genome.fa.s8185.2.7.7.80.10.50.1000.7.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  7  of  16  ( 1911 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)
1187033--1187075	23	1.9	23	90	9	63	34	2	0	62	1.08
1187867--1187929	31	2.0	31	96	0	117	42	11	9	36	1.73
1189693--1189764	32	2.2	32	80	4	74	22	27	29	20	1.99
1192003--1192071	19	3.6	19	86	0	102	31	14	33	20	1.92
1205410--1205745	169	2.0	170	99	0	665	35	13	25	25	1.93
1216370--1216408	16	2.4	16	86	0	51	20	25	17	35	1.95
1217201--1217253	23	2.3	23	86	0	70	39	22	11	26	1.88
1219967--1220032	25	2.6	25	82	2	69	51	1	1	45	1.19
1220046--1220119	30	2.5	29	85	10	89	52	2	2	41	1.29
1220046--1220093	16	3.1	17	71	20	50	58	2	2	37	1.22
1220046--1220155	14	7.5	14	67	18	55	50	3	2	42	1.34
1220088--1220155	21	3.2	21	73	21	61	47	4	2	45	1.38
1220137--1220288	80	1.9	80	86	10	222	51	3	5	39	1.41
1220248--1220285	20	1.9	20	94	0	67	52	5	5	36	1.47
1220314--1220524	18	12.1	17	67	23	102	41	5	5	46	1.51
1220314--1220551	33	7.4	31	73	17	150	42	5	5	46	1.52
1220421--1220524	11	9.5	11	70	22	62	43	3	4	48	1.42
1220421--1220551	68	2.0	63	91	7	208	43	4	5	46	1.47
1220421--1220524	2	50.0	2	71	21	72	43	3	4	48	1.42
1220754--1220846	17	4.9	18	73	21	66	40	8	9	40	1.69
1220889--1220951	31	2.0	31	82	14	76	52	3	6	38	1.43
1220910--1220964	24	2.4	22	82	11	58	56	1	5	36	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221008--1221063	19	3.0	18	84	10	60	55	5	0	39	1.23
1221013--1221097	18	4.8	16	74	20	62	52	2	0	44	1.13
1221172--1221252	27	3.0	28	82	7	96	41	3	6	48	1.46
1221172--1221229	26	2.2	27	87	6	84	39	3	6	50	1.46
1221201--1221282	34	2.5	33	88	6	112	42	6	3	47	1.45
1221224--1221282	18	3.4	18	68	27	56	44	6	3	45	1.47
1221322--1221912	206	2.8	210	87	7	807	29	12	8	49	1.70
1222323--1222371	26	1.9	26	87	4	73	18	30	16	34	1.93
1222804--1222828	2	12.5	2	100	0	50	52	0	0	48	1.00
1222922--1222946	2	12.5	2	100	0	50	52	0	48	0	1.00
1223657--1223697	17	2.3	18	87	4	57	46	2	19	31	1.63
1224819--1224884	2	33.0	2	100	0	132	0	50	0	50	1.00
1226892--1227026	73	1.9	73	90	1	218	35	11	11	41	1.77
1236848--1236938	13	7.0	13	84	0	119	35	16	21	26	1.95
1236848--1236938	26	3.5	26	96	3	166	35	16	21	26	1.95
1243322--1243398	23	3.3	23	79	1	82	32	20	20	25	1.97
1243405--1243622	103	2.1	103	95	0	400	36	23	13	26	1.92
1244359--1244515	64	2.5	64	77	12	162	28	17	19	35	1.94
1249250--1249327	23	3.3	23	81	1	93	32	23	20	24	1.98
1249334--1249551	103	2.1	103	97	0	409	36	23	13	25	1.92
1250283--1250444	64	2.5	64	80	8	179	29	18	19	33	1.95
1258595--1258754	78	2.1	78	92	2	268	31	16	6	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266342--1266407	33	2.0	33	93	3	114	21	13	24	40	1.89
1271958--1272035	31	2.5	33	81	14	101	12	28	30	28	1.93
1275542--1275656	59	1.9	59	92	0	194	40	17	13	28	1.88
1281456--1281489	17	2.1	16	88	5	50	14	20	5	58	1.57
1287870--1287900	16	1.9	16	93	0	53	70	3	0	25	1.02
1288870--1288898	2	14.5	2	100	0	58	48	0	0	51	1.00
1300884--1300951	30	2.3	30	97	0	127	13	44	4	38	1.64
1311830--1311863	16	2.1	16	88	0	50	50	0	2	47	1.16
1311904--1311936	17	1.9	17	88	11	50	27	3	6	63	1.32
1312405--1312652	130	1.9	130	93	0	424	35	12	15	36	1.86
1313050--1313125	35	2.2	35	92	0	125	35	1	23	39	1.63
1324430--1324470	21	2.0	20	85	4	55	2	31	4	60	1.30
1325898--1325967	21	3.3	21	75	15	81	18	17	24	40	1.91
1325893--1325974	42	2.0	42	95	0	146	20	18	24	36	1.95
1326703--1327003	21	14.6	21	70	19	206	35	24	19	20	1.96
1326678--1326978	42	7.3	42	95	2	524	36	24	18	20	1.95
1326678--1326978	82	3.7	82	96	1	534	36	24	18	20	1.95
1327013--1327064	21	2.5	21	93	0	86	21	23	28	26	1.99
1328566--1328609	18	2.4	18	92	0	70	45	0	4	50	1.22
1329602--1329626	10	2.5	10	100	0	50	48	0	0	52	1.00
1329607--1329657	14	3.6	14	80	15	52	37	1	0	60	1.08
1330778--1331062	148	1.9	149	86	2	412	50	3	10	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331182--1331249	20	3.7	19	72	23	74	52	1	2	42	1.25
1331175--1331245	34	2.1	34	97	0	133	52	2	2	42	1.31
1331181--1331280	20	6.1	16	71	25	68	56	3	2	39	1.26
1333216--1333250	18	1.9	18	88	0	52	28	5	0	65	1.15
1333450--1333502	23	2.3	23	90	0	79	28	26	24	20	1.99
1334330--1334355	2	13.0	2	100	0	52	50	0	0	50	1.00
1337615--1337647	13	2.5	13	90	9	50	45	6	18	30	1.73
1338129--1338184	23	2.5	23	91	2	87	21	21	35	21	1.96
1342007--1342049	21	2.0	22	86	4	61	34	6	4	53	1.49
1348926--1348978	27	2.0	27	92	0	88	3	50	18	26	1.64
1349150--1349207	26	2.3	26	87	3	82	44	8	37	8	1.66
1349202--1349247	13	3.5	13	85	5	58	65	0	34	0	0.93
1349455--1349543	44	2.0	47	84	6	121	37	1	13	48	1.50
1349415--1349527	38	2.8	38	69	21	95	37	0	13	48	1.48
1349705--1349738	15	2.2	16	94	5	61	38	0	5	55	1.24
1352037--1352354	14	24.1	14	72	17	200	43	8	2	44	1.50
1352037--1352354	26	12.6	26	79	11	304	43	8	2	44	1.50
1352037--1352412	124	3.0	124	85	5	465	43	9	2	44	1.49
1352376--1352419	12	3.8	12	90	6	72	45	6	0	47	1.29
1352607--1352691	21	4.2	21	65	14	61	44	9	0	45	1.36
1352659--1352833	18	10.6	17	67	14	62	45	10	0	44	1.39
1352628--1352865	49	4.8	49	97	0	449	46	11	0	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356698--1356760	28	2.2	30	94	5	112	57	12	0	30	1.36
1356702--1356767	28	2.4	28	87	10	107	56	12	0	31	1.36
1356737--1356785	21	2.3	21	85	3	71	53	16	0	30	1.43
1357351--1357418	29	2.3	29	87	0	91	13	33	26	26	1.93
1358722--1358791	5	14.0	5	100	0	140	60	20	0	20	1.37
1359948--1359974	2	13.5	2	100	0	54	48	0	0	51	1.00
1361958--1361990	2	17.0	2	93	6	59	51	0	0	48	1.00
1362185--1362235	2	25.5	2	100	0	102	50	0	0	49	1.00
1363485--1363518	2	17.0	2	93	0	59	50	2	0	47	1.16
1363629--1363666	2	19.5	2	94	5	69	47	0	0	52	1.00
1367034--1367071	18	2.1	19	90	9	62	13	7	5	73	1.22
1367412--1367490	39	2.0	39	85	0	104	30	26	22	20	1.98
1374968--1375127	43	3.4	43	66	18	122	34	25	20	20	1.96
1375006--1375378	55	7.5	53	62	20	167	34	23	19	22	1.97
1374958--1375577	98	6.4	98	95	0	1049	33	24	19	22	1.97
1375360--1375515	43	3.4	43	70	19	145	33	26	18	21	1.96
1375878--1375908	2	15.5	2	93	0	53	48	0	0	51	1.00
1382759--1382798	21	1.9	21	89	0	62	20	10	2	67	1.31
1386669--1386833	81	2.0	81	98	0	321	30	18	23	27	1.98
1386788--1386959	83	2.1	84	96	1	319	25	19	11	43	1.85
1390484--1390641	42	4.0	37	81	9	131	32	19	24	23	1.98
1390523--1390826	43	7.1	43	87	2	398	32	18	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390936--1390996	21	3.0	21	90	2	88	52	18	6	22	1.68
1391939--1392069	66	2.0	66	92	3	219	42	23	11	22	1.86
1393920--1394304	41	9.4	41	82	5	406	33	20	18	27	1.96
1395052--1395244	96	2.0	96	89	2	298	35	15	16	32	1.90
1398898--1398950	23	2.2	24	90	3	81	43	0	3	52	1.19
1402777--1402975	20	9.8	20	69	13	102	38	24	18	19	1.93
1402838--1402969	21	6.4	20	77	4	120	37	24	18	20	1.94
1402777--1402978	41	5.0	41	82	8	218	37	24	18	19	1.94
1403821--1403874	24	2.2	24	90	0	81	22	18	18	40	1.91
1406303--1406434	19	7.4	19	70	19	104	45	18	19	15	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16