genome.fa.s364.2.7.7.80.10.50.1000.6.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: Scaffold364
Parameters: 2 7 7 80 10 50 1000
Length:  2089110

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

This is table  6  of  10  ( 1160 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)
1128076--1128135	30	2.0	30	84	9	79	38	15	1	45	1.56
1128879--1128903	2	12.5	2	100	0	50	48	0	0	52	1.00
1139824--1140063	120	2.0	120	99	0	471	54	12	5	28	1.58
1140581--1140638	28	2.1	28	93	6	100	44	0	0	55	0.99
1140584--1140640	16	3.8	16	72	25	61	42	0	0	57	0.98
1140591--1140677	28	3.0	29	77	16	83	50	0	0	49	1.00
1140633--1140687	20	2.7	19	78	10	56	58	0	0	41	0.98
1140629--1140679	20	2.6	19	76	11	59	54	0	0	45	0.99
1140725--1140778	20	2.8	20	77	8	58	38	0	0	61	0.96
1141406--1141461	2	28.0	2	85	7	78	50	1	46	1	1.22
1145590--1145667	29	2.8	29	71	9	74	46	0	0	53	1.00
1147627--1147665	2	19.5	2	100	0	78	48	0	0	51	1.00
1148007--1148036	9	3.3	9	100	0	60	73	0	0	26	0.84
1152745--1152772	2	14.0	2	100	0	56	50	0	0	50	1.00
1153203--1153236	2	17.0	2	100	0	68	50	0	0	50	1.00
1152584--1153969	462	3.0	462	98	0	2681	33	17	12	36	1.88
1162427--1162498	12	5.9	12	77	12	76	62	0	2	34	1.10
1162476--1162543	31	2.2	31	89	5	102	51	0	0	48	1.00
1162989--1163032	3	14.7	3	95	0	79	63	0	2	34	1.07
1163709--1163740	2	16.0	2	100	0	64	50	0	0	50	1.00
1165328--1165374	15	3.2	15	78	3	51	51	0	0	48	1.00
1166076--1166213	12	11.6	12	65	24	53	61	0	0	37	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166054--1166201	49	2.9	49	73	16	126	58	0	0	40	1.03
1166074--1166146	28	2.7	28	82	14	82	64	0	1	34	1.02
1166156--1166193	20	1.9	20	88	0	58	55	0	0	44	0.99
1166071--1166207	45	3.0	42	77	16	116	59	0	0	39	1.02
1166081--1166210	18	6.8	20	68	18	64	60	0	0	38	1.02
1166169--1166213	23	2.0	21	87	8	63	64	0	0	35	0.94
1166167--1166213	11	4.2	11	79	15	51	63	0	0	36	0.94
1175135--1175184	2	25.5	2	84	11	59	56	2	0	42	1.11
1175141--1175178	14	2.8	13	92	7	67	57	2	0	39	1.12
1175961--1176053	11	8.7	11	71	17	72	35	3	1	60	1.20
1175956--1176053	19	5.3	19	67	20	64	35	3	1	60	1.19
1175957--1176027	31	2.3	31	78	11	74	33	1	0	64	1.02
1176350--1176393	19	2.5	17	85	7	52	6	18	0	75	1.02
1181806--1181880	24	3.4	24	68	21	81	36	6	24	33	1.81
1181798--1181879	42	2.0	42	100	0	164	34	7	23	35	1.82
1182286--1182320	16	2.1	17	89	5	54	11	22	22	42	1.85
1185880--1185944	23	3.2	23	68	32	74	49	6	15	29	1.68
1185872--1185944	38	1.9	38	100	0	146	50	5	15	28	1.66
1188553--1188580	14	2.0	14	100	0	56	14	21	21	42	1.88
1191831--1191859	2	14.5	2	100	0	58	51	0	0	48	1.00
1192213--1192397	34	5.5	34	88	3	266	40	27	7	25	1.82
1192213--1192397	102	1.8	101	94	1	325	40	27	7	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196811--1196993	34	5.4	34	88	3	262	39	27	7	25	1.82
1196811--1196993	102	1.8	101	93	1	321	39	27	7	25	1.82
1199267--1199296	3	10.0	3	100	0	60	66	0	0	33	0.92
1200170--1200201	3	10.7	3	100	0	64	65	0	0	34	0.93
1200408--1200453	23	2.0	22	87	4	65	54	0	0	45	0.99
1202003--1202092	24	3.7	26	88	4	91	57	3	0	38	1.15
1202011--1202092	13	6.6	13	65	10	55	60	3	0	35	1.14
1202024--1202092	24	2.9	24	93	0	111	59	4	0	36	1.17
1202036--1202081	12	3.9	12	78	13	51	60	6	0	32	1.22
1206615--1206657	22	2.0	22	85	0	59	53	9	23	13	1.69
1208338--1208362	11	2.3	11	100	0	50	36	28	8	28	1.85
1211342--1211454	36	3.1	36	78	10	115	55	0	1	41	1.16
1220564--1220628	29	2.3	27	82	10	76	63	0	1	35	1.04
1235888--1235923	15	2.4	15	85	0	54	47	0	0	52	1.00
1235927--1235991	30	2.3	29	82	15	82	43	3	0	53	1.16
1245455--1245513	24	2.3	26	77	5	68	42	0	1	55	1.09
1245470--1245503	12	2.7	13	86	4	52	32	0	0	67	0.91
1245680--1245717	15	2.6	16	84	16	55	55	0	0	44	0.99
1245682--1245733	21	2.6	21	74	17	56	57	0	0	42	0.98
1245688--1245802	16	7.7	15	75	16	80	54	0	0	43	1.12
1245777--1245812	16	2.2	16	90	0	54	63	0	0	36	0.94
1247861--1247893	2	16.5	2	93	0	57	45	0	3	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248023--1248064	22	1.9	22	85	9	59	54	0	2	42	1.13
1248242--1248280	15	2.7	15	84	4	53	69	2	0	28	1.02
1251260--1251358	8	12.0	8	70	10	65	57	2	0	40	1.10
1251271--1251342	19	3.5	20	75	17	69	59	2	0	37	1.12
1253640--1253681	18	2.3	18	100	0	84	57	19	11	11	1.65
1256134--1256199	23	2.9	22	68	20	55	51	0	0	48	1.00
1256146--1256227	33	2.4	35	83	6	105	51	1	0	47	1.08
1260397--1260473	26	3.1	25	68	21	72	35	11	19	33	1.88
1260379--1260473	48	2.0	48	95	0	172	33	12	18	34	1.89
1260379--1260450	22	3.0	23	65	21	58	33	12	16	37	1.86
1261207--1261467	143	1.8	143	87	0	387	34	8	17	39	1.80
1262160--1262194	18	1.9	18	88	0	52	65	5	5	22	1.36
1268848--1269036	96	2.0	96	89	2	290	37	12	17	33	1.87
1271536--1271561	3	8.7	3	100	0	52	65	0	0	34	0.93
1276543--1276584	23	1.9	21	85	9	57	45	0	4	50	1.23
1276570--1276637	20	3.5	19	74	8	66	47	0	0	52	1.00
1276589--1276672	26	3.1	27	72	10	73	51	0	0	48	1.00
1276706--1276755	26	1.9	26	83	0	64	52	2	0	46	1.12
1276706--1276764	15	3.9	15	78	14	59	50	1	0	47	1.11
1277469--1277515	24	2.0	24	83	8	60	46	0	2	51	1.13
1278115--1278157	12	3.4	12	78	12	50	41	0	0	58	0.98
1278247--1278323	16	4.8	16	81	15	72	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278377--1278427	23	2.2	24	85	3	68	45	0	0	54	0.99
1278835--1278876	18	2.3	19	88	12	70	57	0	0	42	0.99
1279652--1279682	16	1.9	16	93	0	53	51	0	0	48	1.00
1279660--1279684	11	2.3	11	100	0	50	52	0	0	48	1.00
1280678--1280751	9	7.8	10	69	20	52	45	0	0	54	1.00
1282057--1282097	21	1.9	22	85	5	57	60	0	2	36	1.10
1288233--1288271	2	19.5	2	100	0	78	51	0	0	48	1.00
1295569--1295611	20	2.2	20	84	12	54	76	2	0	20	0.89
1295569--1295611	19	2.2	20	83	4	52	76	2	0	20	0.89
1305813--1305849	2	18.5	2	100	0	74	0	0	48	51	1.00
1306378--1306408	3	10.3	3	92	0	53	64	0	3	32	1.09
1306650--1306685	2	18.0	2	100	0	72	50	0	0	50	1.00
1317866--1318145	101	2.8	101	84	4	343	35	21	10	32	1.87
1319418--1319448	2	15.5	2	100	0	62	0	0	48	51	1.00
1321205--1321259	20	2.6	21	81	18	62	60	0	0	40	0.97
1321195--1321247	27	1.9	28	84	3	72	58	0	0	41	0.98
1321838--1321894	15	3.6	15	77	15	53	54	0	0	45	0.99
1324206--1324239	16	2.1	16	100	0	68	41	5	0	52	1.25
1327642--1327717	21	3.6	21	74	12	66	56	1	0	42	1.07
1329009--1329046	3	12.7	3	100	0	76	65	0	0	34	0.93
1329696--1329742	22	2.1	22	84	0	58	42	12	2	42	1.55
1329860--1329929	32	2.2	33	89	2	106	44	0	5	50	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329860--1329929	16	4.3	19	68	27	54	44	0	5	50	1.26
1336187--1336242	19	2.9	19	70	19	53	53	1	0	44	1.11
1336828--1336888	30	2.1	29	81	9	70	42	4	3	49	1.40
1337597--1337645	11	4.4	11	86	2	62	59	2	2	36	1.21
1339090--1339145	24	2.2	27	78	15	66	37	3	0	58	1.15
1339592--1339641	25	2.1	25	85	7	68	42	0	14	44	1.44
1339587--1339644	25	2.3	26	76	8	66	41	0	12	46	1.41
1339677--1339710	14	2.4	14	90	0	50	55	0	0	44	0.99
1349966--1349995	2	15.0	2	100	0	60	50	0	0	50	1.00
1351360--1351404	20	2.3	20	84	3	56	57	0	0	42	0.98

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