genome.fa.s8103.2.7.7.80.10.50.1000.8.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: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1996589

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1263 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)
1265886--1265937	21	2.4	21	75	9	52	5	51	0	42	1.25
1265969--1266011	21	2.0	21	86	0	59	51	0	4	44	1.22
1267020--1267125	42	2.5	42	84	6	135	20	35	17	25	1.95
1267016--1267123	21	5.1	21	78	15	107	20	35	18	25	1.95
1267047--1267138	21	4.4	21	77	2	87	20	35	20	22	1.96
1268477--1268509	13	2.4	14	95	5	59	30	0	21	48	1.50
1268551--1268587	14	2.6	14	100	0	74	29	0	21	48	1.50
1268477--1268651	78	2.3	77	92	1	287	29	1	18	50	1.56
1268532--1268649	37	3.0	38	71	14	123	25	2	16	55	1.53
1268711--1268772	20	3.1	20	85	0	88	40	17	19	22	1.91
1268814--1268852	20	2.0	20	89	0	60	25	17	23	33	1.96
1269102--1269135	12	2.8	12	90	0	50	20	2	26	50	1.63
1271393--1271446	24	2.2	24	90	0	81	40	20	20	18	1.91
1272163--1272193	16	1.9	16	93	0	53	67	0	3	29	1.06
1272359--1272424	20	3.3	20	74	16	55	36	13	22	27	1.92
1272359--1272466	40	2.7	40	77	5	103	36	12	22	28	1.91
1272417--1272548	20	6.6	21	80	5	96	25	12	27	34	1.92
1274436--1274482	16	3.1	16	81	12	71	36	21	6	36	1.79
1274445--1274476	14	2.3	14	94	0	55	34	21	6	37	1.79
1276529--1276566	19	2.1	18	85	9	51	0	21	7	71	1.11
1276519--1276568	20	2.4	21	78	21	61	0	20	8	72	1.10
1277013--1277051	3	12.7	3	94	5	69	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279635--1279829	75	2.6	75	95	0	338	18	27	29	24	1.98
1282424--1282486	23	2.7	23	90	0	90	19	23	34	22	1.96
1284811--1284846	17	2.1	17	100	0	72	47	16	16	19	1.83
1294022--1294078	20	2.9	19	92	5	80	22	21	7	49	1.73
1294032--1294078	20	2.3	20	100	0	94	25	19	4	51	1.65
1294041--1294084	20	2.2	20	91	0	70	27	22	4	45	1.72
1300042--1300147	4	26.5	4	76	0	68	40	23	7	28	1.82
1300042--1300108	32	2.1	32	85	0	89	38	25	8	26	1.85
1300042--1300147	44	2.4	44	88	0	158	40	23	7	28	1.82
1300220--1300252	4	8.2	4	93	0	57	48	24	3	24	1.65
1300451--1300523	24	3.0	24	90	4	76	9	15	26	49	1.74
1300461--1300516	14	4.3	14	82	17	84	7	14	26	51	1.67
1300462--1300523	24	2.6	24	97	0	115	8	12	25	53	1.66
1301565--1301631	16	4.3	16	88	3	93	10	11	19	58	1.62
1301561--1301623	32	2.0	32	93	0	108	7	14	22	55	1.64
1301694--1301726	16	2.1	16	100	0	66	6	12	24	57	1.57
1304013--1304213	108	1.9	107	83	5	262	44	14	14	25	1.84
1305422--1306132	134	5.3	134	85	1	870	28	16	22	33	1.95
1309228--1309341	6	17.7	6	72	18	70	6	14	0	78	1.00
1309296--1309344	13	3.8	13	81	2	55	4	10	0	85	0.71
1309289--1309342	19	3.0	17	82	12	72	3	11	0	85	0.73
1309301--1309362	26	2.4	25	84	7	81	6	11	0	82	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314130--1314177	21	2.3	21	85	0	60	25	18	29	27	1.98
1314172--1314224	23	2.3	23	96	0	97	20	16	28	33	1.95
1327106--1327290	61	3.1	60	76	6	178	33	24	4	37	1.77
1327408--1327576	60	2.8	60	78	11	184	40	2	22	33	1.69
1327880--1328020	74	1.9	74	97	1	266	29	13	3	53	1.56
1327886--1328050	74	2.3	74	86	6	221	31	14	3	50	1.60
1330439--1330670	35	6.7	36	81	12	272	46	3	4	45	1.38
1330439--1330670	71	3.3	72	82	11	288	46	3	4	45	1.38
1330439--1330672	106	2.2	106	86	8	338	47	2	4	45	1.37
1330439--1330672	108	2.2	106	85	8	329	47	2	4	45	1.37
1330439--1330734	107	2.8	105	82	12	311	45	3	5	45	1.43
1330625--1330705	42	2.0	41	85	7	110	44	2	6	46	1.41
1330769--1330820	15	3.5	15	84	10	70	26	0	0	73	0.84
1330769--1330834	4	17.8	4	77	22	56	25	1	0	72	0.93
1330773--1330840	29	2.5	28	83	11	88	25	1	0	73	0.92
1330769--1330842	30	2.5	30	88	4	105	24	1	0	74	0.90
1331828--1331874	23	2.0	23	91	0	76	21	8	8	61	1.51
1333145--1333174	15	2.0	15	93	0	51	56	0	10	33	1.32
1334195--1334228	3	11.0	3	87	6	50	61	0	38	0	0.96
1337018--1337090	37	2.0	37	91	0	119	19	19	15	46	1.84
1339610--1339671	3	21.0	3	87	9	92	37	0	0	62	0.95
1339610--1339679	23	3.0	24	85	10	92	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339614--1339694	9	8.2	10	78	14	71	43	0	0	56	0.99
1341547--1341766	109	2.0	109	99	0	431	42	10	13	33	1.79
1345015--1345109	47	2.0	47	100	0	190	31	18	23	26	1.98
1346335--1346369	2	17.5	2	100	0	70	48	0	0	51	1.00
1346591--1346693	34	3.2	34	64	23	94	43	4	9	41	1.59
1346581--1346713	63	2.1	63	98	1	257	44	4	9	42	1.56
1356903--1356985	21	3.9	21	78	10	80	15	24	34	25	1.95
1365131--1365182	19	2.7	19	96	0	95	32	7	25	34	1.84
1365128--1365236	19	5.4	19	76	13	92	34	6	27	31	1.82
1365374--1365412	17	2.3	17	95	0	69	38	12	20	28	1.89
1365486--1365525	20	2.0	20	85	4	55	45	7	22	25	1.78
1366326--1366395	21	3.4	21	76	7	81	32	25	21	20	1.97
1366318--1366403	21	4.3	19	73	8	73	33	20	22	23	1.97
1366318--1366403	40	2.2	40	95	0	154	33	20	22	23	1.97
1366343--1366406	19	3.3	19	78	8	83	34	20	21	23	1.97
1366574--1366621	19	2.5	19	86	3	60	20	12	29	37	1.90
1367392--1367447	17	3.4	17	73	14	53	41	0	1	57	1.09
1367410--1367477	30	2.4	28	82	5	82	39	0	0	60	0.97
1369254--1369319	21	3.1	21	78	8	80	18	30	21	30	1.97
1369973--1370003	14	2.2	14	100	0	62	58	16	0	25	1.38
1370069--1370198	63	2.0	64	86	4	183	36	21	1	40	1.63
1370154--1370216	23	2.7	23	82	0	81	31	14	0	53	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370261--1371155	116	7.7	116	91	2	1409	30	24	23	21	1.99
1370261--1371155	233	3.8	232	91	2	1409	30	24	23	21	1.99
1370261--1371155	349	2.6	347	91	3	1411	30	24	23	21	1.99
1374319--1374407	26	3.3	26	78	9	81	46	0	1	52	1.07
1374350--1374393	22	2.0	22	86	8	63	45	0	0	54	0.99
1374990--1375106	61	1.9	60	89	1	180	24	30	26	17	1.97
1376307--1376359	22	2.4	22	83	0	61	43	13	20	22	1.86
1376427--1376466	21	1.9	21	89	0	62	27	25	20	27	1.99
1377023--1377140	57	2.1	57	87	3	166	28	24	16	29	1.97
1380381--1380410	14	2.1	15	93	6	53	60	0	0	40	0.97
1381596--1381651	27	2.2	27	78	12	66	53	3	7	35	1.46
1395793--1395940	3	48.3	3	69	14	88	56	3	6	33	1.40
1395776--1395940	20	8.4	19	72	13	79	55	3	6	35	1.40
1399904--1400303	193	2.1	191	83	4	493	39	13	11	36	1.80
1403656--1403707	3	18.0	3	88	7	81	63	0	1	34	1.06
1405758--1405795	19	2.0	20	89	5	60	57	2	5	34	1.35
1405754--1405803	22	2.3	21	80	10	55	62	6	4	28	1.37
1407981--1408033	24	2.2	24	93	0	88	18	24	15	41	1.89
1408147--1408259	3	38.0	3	94	1	183	62	0	2	33	1.15
1411702--1411857	78	2.0	78	97	0	294	38	7	21	32	1.82
1412497--1412546	20	2.6	19	87	3	64	32	12	32	24	1.91
1423158--1423243	43	2.0	43	81	4	102	31	18	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423286--1423350	20	3.3	20	68	12	62	23	23	13	40	1.90
1423398--1424148	124	6.1	124	87	0	993	26	19	15	38	1.91
1424068--1424410	137	2.5	138	86	3	460	26	20	15	37	1.93
1425897--1425936	21	1.9	22	90	10	66	47	5	20	27	1.70
1429046--1429372	45	7.2	45	91	0	519	23	22	10	43	1.84
1429153--1429218	21	3.0	21	67	25	55	22	25	10	40	1.86
1429812--1429861	20	2.5	20	93	0	91	26	20	8	46	1.78
1433433--1433470	15	2.5	15	91	0	58	26	21	28	23	1.99
1436044--1436236	45	4.3	45	93	0	332	22	23	11	41	1.87
1440461--1440495	18	1.9	18	100	0	70	34	0	11	54	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11