genome.fa.s341.2.7.7.80.10.50.1000.9.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: Scaffold341
Parameters: 2 7 7 80 10 50 1000
Length:  1349338

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1050 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)
1237117--1237191	27	2.7	28	85	2	98	24	17	33	25	1.96
1239641--1239707	34	2.0	33	91	2	107	44	13	16	25	1.84
1239662--1239687	13	2.0	13	100	0	52	38	15	15	30	1.88
1239731--1239782	13	3.5	13	73	26	50	36	17	13	32	1.89
1239739--1239824	19	4.7	19	72	20	76	37	16	12	33	1.87
1239731--1239803	32	2.3	32	97	0	137	35	17	12	34	1.88
1241455--1241496	17	2.2	20	88	12	63	45	2	2	50	1.27
1241551--1241588	20	1.9	20	89	10	60	42	2	0	55	1.14
1242528--1242622	20	4.8	20	69	15	56	38	3	0	57	1.14
1242568--1242626	20	3.0	19	82	7	64	38	3	0	57	1.15
1242652--1242676	13	1.9	13	100	0	50	48	0	0	52	1.00
1244068--1244105	20	1.9	20	94	0	67	39	7	5	47	1.55
1253574--1253618	24	2.0	22	86	8	63	20	0	2	77	0.87
1256040--1256081	3	14.0	3	100	0	84	33	0	0	66	0.92
1258066--1258108	21	2.0	21	86	0	59	27	2	0	69	1.00
1260405--1260436	2	16.0	2	100	0	64	50	0	0	50	1.00
1261241--1261289	25	2.0	25	83	0	62	51	22	2	24	1.59
1261777--1261806	14	2.1	14	93	0	51	26	0	20	53	1.46
1264751--1264795	20	2.3	20	96	3	83	42	0	0	57	0.98
1264751--1264804	20	2.8	20	88	8	67	44	0	0	55	0.99
1265440--1265472	17	1.9	17	100	0	66	57	0	0	42	0.98
1266360--1266391	3	10.7	3	100	0	64	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268463--1268521	3	19.7	3	96	0	109	66	0	32	1	1.02
1272756--1272784	14	2.1	14	100	0	58	51	0	13	34	1.42
1272902--1273007	51	2.1	51	100	0	212	29	13	14	43	1.83
1280558--1280605	21	2.3	20	82	6	60	27	2	2	68	1.11
1281137--1281177	21	2.0	20	85	4	55	43	7	0	48	1.30
1283347--1283385	20	2.0	19	85	5	51	51	15	12	20	1.76
1283492--1283531	21	2.0	20	85	5	53	45	10	15	30	1.78
1284628--1285076	154	2.9	151	76	10	407	48	7	10	33	1.64
1286150--1286299	43	3.5	43	70	0	120	40	17	22	20	1.92
1286189--1286809	43	14.8	42	72	9	221	38	15	24	20	1.92
1286175--1289190	85	36.0	85	68	11	403	39	15	24	20	1.91
1286465--1286715	123	2.0	124	82	0	297	37	17	25	19	1.93
1286608--1286882	130	2.1	128	83	4	329	38	15	24	21	1.92
1286921--1287192	43	6.4	42	73	9	158	38	17	23	20	1.93
1286915--1287154	43	5.6	43	76	4	175	37	16	25	20	1.93
1287173--1287382	79	2.7	79	78	4	210	45	13	22	18	1.84
1287385--1287505	42	2.9	42	71	8	111	36	13	25	24	1.92
1287395--1287807	127	3.2	127	80	5	370	39	15	24	19	1.91
1287988--1288080	42	2.2	43	86	5	127	43	17	16	23	1.88
1287443--1289190	43	41.7	42	70	9	560	39	15	23	20	1.91
1288463--1288627	79	2.1	78	86	1	231	46	18	20	15	1.84
1288769--1289267	128	3.9	125	74	6	351	40	15	23	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288907--1289267	85	4.2	85	78	4	332	40	15	22	21	1.91
1288903--1289257	43	8.3	43	76	3	207	40	15	23	21	1.91
1292923--1292976	20	2.7	20	91	5	83	37	18	12	31	1.89
1293607--1293662	25	2.2	25	90	0	85	46	23	7	23	1.76
1295556--1295582	13	2.1	13	100	0	54	40	14	14	29	1.86
1301362--1301482	52	2.3	52	97	0	224	28	18	18	34	1.94
1301362--1301502	52	2.7	51	90	4	212	30	17	18	33	1.94
1301491--1301515	13	1.9	13	100	0	50	36	16	16	32	1.90
1301583--1301607	13	1.9	13	100	0	50	32	16	16	36	1.90
1302497--1302654	49	3.1	49	76	7	147	35	15	24	24	1.94
1302426--1302946	170	3.1	170	97	0	961	37	13	24	24	1.92
1302667--1302824	49	3.1	49	75	7	147	35	14	24	25	1.93
1302880--1303068	61	3.1	61	69	19	176	39	12	25	22	1.90
1302959--1303537	49	11.6	49	83	5	648	32	17	25	24	1.96
1302959--1303545	100	5.9	99	88	6	823	32	16	25	24	1.96
1303025--1303545	192	2.7	194	91	3	832	32	17	26	24	1.97
1303026--1303545	49	10.5	49	84	4	656	32	17	25	24	1.97
1303543--1303647	33	3.3	32	89	8	162	15	19	37	28	1.92
1303664--1304540	34	26.8	32	84	10	975	29	12	36	20	1.90
1303695--1304534	66	12.8	66	86	9	1068	28	12	37	21	1.90
1303664--1304534	100	8.8	98	85	8	1002	29	12	37	21	1.90
1304159--1304248	27	3.2	27	84	12	110	27	13	37	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304389--1304440	27	1.9	27	96	0	95	17	17	40	25	1.90
1305513--1305544	16	2.0	16	93	0	55	0	6	9	84	0.78
1305785--1305856	1	72.0	1	77	0	72	0	0	11	88	0.50
1312743--1312863	52	2.3	52	97	0	224	28	18	18	34	1.94
1312743--1312883	52	2.7	51	90	4	212	30	17	18	33	1.94
1312872--1312896	13	1.9	13	100	0	50	36	16	16	32	1.90
1312967--1312991	13	1.9	13	100	0	50	32	16	16	36	1.90
1316768--1316816	13	4.2	13	71	28	56	38	18	12	30	1.87
1316845--1316898	19	2.8	20	91	2	83	37	18	14	29	1.91
1316845--1316915	20	3.6	19	86	7	72	38	16	15	29	1.90
1318101--1318157	29	2.0	29	100	0	114	35	21	10	33	1.87
1324582--1324750	51	3.3	50	87	1	221	43	11	15	28	1.82
1324788--1324839	20	2.5	20	81	9	61	34	21	7	36	1.82
1330967--1331037	30	2.4	30	95	0	124	49	9	11	29	1.71
1334076--1334108	16	2.1	16	94	0	57	18	33	6	42	1.75
1341892--1342030	69	2.0	69	83	5	174	39	17	8	34	1.80
1343377--1343450	33	2.3	33	95	2	132	31	21	10	36	1.88
1343441--1343465	13	1.9	13	100	0	50	32	16	20	32	1.94
1343326--1343502	98	1.8	94	89	7	275	31	20	10	36	1.87
1343936--1344002	37	1.9	35	88	11	102	32	11	25	29	1.92
1345949--1346059	51	2.2	51	85	6	145	31	16	24	27	1.96
1345888--1346230	130	2.6	130	80	2	330	33	12	25	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345992--1346138	79	1.9	79	85	0	204	27	12	28	30	1.93
1346071--1346188	51	2.3	52	88	1	166	30	10	29	29	1.90

Tables:   1   2   3   4   5   6   7   8   9

The End!