genome.fa.s58.2.7.7.80.10.50.1000.8.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: Scaffold58
Parameters: 2 7 7 80 10 50 1000
Length:  1582273

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

This is table  8  of  10  ( 1168 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)
1180284--1180344	31	2.0	31	81	12	74	49	0	1	49	1.10
1180280--1180349	30	2.5	28	72	20	65	54	0	1	44	1.09
1180555--1180590	2	18.0	2	100	0	72	50	0	0	50	1.00
1183535--1183595	28	2.2	28	83	11	74	42	0	0	57	0.98
1183550--1183593	22	2.0	22	82	8	54	43	0	0	56	0.99
1183925--1183957	5	6.6	5	96	0	57	21	0	0	78	0.75
1184178--1184217	20	2.0	20	85	5	53	72	0	0	27	0.85
1185294--1185326	16	2.0	17	88	5	50	54	0	9	36	1.32
1185284--1185369	32	2.6	35	77	12	92	58	0	3	38	1.15
1186300--1186433	18	6.8	20	69	15	59	38	0	0	60	1.02
1186379--1186431	27	2.0	27	85	7	72	30	0	0	69	0.88
1186451--1186484	13	2.6	14	86	13	54	50	0	0	50	1.00
1186444--1186513	21	3.2	22	73	15	65	54	0	1	44	1.09
1186460--1186516	10	5.2	11	75	12	55	57	0	1	40	1.09
1186458--1186537	23	3.6	22	78	8	83	55	0	1	43	1.08
1186458--1186546	23	3.9	23	78	10	69	55	0	1	43	1.07
1191473--1191501	14	2.0	15	93	6	51	44	0	0	55	0.99
1191945--1191991	22	2.1	22	84	7	60	51	0	2	46	1.13
1192757--1192787	6	5.3	6	96	3	55	48	0	0	51	1.00
1202517--1202553	2	18.5	2	100	0	74	51	0	0	48	1.00
1203370--1203408	3	13.0	3	100	0	78	66	0	0	33	0.92
1206810--1206846	6	6.2	6	96	0	56	67	10	0	21	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207359--1207393	2	17.5	2	100	0	70	51	0	48	0	1.00
1210262--1210301	14	2.8	14	88	3	53	50	0	0	50	1.00
1210593--1210855	138	1.9	138	84	0	355	42	6	10	40	1.64
1211160--1211214	21	2.6	21	85	8	67	54	3	1	40	1.28
1211250--1211289	19	2.0	20	85	4	55	72	2	0	25	0.97
1211816--1211854	15	2.7	14	80	7	51	58	0	0	41	0.98
1212102--1212140	15	2.5	16	83	4	53	74	2	5	17	1.12
1215252--1215293	6	7.0	6	88	0	66	28	16	38	16	1.91
1215252--1215293	18	2.3	18	100	0	84	28	16	38	16	1.91
1222619--1222645	2	13.5	2	100	0	54	51	0	0	48	1.00
1222883--1222918	6	6.0	6	90	0	54	50	0	50	0	1.00
1224504--1224579	32	2.4	32	90	0	116	27	10	3	57	1.50
1225124--1225216	15	6.3	15	69	12	50	41	2	1	54	1.19
1226638--1226667	2	15.0	2	92	0	51	46	0	3	50	1.18
1227024--1227064	14	2.6	16	81	11	50	41	2	0	56	1.13
1227003--1227061	20	3.3	18	73	13	59	40	1	0	57	1.09
1227433--1227498	16	4.2	16	72	14	57	40	0	0	59	0.98
1229217--1229300	30	2.8	31	89	3	127	39	5	0	54	1.25
1230798--1230849	13	4.0	13	75	7	52	34	0	0	65	0.93
1230821--1230857	18	2.1	17	95	5	65	24	0	0	75	0.80
1230762--1230860	50	2.0	50	80	7	114	35	1	0	63	1.01
1231409--1231434	6	4.3	6	100	0	52	15	30	19	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237436--1237469	17	2.0	17	88	0	50	35	2	0	61	1.11
1242855--1242933	7	11.0	7	73	17	56	51	3	1	43	1.27
1242916--1242976	27	2.3	26	83	8	70	45	4	4	44	1.46
1252841--1252881	2	20.5	2	94	0	73	51	0	0	48	1.00
1254779--1254814	18	2.0	18	100	0	72	38	5	11	44	1.63
1262261--1262309	11	4.6	11	80	7	57	59	0	0	40	0.98
1262899--1263089	43	4.5	42	71	18	116	38	3	0	57	1.21
1263007--1263079	31	2.4	29	78	13	76	35	5	0	58	1.21
1263109--1263180	28	2.6	28	86	6	94	27	0	2	69	1.02
1263146--1263190	21	2.1	21	84	8	56	31	0	0	68	0.89
1263104--1263183	29	2.8	28	83	11	99	28	0	2	68	1.02
1265148--1265203	23	2.6	21	76	17	62	35	0	1	62	1.06
1265757--1265806	11	4.5	11	77	5	55	60	2	4	34	1.27
1265762--1265805	23	1.9	23	90	0	70	61	2	4	31	1.28
1265794--1265829	19	1.9	18	88	5	54	47	0	5	47	1.25
1266029--1266197	84	2.0	87	81	6	202	40	14	14	30	1.86
1266919--1266956	12	3.2	12	84	0	58	52	18	10	18	1.73
1266923--1266964	18	2.3	18	87	0	57	50	16	11	21	1.77
1269034--1269090	18	3.2	17	81	16	62	56	0	0	43	0.99
1269018--1269062	23	2.1	20	88	12	63	46	0	0	53	1.00
1269025--1269071	23	2.1	22	84	4	58	55	0	0	44	0.99
1271052--1271079	6	4.7	6	100	0	56	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271874--1271912	2	19.5	2	100	0	78	51	0	48	0	1.00
1274000--1274035	11	3.3	11	84	0	54	75	2	0	22	0.94
1273990--1274034	22	2.0	23	91	4	74	68	8	0	22	1.16
1274217--1274284	33	2.1	33	100	0	136	35	11	20	32	1.89
1275967--1275997	2	15.5	2	93	0	53	54	0	0	45	0.99
1285121--1285173	24	2.3	23	83	9	63	54	1	0	43	1.11
1286858--1286906	16	3.1	17	80	16	52	61	2	0	36	1.08
1286864--1286911	17	2.9	18	79	14	50	58	6	0	35	1.23
1287690--1287729	21	1.9	21	84	0	53	47	5	5	42	1.47
1288461--1288494	9	3.7	9	84	7	50	52	0	0	47	1.00
1288515--1288564	23	2.2	23	85	7	66	52	2	6	40	1.38
1291440--1291468	13	2.1	14	93	6	51	0	10	0	89	0.48
1292836--1292878	20	2.0	20	82	8	50	55	2	6	34	1.39
1292962--1293029	20	3.3	20	80	10	84	64	1	1	32	1.11
1292989--1293031	13	3.4	13	77	6	52	65	2	0	32	1.06
1293214--1293255	17	2.2	20	88	12	63	73	9	0	16	1.08
1296666--1296759	27	3.4	27	91	7	136	70	6	2	21	1.20
1298201--1298235	18	1.9	18	88	0	52	37	5	8	48	1.58
1298429--1298454	4	6.5	4	100	0	52	76	0	0	23	0.78
1308011--1308079	32	2.1	33	89	2	104	37	15	10	36	1.82
1308929--1309403	43	10.1	49	82	10	521	31	18	25	24	1.97
1309047--1309408	92	4.0	92	92	3	558	29	17	26	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308938--1309357	135	3.0	138	85	8	534	30	18	25	24	1.98
1308938--1309408	184	2.5	180	87	7	633	30	18	26	24	1.98
1309403--1309572	33	5.2	33	90	3	265	18	15	35	30	1.93
1309403--1309572	65	2.6	65	87	6	254	18	15	35	30	1.93
1309396--1309572	97	1.8	95	91	4	293	18	15	35	30	1.92
1309574--1310170	169	3.5	162	84	8	641	33	12	33	19	1.90
1309554--1310175	100	6.1	99	83	8	604	33	12	33	20	1.90
1309555--1310175	269	2.3	271	89	4	953	33	12	33	20	1.90
1310155--1310397	31	7.9	30	82	9	283	31	16	27	24	1.96
1310172--1310398	93	2.5	93	94	0	393	32	16	27	24	1.96
1311375--1311408	17	2.0	17	88	0	50	0	8	8	82	0.85
1311973--1312893	459	2.0	459	96	0	1698	35	16	22	26	1.94
1312990--1313109	59	2.0	59	98	0	231	31	30	20	17	1.96
1319211--1319279	32	2.1	33	94	2	122	36	17	11	34	1.86
1319235--1319259	13	1.9	13	100	0	50	32	16	16	36	1.90
1320160--1320201	21	2.0	21	85	0	57	45	4	14	35	1.66
1326151--1326189	20	2.0	20	85	10	53	35	0	5	58	1.20
1327672--1327733	13	5.2	13	73	25	64	38	14	14	32	1.86
1327673--1327754	34	2.4	34	97	0	155	37	12	15	34	1.85
1328533--1328639	52	2.1	52	82	3	126	35	14	21	28	1.93
1328838--1329912	49	22.8	49	78	9	1040	31	17	25	24	1.97
1328881--1329912	92	11.0	92	88	4	1404	31	18	26	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329980--1330839	33	26.6	33	72	15	413	32	13	33	21	1.91
1330082--1330882	28	25.1	29	69	20	273	31	13	33	21	1.92
1330177--1330363	95	2.0	94	86	4	259	32	12	33	21	1.91
1329980--1330844	129	6.7	125	79	11	799	32	13	32	21	1.92
1330114--1330874	258	2.9	257	89	4	1092	31	13	33	21	1.92
1330709--1330882	68	2.6	68	81	8	194	33	12	33	20	1.90
1332152--1332196	13	3.5	13	85	14	58	0	0	20	80	0.72
1339086--1339152	34	2.0	33	91	2	107	38	11	14	34	1.84
1339086--1339619	279	1.9	279	96	0	989	32	15	15	36	1.89
1346598--1346673	31	2.5	31	82	8	84	38	2	1	57	1.21

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