genome.fa.s339.2.7.7.80.10.50.1000.9.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: Scaffold339
Parameters: 2 7 7 80 10 50 1000
Length:  1314099

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1034 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)
1217003--1217623	92	6.7	92	86	4	804	31	15	29	23	1.95
1217561--1217618	30	2.1	26	81	15	64	29	15	29	25	1.96
1218879--1218910	15	2.1	15	94	0	55	6	0	9	84	0.78
1226007--1226062	22	2.6	22	83	8	71	35	16	10	37	1.83
1228824--1228849	13	2.0	13	100	0	52	38	15	15	30	1.88
1228806--1228869	32	2.0	33	87	3	94	40	17	14	28	1.88
1231071--1231115	21	2.1	21	84	8	56	53	4	20	22	1.63
1232928--1232957	15	2.0	15	93	0	51	50	23	20	6	1.71
1235152--1235194	20	2.2	19	84	16	52	30	20	4	44	1.72
1237589--1237614	13	2.0	13	100	0	52	38	15	15	30	1.88
1237571--1237634	32	2.0	33	87	3	94	40	17	14	28	1.88
1238967--1239016	21	2.4	22	83	9	61	32	20	0	48	1.50
1241302--1241354	20	2.7	20	91	2	81	28	15	18	37	1.91
1241404--1241428	13	1.9	13	100	0	50	36	16	16	32	1.90
1241384--1241446	33	1.9	33	90	6	101	34	14	17	33	1.90
1242301--1242411	35	3.2	35	79	6	118	53	1	5	39	1.35
1242990--1243152	36	4.6	36	71	21	112	52	2	3	41	1.30
1243144--1243192	18	2.7	18	83	0	62	51	2	2	44	1.24
1243184--1243239	22	2.5	21	80	11	58	71	1	1	25	1.05
1245135--1245165	13	2.4	13	94	0	53	35	12	16	35	1.87
1245212--1245283	19	3.6	19	86	5	81	36	18	18	27	1.94
1245809--1245860	19	2.9	18	83	8	63	30	32	1	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245818--1245871	19	2.7	20	82	11	65	24	37	1	37	1.66
1248718--1248742	13	1.9	13	100	0	50	32	16	16	36	1.90
1248751--1248879	52	2.5	52	96	0	240	34	17	18	28	1.94
1255742--1255775	16	2.1	16	89	10	52	88	11	0	0	0.52
1256723--1257244	31	17.1	30	87	7	660	25	30	16	27	1.96
1256723--1257244	61	8.5	60	87	7	678	25	30	16	27	1.96
1256722--1257244	123	4.3	122	90	4	763	25	30	16	27	1.96
1257208--1257321	37	3.2	37	90	6	180	17	35	10	36	1.84
1257210--1257400	34	5.6	33	81	10	172	19	32	10	36	1.87
1257215--1257400	69	2.7	66	80	8	185	19	33	11	35	1.88
1257473--1258241	49	16.0	49	83	9	976	23	24	18	33	1.97
1257473--1258288	92	8.5	94	82	10	756	23	24	18	32	1.97
1257473--1258288	141	5.7	141	85	8	1052	23	24	18	32	1.97
1257852--1258234	101	3.9	100	86	6	539	24	23	18	33	1.96
1258048--1258288	101	2.4	101	85	1	304	23	24	18	33	1.97
1259074--1259098	13	1.9	13	100	0	50	32	16	16	36	1.90
1267600--1267630	13	2.4	13	94	0	53	35	12	16	35	1.87
1267675--1267722	21	2.4	20	86	6	62	33	18	16	31	1.94
1272471--1272517	22	2.1	22	100	0	94	51	12	17	19	1.77
1274199--1274237	21	1.9	20	84	5	51	38	25	7	28	1.83
1274276--1274327	20	2.5	20	78	9	61	38	9	19	32	1.84
1276703--1276904	81	2.5	81	76	10	214	29	21	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279214--1279239	2	13.0	2	100	0	52	50	0	0	50	1.00
1279707--1279783	21	3.8	20	73	3	64	42	10	15	31	1.81
1279707--1279759	20	2.6	21	81	3	63	41	7	16	33	1.77
1281093--1281117	13	1.9	13	100	0	50	36	16	16	32	1.90
1281070--1281137	33	2.1	33	91	2	111	33	14	16	35	1.89
1281662--1281729	32	2.1	32	88	0	100	33	17	17	30	1.94
1284070--1284094	13	1.9	13	100	0	50	36	16	16	32	1.90
1284049--1284113	32	2.0	33	87	3	96	32	13	13	40	1.85
1290173--1290232	19	3.0	21	76	14	63	25	0	23	51	1.48
1292822--1292879	20	3.1	19	80	7	73	36	13	15	34	1.87
1297892--1297921	15	2.0	15	93	0	51	50	13	20	16	1.78
1299965--1300026	20	3.5	20	71	28	75	25	20	16	37	1.93
1299985--1300055	13	4.9	13	73	21	61	28	18	18	35	1.94
1299965--1300043	33	2.4	33	97	0	149	26	20	17	35	1.95
1302498--1302552	20	2.7	20	83	8	67	40	14	16	29	1.88
1302603--1302628	13	2.0	13	100	0	52	38	15	15	30	1.88
1302585--1302648	33	2.0	32	87	3	92	37	18	12	31	1.88
1303745--1303790	20	2.2	20	84	7	56	0	17	10	71	1.13
1304036--1304073	20	1.9	20	94	0	67	68	5	0	26	1.11
1304035--1304074	14	2.9	14	82	10	55	70	5	0	25	1.08
1304036--1304077	11	4.0	11	75	12	52	69	4	0	26	1.08
1304035--1304077	20	2.2	20	83	4	61	69	4	0	25	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304243--1304313	35	2.1	34	82	12	85	71	5	0	22	1.06
1309130--1309266	50	2.8	49	87	3	186	27	18	13	40	1.88
1311609--1311870	78	3.3	79	84	1	319	28	24	14	33	1.94
1311830--1311899	28	2.5	29	83	4	81	28	28	12	30	1.93
1311752--1311979	107	2.1	108	85	7	304	28	26	13	32	1.93
1311857--1312456	79	7.7	78	74	9	398	27	24	13	34	1.93
1311671--1312023	186	1.9	186	84	2	467	28	25	13	32	1.93
1312014--1312068	28	1.9	29	88	3	85	20	20	18	41	1.90

Tables:   1   2   3   4   5   6   7   8   9

The End!