genome.fa.s230.2.7.7.80.10.50.1000.11.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: Scaffold230
Parameters: 2 7 7 80 10 50 1000
Length:  2055625

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

This is table  11  of  14  ( 1594 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)
1259282--1259364	38	2.2	37	79	14	89	53	0	0	46	1.00
1259304--1259363	18	3.5	17	80	19	72	51	0	0	48	1.00
1259293--1259353	15	3.8	16	81	16	72	52	0	0	47	1.00
1262064--1262153	47	1.9	47	84	4	119	53	0	1	45	1.07
1262138--1262183	14	3.4	14	82	14	60	54	0	0	45	0.99
1262123--1262205	41	2.0	41	83	4	105	57	0	0	42	0.98
1262138--1262207	7	10.1	7	84	4	54	52	0	0	47	1.00
1265125--1265152	2	14.0	2	100	0	56	50	0	50	0	1.00
1266512--1266543	11	2.8	12	86	13	50	50	0	0	50	1.00
1273207--1273244	18	2.2	17	86	13	51	47	0	5	47	1.24
1275849--1275884	3	12.0	3	100	0	72	33	0	0	66	0.92
1277179--1277219	17	2.3	18	80	12	50	63	2	0	34	1.08
1277737--1277786	21	2.3	23	80	16	70	36	0	0	64	0.94
1277752--1277789	11	3.5	11	82	3	51	28	0	0	71	0.87
1277752--1277854	17	6.2	16	68	18	59	33	0	0	65	1.00
1277848--1277902	23	2.6	21	75	13	58	58	0	0	41	0.98
1277856--1277888	16	2.1	17	88	11	52	60	0	0	39	0.97
1278421--1278450	2	15.0	2	100	0	60	50	0	0	50	1.00
1278536--1278571	18	1.9	19	88	5	56	50	0	0	50	1.00
1281280--1281314	15	2.2	16	90	5	54	65	0	0	34	0.93
1281372--1281415	22	2.0	22	86	0	61	31	2	22	43	1.66
1283352--1283387	18	2.0	18	89	10	56	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1285849--1285894	21	2.2	20	80	3	56	67	6	0	26	1.15
1287177--1287207	2	15.5	2	93	0	53	45	0	0	54	0.99
1287549--1287584	16	2.2	16	90	0	54	41	0	2	55	1.14
1287761--1287790	11	2.9	10	90	9	51	30	0	0	70	0.88
1288220--1288282	12	5.6	12	80	16	55	55	1	0	42	1.09
1288205--1288294	27	3.3	27	78	10	76	54	1	1	43	1.14
1288527--1288568	21	2.0	21	81	9	50	52	4	0	42	1.22
1288625--1288688	24	2.6	26	80	11	73	45	1	0	53	1.10
1288675--1288717	22	2.0	22	90	9	70	46	0	0	53	1.00
1288832--1288879	18	2.7	18	81	12	62	60	0	2	37	1.09
1289096--1289122	2	13.5	2	100	0	54	51	0	0	48	1.00
1289994--1290019	11	2.4	11	100	0	52	46	7	0	46	1.31
1290236--1290318	35	2.3	32	76	23	78	60	3	0	36	1.14
1291866--1291933	27	2.5	26	79	9	64	48	1	0	50	1.10
1291918--1291973	12	4.5	13	74	14	55	57	3	0	39	1.16
1291920--1291981	19	3.2	20	78	21	69	59	4	0	35	1.19
1291879--1291973	11	7.6	12	68	22	54	53	3	0	43	1.16
1292128--1292171	22	2.0	22	90	4	70	45	0	0	54	0.99
1292250--1292386	73	1.9	72	95	1	247	54	3	4	37	1.38
1292349--1292418	36	2.1	35	84	10	92	54	0	5	40	1.24
1292428--1292471	9	4.9	9	86	8	54	72	0	0	27	0.85
1292437--1292471	13	2.7	13	90	0	52	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296598--1296648	24	2.1	24	81	0	57	15	27	33	23	1.95
1305788--1305841	25	2.2	26	80	16	69	50	1	0	48	1.11
1305790--1305843	24	2.2	25	84	12	69	51	1	0	46	1.11
1305885--1305917	15	2.1	16	88	5	50	69	0	0	30	0.88
1306899--1306949	17	2.9	17	75	16	50	64	0	0	35	0.94
1306875--1306960	29	3.1	28	77	12	81	63	0	0	36	0.94
1306913--1306976	21	3.1	21	74	21	64	56	0	0	43	0.99
1307376--1307413	19	2.0	19	89	0	58	68	0	0	31	0.90
1309049--1309098	5	10.0	5	97	0	73	14	60	20	6	1.55
1309664--1309711	16	3.0	16	78	6	53	39	2	4	54	1.32
1310205--1310255	27	1.9	26	84	4	66	54	3	0	41	1.19
1310493--1310527	2	18.0	2	94	5	63	51	0	0	48	1.00
1313066--1313097	3	10.7	3	100	0	64	34	0	0	65	0.93
1318372--1318418	2	23.5	2	82	8	60	46	4	0	48	1.21
1318480--1318505	3	8.7	3	100	0	52	69	0	0	30	0.89
1318900--1318976	26	2.7	27	76	13	75	44	1	0	54	1.08
1318984--1319042	27	2.1	28	84	9	77	33	0	0	66	0.92
1324207--1324249	18	2.2	20	88	8	63	41	2	2	53	1.26
1325378--1325421	17	2.7	17	86	6	65	54	2	0	43	1.12
1325934--1325972	2	19.5	2	100	0	78	51	0	0	48	1.00
1327741--1327801	3	20.3	3	93	0	104	63	0	3	32	1.10
1329995--1330024	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331084--1331115	16	2.0	16	93	0	55	37	15	0	46	1.46
1340884--1340913	2	15.0	2	100	0	60	50	0	50	0	1.00
1342691--1342732	11	3.6	11	81	12	57	30	0	0	69	0.89
1342678--1342732	13	4.3	13	73	19	53	32	0	0	67	0.91
1347635--1347699	15	4.1	15	75	9	58	55	1	0	43	1.09
1352816--1352865	25	2.0	24	85	11	66	54	0	2	44	1.11
1353129--1353218	17	4.3	21	72	24	75	66	1	2	30	1.11
1353131--1353218	21	4.2	20	75	17	74	67	1	2	29	1.10
1353139--1353240	12	8.7	12	67	16	61	63	0	2	32	1.16
1353131--1353220	23	4.0	22	75	16	78	66	1	2	30	1.11
1353430--1353474	18	2.4	19	82	14	58	48	0	0	51	1.00
1353430--1353484	18	3.1	19	80	19	57	52	0	0	47	1.00
1353831--1353875	17	2.4	19	82	10	58	66	4	0	28	1.11
1358684--1358736	22	2.5	21	84	6	72	45	1	0	52	1.11
1359966--1360041	26	3.0	24	83	14	82	57	0	0	42	0.98
1359942--1359992	17	2.9	17	77	16	59	58	0	1	39	1.09
1363165--1363194	3	10.0	3	100	0	60	33	33	33	0	1.58
1363962--1364012	27	1.9	26	84	4	66	54	0	1	43	1.11
1364612--1364660	21	2.3	22	86	10	66	42	0	2	55	1.11
1371562--1371611	22	2.3	22	86	6	66	30	0	0	70	0.88
1371569--1371620	10	5.4	10	81	6	54	30	0	0	69	0.89
1371563--1371620	6	10.0	6	76	14	50	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371597--1371644	16	3.0	16	85	11	55	54	0	0	45	0.99
1371604--1371652	23	2.1	24	84	3	64	61	0	0	38	0.96
1373883--1373929	21	2.2	22	77	11	53	55	2	4	38	1.31
1374019--1374049	4	7.5	4	96	3	53	70	0	0	29	0.87
1377119--1377159	10	3.9	11	75	12	50	56	0	0	43	0.99
1378523--1378582	21	2.9	21	72	16	61	43	0	3	53	1.17
1386536--1386587	20	2.5	22	78	18	65	40	0	0	59	0.97
1386546--1386623	20	4.1	20	73	18	60	41	0	0	58	0.98
1386555--1386599	23	1.9	24	86	13	67	37	0	0	62	0.96
1396340--1396366	2	13.5	2	100	0	54	51	0	0	48	1.00
1405099--1405253	76	2.1	75	91	1	247	24	22	14	38	1.91
1406001--1406027	2	13.5	2	100	0	54	48	0	0	51	1.00
1406449--1406501	22	2.4	22	75	15	54	67	3	3	24	1.23
1407316--1407391	29	2.7	27	82	6	80	40	3	0	55	1.18
1407343--1407425	29	2.9	28	87	8	105	38	3	0	57	1.16
1414734--1414760	14	1.9	14	100	0	54	40	0	22	37	1.54
1418810--1418856	24	2.0	24	86	0	67	40	0	0	59	0.97
1420134--1420168	2	17.5	2	93	0	61	48	2	0	48	1.16
1420762--1420796	2	17.5	2	100	0	70	48	0	0	51	1.00
1423785--1423814	14	2.1	14	93	0	51	53	3	0	43	1.17
1426153--1426206	22	2.5	22	72	24	60	53	1	0	44	1.11
1426163--1426236	22	3.3	22	69	20	64	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427924--1427965	21	2.0	21	85	0	57	45	35	19	0	1.50
1428258--1428303	3	15.3	3	100	0	92	32	0	0	67	0.91
1428649--1428676	2	14.0	2	100	0	56	50	0	0	50	1.00
1428959--1429000	20	2.1	20	100	0	84	33	19	11	35	1.88
1440752--1440830	36	2.2	36	90	0	122	55	13	11	18	1.68
1441828--1441866	18	2.2	18	86	4	53	69	7	10	12	1.37
1442812--1442860	20	2.3	21	80	13	57	57	2	0	40	1.10
1447875--1447914	14	2.6	16	80	15	57	40	0	0	60	0.97
1447923--1447962	20	2.1	19	85	4	53	60	0	2	37	1.11
1447932--1447970	20	2.0	20	84	0	51	58	0	2	38	1.12

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