genome.fa.s9624.2.7.7.80.10.50.1000.7.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  7  of  38  ( 4514 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)
1165799--1165843	20	2.2	20	88	7	65	51	0	0	48	1.00
1169915--1169939	2	12.5	2	100	0	50	52	0	0	48	1.00
1172176--1172210	17	2.1	17	94	5	63	40	0	5	54	1.24
1172199--1172447	69	3.6	68	80	12	287	37	15	8	38	1.77
1172195--1172441	135	1.8	136	91	4	410	38	15	7	38	1.76
1172195--1172447	66	3.7	66	83	9	291	38	15	7	38	1.76
1172351--1172726	94	4.0	94	88	4	528	39	15	8	36	1.78
1173164--1173838	334	2.0	334	95	0	1217	33	18	12	35	1.88
1173840--1173902	18	3.5	18	93	0	108	38	15	26	19	1.92
1179293--1179357	2	33.0	2	87	9	98	49	3	0	47	1.17
1179886--1180070	65	2.7	68	79	5	187	37	10	18	33	1.85
1180035--1180138	33	3.1	33	83	8	136	42	10	20	26	1.84
1180043--1180142	36	2.9	36	88	4	143	43	11	19	27	1.84
1180140--1180210	29	2.4	29	95	0	124	42	11	18	28	1.84
1180194--1180317	36	3.5	36	84	1	151	40	8	20	30	1.82
1180021--1180432	166	2.6	161	87	4	584	41	9	18	30	1.82
1180337--1180432	36	2.6	36	90	1	138	42	10	16	30	1.82
1181626--1181880	95	2.6	97	87	4	347	30	19	19	31	1.96
1188923--1188964	21	2.0	21	95	0	75	26	28	21	23	1.99
1189077--1189162	34	2.5	34	90	5	129	20	26	32	19	1.97
1192486--1192527	21	2.0	21	95	0	75	26	28	21	23	1.99
1192656--1192715	20	3.0	19	83	9	75	16	26	35	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199795--1199825	16	1.9	16	93	0	53	35	0	12	51	1.40
1208594--1208633	21	1.9	21	84	0	53	50	0	0	50	1.00
1210056--1210099	3	14.3	3	80	4	52	34	0	0	65	0.93
1210820--1210893	20	3.7	20	80	3	94	40	18	22	17	1.91
1210837--1210912	21	3.7	21	78	3	91	40	19	25	14	1.89
1210820--1210912	41	2.3	41	98	0	177	39	19	24	16	1.91
1210903--1210995	20	4.6	20	79	2	87	34	24	18	22	1.96
1210898--1210975	41	1.9	41	83	0	102	39	23	16	20	1.92
1211183--1211226	22	2.0	22	90	0	70	20	43	15	20	1.88
1211490--1211527	20	1.9	20	88	0	58	13	15	21	50	1.78
1212844--1212888	18	2.5	18	88	0	72	26	44	15	13	1.83
1213363--1213429	20	3.4	20	81	2	73	38	23	22	14	1.92
1213477--1213534	14	3.9	14	79	16	71	10	17	24	48	1.78
1213472--1213550	32	2.4	33	95	2	142	11	18	22	46	1.81
1213535--1213589	20	2.8	19	81	5	65	16	21	23	38	1.93
1215454--1215489	14	2.6	14	90	0	54	30	0	22	47	1.52
1215606--1215673	19	3.8	19	85	14	101	47	17	22	13	1.82
1215692--1215749	20	2.9	20	94	0	98	17	22	22	37	1.93
1216811--1216864	24	2.2	24	90	0	81	24	16	20	38	1.92
1219356--1219479	33	3.8	33	82	4	169	42	18	23	15	1.88
1219356--1219486	66	2.0	66	92	0	217	41	18	22	16	1.89
1219420--1219483	19	3.6	19	70	20	66	42	20	25	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219479--1219521	20	2.2	20	87	4	61	16	18	23	41	1.89
1219507--1219540	14	2.4	14	85	0	50	8	23	20	47	1.78
1219662--1219698	14	2.6	14	91	0	65	45	24	0	29	1.53
1221056--1221122	21	3.2	21	68	4	55	19	20	35	23	1.95
1221095--1221177	41	2.0	41	85	0	112	22	16	38	21	1.93
1223179--1223349	19	9.1	19	80	10	190	43	21	22	12	1.85
1223179--1223349	39	4.6	38	82	10	190	43	21	22	12	1.85
1223345--1223411	19	3.5	19	82	8	73	10	14	25	49	1.76
1223928--1223980	20	2.7	20	87	0	79	28	20	26	24	1.99
1223989--1224042	20	2.7	20	97	0	99	25	18	24	31	1.97
1223929--1224045	61	1.9	61	83	0	153	24	17	23	33	1.97
1223929--1224063	61	2.2	61	80	2	146	23	20	23	32	1.98
1224113--1224153	21	2.0	21	85	0	55	34	31	17	17	1.93
1224385--1224426	15	2.9	14	82	6	57	14	7	0	78	0.95
1224487--1224531	18	2.5	18	82	10	56	22	11	0	66	1.22
1225629--1225697	17	3.9	17	67	20	52	31	14	28	24	1.95
1225590--1225697	53	2.0	53	87	7	157	35	13	27	23	1.93
1227423--1227550	66	1.9	66	93	0	220	33	26	17	21	1.96
1227429--1227537	32	3.3	32	71	9	103	33	29	15	22	1.95
1236484--1236524	18	2.3	18	87	4	57	21	4	0	73	1.02
1236472--1236520	23	2.1	23	82	14	57	20	6	0	73	1.04
1236553--1236579	9	3.0	9	100	0	54	22	11	0	66	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236663--1236713	21	2.4	21	75	12	50	19	1	5	72	1.15
1239776--1240021	36	6.8	36	77	12	179	42	8	6	41	1.62
1245361--1245471	55	2.0	55	96	0	204	26	26	11	36	1.90
1248323--1248368	24	1.9	24	86	0	65	28	19	19	32	1.96
1253564--1253589	6	4.3	6	100	0	52	84	0	0	15	0.62
1253618--1253650	17	1.9	17	93	0	57	45	6	3	45	1.43
1253598--1253749	42	3.7	40	71	17	116	47	7	3	41	1.50
1253783--1253918	37	3.8	37	73	13	111	46	9	5	38	1.59
1255079--1255122	22	2.0	22	87	12	65	63	4	6	25	1.38
1255088--1255132	21	2.1	22	83	4	56	68	4	4	22	1.25
1256426--1256455	12	2.5	12	94	0	51	3	33	23	40	1.71
1259635--1259660	12	2.2	12	100	0	52	42	26	15	15	1.87
1263534--1263623	21	4.4	21	76	5	103	20	21	25	33	1.97
1263579--1263648	19	3.5	19	70	12	59	20	18	21	40	1.92
1263558--1263655	40	2.4	42	89	3	146	22	19	22	35	1.96
1263745--1263781	6	6.2	6	96	0	65	35	48	13	2	1.57
1264516--1264789	42	6.5	42	90	3	399	35	22	19	21	1.96
1264513--1264780	21	12.8	21	73	14	223	35	23	19	21	1.96
1264797--1264844	21	2.3	21	96	0	87	16	18	33	31	1.94
1267444--1267506	22	2.9	22	88	6	85	26	23	20	28	1.99
1268587--1268645	23	2.6	23	80	0	64	27	25	28	18	1.98
1270187--1270247	24	2.5	24	100	0	122	24	21	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271587--1271623	20	1.9	19	89	10	58	29	29	13	27	1.94
1277825--1277868	22	2.0	22	90	0	70	29	20	20	29	1.98
1279745--1279977	45	5.2	45	83	4	265	30	21	9	38	1.86
1279915--1280066	79	1.9	79	90	2	243	28	25	10	35	1.89
1280466--1280543	19	3.8	21	77	14	74	25	25	15	33	1.95
1280565--1280638	20	3.7	20	82	12	80	27	28	14	29	1.95
1280584--1280638	22	2.6	22	88	8	80	27	27	16	29	1.97
1280513--1280694	95	1.9	95	85	2	249	27	25	14	32	1.94
1288491--1288661	90	1.9	90	91	0	279	30	19	8	40	1.82
1288485--1288664	45	4.0	45	84	0	236	31	19	8	40	1.81
1288502--1288701	90	2.2	90	83	1	249	32	21	9	37	1.86
1288639--1288791	79	1.9	79	90	0	243	30	26	9	33	1.87
1289434--1289468	15	2.3	15	90	0	52	22	17	25	34	1.96
1292993--1293038	22	2.1	22	95	0	83	39	15	19	26	1.91
1293442--1293942	138	3.6	138	87	2	686	44	11	21	22	1.84
1293455--1293856	20	17.7	20	65	23	122	44	10	22	22	1.83
1293442--1293942	46	10.9	45	85	3	615	44	11	21	22	1.84
1299554--1299871	26	13.4	25	69	19	166	43	11	22	23	1.85
1299519--1299975	46	9.8	46	85	6	532	43	11	22	23	1.85
1299554--1299918	72	5.2	72	79	13	407	43	10	22	23	1.84
1299722--1299939	20	9.7	20	67	21	103	41	11	25	22	1.86
1299519--1299873	118	3.0	118	80	11	454	43	11	22	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306454--1306841	46	8.4	46	87	0	542	43	12	22	21	1.86
1315120--1315168	20	2.5	20	100	0	98	26	24	24	24	2.00
1317645--1317727	42	2.0	41	97	2	157	42	19	14	24	1.88
1317717--1317926	65	3.2	65	77	11	182	32	24	18	24	1.97
1317803--1317926	64	1.9	65	85	4	171	30	22	20	26	1.98
1321805--1321915	30	3.7	30	80	4	125	29	14	28	27	1.95
1323475--1323534	22	2.7	22	78	0	75	63	15	5	16	1.47
1323547--1323593	24	2.0	23	87	4	67	40	17	17	25	1.90
1323530--1323661	69	1.9	69	83	6	169	43	18	10	26	1.83
1329169--1329212	22	2.0	22	91	8	63	63	2	0	34	1.07

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