23	69	14	32	17	35	1.90
1102049--1102084	18	1.9	19	94	5	65	16	2	0	80	0.83
1102091--1102124	16	2.1	17	88	5	52	26	0	0	73	0.83
1112791--1112821	12	2.7	12	95	5	55	80	6	6	6	1.02
1113502--1113528	14	1.9	14	100	0	54	40	22	14	22	1.90
1113832--1113951	43	2.9	41	82	4	159	31	29	15	23	1.95
1116053--1116119	12	5.4	12	72	12	55	32	1	0	65	1.02
1116072--1116122	12	4.1	12	78	9	57	29	1	0	68	1.00
1116041--1116158	10	12.3	9	70	20	55	27	4	0	67	1.09
1116173--1116217	18	2.5	17	79	10	54	40	4	0	55	1.20
1116310--1116365	15	3.6	15	79	13	51	12	8	0	78	0.96
1120758--1120812	24	2.3	24	90	0	83	25	25	5	43	1.76
1120942--1120975	13	2.9	11	84	16	50	29	35	0	35	1.58
1123253--1123292	21	1.9	21	94	0	71	20	42	25	12	1.86
1124810--1124841	6	5.3	6	96	0	55	37	12	34	15	1.85
1129105--1129144	21	1.9	21	89	0	62	25	40	25	10	1.86
1140682--1140715	13	2.9	11	84	16	50	29	35	0	35	1.58
1144347--1144376	15	2.0	15	93	0	51	10	40	0	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146949--1147025	29	2.6	29	81	6	75	29	7	16	45	1.76
1152820--1153012	106	1.8	106	90	2	316	37	18	15	29	1.91
1154687--1154746	14	4.1	14	84	16	77	71	0	11	16	1.14
1154687--1154751	30	2.2	29	78	13	71	72	0	10	16	1.12
1159828--1159912	24	3.5	24	84	9	111	23	15	18	42	1.88
1160117--1160141	13	1.9	13	100	0	50	48	0	4	48	1.20
1166590--1166630	20	2.0	20	90	0	64	26	43	12	17	1.84
1168003--1168262	137	1.9	136	82	5	330	38	7	5	48	1.55
1178347--1178668	73	4.4	73	86	3	432	27	21	20	30	1.98
1178709--1179442	113	6.6	114	85	5	971	38	14	18	27	1.90
1179047--1179111	17	3.2	20	64	23	55	43	9	21	26	1.82
1179161--1179205	24	1.9	23	82	13	56	51	11	26	11	1.71
1178709--1179442	331	2.2	335	86	4	993	38	14	18	27	1.90
1179372--1179441	19	3.6	19	66	12	52	45	10	21	22	1.81
1179378--1179698	123	2.6	123	87	5	430	39	14	19	26	1.90
1180285--1180319	15	2.4	15	85	4	54	71	2	8	17	1.23
1185083--1185142	28	2.3	27	88	11	90	5	25	10	60	1.49
1185811--1186179	130	2.8	131	84	0	497	40	16	10	32	1.83
1187067--1187262	108	1.8	106	88	2	302	43	13	15	27	1.84
1188317--1188349	3	11.3	3	87	6	50	63	0	3	33	1.10
1188663--1188744	30	2.7	30	85	7	103	37	8	12	41	1.73
1189554--1189593	10	4.0	10	84	12	55	32	27	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189763--1190047	106	2.6	108	94	3	493	37	6	11	44	1.66
1195790--1195889	48	2.1	48	83	3	121	21	29	33	17	1.95
1196247--1196310	33	2.0	32	84	9	85	43	0	4	51	1.22
1196345--1196394	18	3.0	17	74	11	50	40	2	0	58	1.10
1196390--1196464	32	2.3	34	77	13	86	48	1	1	49	1.18
1196416--1196477	23	2.7	24	80	7	67	53	0	0	46	1.00
1197437--1197477	2	20.5	2	100	0	82	51	0	0	48	1.00
1198482--1198524	18	2.3	18	84	4	50	37	20	2	39	1.66
1198495--1198534	18	2.2	18	95	0	71	27	15	7	50	1.70
1204917--1204961	21	2.1	21	87	0	63	17	26	17	37	1.93

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51