genome.fa.s332.2.7.7.80.10.50.1000.9.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: Scaffold332
Parameters: 2 7 7 80 10 50 1000
Length:  2744988

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  9  of  17  ( 1993 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)
1184580--1184605	13	2.0	13	100	0	52	38	15	15	30	1.88
1184558--1184625	33	2.1	32	91	2	109	32	13	19	35	1.90
1185277--1185313	19	1.9	19	94	0	65	35	32	0	32	1.58
1187004--1187044	22	2.0	21	86	13	59	41	4	21	31	1.74
1187176--1187200	13	1.9	13	100	0	50	32	20	16	32	1.94
1192126--1192150	13	1.9	13	100	0	50	36	16	16	32	1.90
1192213--1192237	13	1.9	13	100	0	50	32	16	16	36	1.90
1192246--1192426	52	3.5	52	97	0	335	34	18	17	28	1.94
1196911--1196978	33	2.1	32	86	2	91	32	13	19	35	1.90
1197050--1197074	13	1.9	13	100	0	50	36	16	16	32	1.90
1199567--1199618	13	4.3	12	76	16	54	1	21	0	76	0.87
1199567--1199617	24	2.2	23	86	10	68	1	21	0	76	0.88
1199729--1199778	20	2.5	20	76	23	61	14	12	2	72	1.22
1200122--1200511	165	2.4	164	81	5	421	51	8	7	32	1.61
1200267--1200628	165	2.2	165	79	6	394	53	8	8	29	1.61
1203262--1203709	159	2.8	159	80	6	505	28	25	11	34	1.90
1203229--1203732	160	3.2	158	80	3	539	28	26	10	34	1.89
1203223--1203709	80	6.1	79	79	7	432	28	25	11	34	1.90
1203586--1203805	78	2.8	77	77	8	203	24	29	13	33	1.93
1207235--1207371	51	2.7	51	87	3	186	43	14	10	31	1.80
1207405--1207458	21	2.5	22	76	8	58	35	12	9	42	1.75
1208314--1208387	20	3.7	20	81	3	103	35	13	20	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208332--1208407	21	3.7	21	80	3	100	42	11	17	28	1.84
1208314--1208407	41	2.3	41	98	0	179	39	12	18	29	1.88
1208446--1208471	13	2.0	13	100	0	52	38	15	15	30	1.88
1212518--1212548	15	2.1	15	93	0	53	48	16	22	12	1.80
1214565--1214642	20	3.6	21	76	15	79	25	14	14	46	1.82
1214629--1214667	13	3.0	13	96	0	69	30	17	15	35	1.91
1217111--1217184	20	3.7	20	81	3	103	35	13	20	31	1.91
1217129--1217204	21	3.7	21	80	3	100	42	11	17	28	1.84
1217111--1217204	41	2.3	41	98	0	179	39	12	18	29	1.88
1217243--1217268	13	2.0	13	100	0	52	38	15	15	30	1.88
1223743--1223773	2	15.5	2	93	0	53	3	48	0	48	1.17
1228737--1228791	27	2.1	27	93	3	94	23	20	18	38	1.93
1233335--1233369	19	1.9	19	88	11	56	25	8	20	45	1.79
1236589--1236631	3	14.3	3	100	0	86	32	0	0	67	0.91
1236937--1236968	16	2.0	16	93	0	55	40	0	12	46	1.42
1244963--1245616	42	15.6	40	73	9	392	18	27	20	33	1.96
1244953--1245616	84	7.9	83	78	6	606	19	28	19	33	1.96
1244952--1245616	126	5.3	124	77	6	543	19	27	19	33	1.96
1246361--1246430	36	1.9	36	88	0	104	38	31	12	17	1.87
1246447--1246542	41	2.3	41	80	3	113	35	30	18	15	1.92
1246604--1246834	61	3.8	61	77	3	223	45	26	18	9	1.80
1246611--1246835	122	1.8	122	84	1	308	44	26	18	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251054--1251109	19	2.9	19	86	2	76	30	16	14	39	1.88
1251154--1251184	13	2.4	13	94	0	53	32	19	9	38	1.84
1253319--1253373	3	18.7	3	74	10	51	63	7	0	29	1.21
1256938--1256983	20	2.2	21	88	7	76	34	34	15	15	1.89
1259669--1259701	3	11.0	3	100	0	66	66	0	33	0	0.92
1260852--1260878	13	2.1	13	100	0	54	29	14	18	37	1.91
1261281--1261313	14	2.5	13	90	9	57	6	3	90	0	0.52
1263660--1263691	2	16.0	2	93	0	55	53	0	46	0	1.00
1280185--1280216	4	8.0	4	100	0	64	25	0	0	75	0.81
1280506--1280576	26	2.7	26	75	10	65	45	0	1	53	1.09
1280548--1280651	47	2.3	44	80	16	124	51	0	0	47	1.07
1281109--1281163	20	2.7	21	85	2	76	41	14	16	27	1.87
1281215--1281240	13	2.0	13	100	0	52	30	15	15	38	1.88
1281195--1281262	33	2.1	32	91	2	109	35	19	13	32	1.90
1287390--1287423	13	2.6	13	95	0	59	29	14	20	35	1.93
1287558--1287598	22	2.0	20	86	13	57	31	21	4	41	1.74
1289280--1289324	22	2.0	22	87	8	65	35	2	28	33	1.70
1289716--1289761	21	2.1	21	84	11	58	41	6	13	39	1.70
1289890--1289944	20	2.7	21	85	2	76	41	14	16	27	1.87
1289977--1290028	20	2.7	20	87	3	70	36	21	13	28	1.91
1290917--1292078	414	2.7	414	83	7	1382	42	3	7	46	1.49
1293035--1293205	87	2.0	87	92	0	288	31	9	22	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293158--1293252	34	2.8	34	85	4	120	33	12	22	31	1.91
1293154--1293277	35	3.6	34	82	9	135	30	12	23	33	1.91
1293838--1294667	421	2.0	421	97	0	1561	38	18	20	22	1.93
1295264--1295315	21	2.4	22	78	15	63	59	1	23	15	1.46
1296457--1296508	18	2.9	18	82	2	61	36	0	1	61	1.07
1301231--1301269	13	3.0	13	80	0	51	38	15	12	33	1.85
1301402--1301538	53	2.6	53	92	1	229	27	17	18	37	1.93
1301508--1301578	20	3.5	20	77	11	74	29	14	16	39	1.88
1301618--1301658	21	2.0	21	85	9	57	39	9	12	39	1.76
1303950--1304012	32	1.9	32	87	9	92	36	14	19	30	1.91
1308216--1308287	28	2.6	28	71	8	74	12	19	6	61	1.54
1308109--1308473	181	2.0	180	88	1	534	25	15	8	50	1.72
1308394--1308481	28	3.2	27	74	7	79	15	17	6	60	1.56
1309462--1309733	52	5.3	51	87	3	343	29	13	13	43	1.82
1310200--1310234	13	2.6	14	86	9	54	60	31	0	8	1.27
1316729--1316806	30	2.5	31	83	2	95	28	16	8	46	1.77
1316793--1316886	20	4.7	20	88	5	129	32	14	9	42	1.79
1317794--1317841	21	2.4	22	80	16	59	22	22	10	43	1.84
1328853--1328877	11	2.3	11	100	0	50	8	28	24	40	1.83
1331480--1331505	13	2.0	13	100	0	52	30	15	15	38	1.88
1331460--1331523	33	2.0	32	90	3	101	26	14	20	39	1.90
1331515--1331550	18	2.0	18	100	0	72	50	16	11	22	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331583--1331678	20	4.8	20	75	6	77	29	13	17	39	1.88
1332080--1332138	29	2.0	29	96	0	109	35	28	3	32	1.74
1332851--1332889	21	1.9	20	94	5	69	35	15	12	35	1.86
1332967--1332992	13	2.0	13	100	0	52	38	15	15	30	1.88
1333036--1333061	13	2.0	13	100	0	52	30	15	15	38	1.88
1334371--1334397	13	2.1	13	100	0	54	40	14	14	29	1.86
1343100--1343144	20	2.3	20	84	3	56	31	15	20	33	1.93
1350013--1350069	22	2.5	23	80	2	62	77	15	3	3	1.05
1350310--1350356	5	9.2	5	84	13	60	78	19	2	0	0.85
1350311--1350355	21	2.1	21	88	8	65	82	15	2	0	0.77
1351283--1351813	30	17.2	30	78	7	449	23	28	15	33	1.95
1351292--1351870	62	9.4	60	78	7	414	23	28	15	32	1.95
1351283--1351815	92	5.8	91	81	5	513	23	28	15	33	1.94
1351788--1351880	33	2.9	32	88	4	136	21	27	12	37	1.90
1351919--1352018	32	3.1	32	85	5	137	19	31	13	37	1.89
1352107--1352196	43	2.1	43	87	0	126	26	25	16	31	1.97
1352362--1352429	21	3.2	20	66	25	50	27	27	14	29	1.95
1352349--1352847	49	10.9	43	71	16	276	25	27	17	29	1.97
1352206--1352657	182	2.5	181	86	3	631	26	26	17	29	1.97
1352482--1352987	49	10.6	48	71	9	351	24	25	17	32	1.97
1352206--1352983	92	8.3	93	76	9	560	25	26	17	31	1.97
1352618--1352986	187	2.0	187	92	1	623	24	25	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353854--1353879	13	2.0	13	100	0	52	30	15	15	38	1.88
1355405--1355430	13	2.0	13	100	0	52	38	15	15	30	1.88
1355383--1355450	33	2.1	32	89	8	102	33	13	17	35	1.89
1355484--1355534	20	2.5	20	90	0	75	29	15	15	39	1.89
1355522--1355546	13	1.9	13	100	0	50	36	16	16	32	1.90
1357833--1357873	22	2.0	21	86	13	59	41	4	21	31	1.74
1358005--1358029	13	1.9	13	100	0	50	32	20	16	32	1.94
1361847--1361975	52	2.5	52	93	0	222	30	17	17	34	1.93
1361847--1361995	52	2.9	51	87	4	210	31	16	18	33	1.93
1361984--1362008	13	1.9	13	100	0	50	36	16	16	32	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17