genome.fa.s710.2.7.7.80.10.50.1000.5.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: scaffold180
Parameters: 2 7 7 80 10 50 1000
Length:  1398530

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 610 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)
1108294--1108379	44	1.9	44	85	4	118	48	2	4	44	1.36
1108824--1108926	4	25.8	4	100	0	206	50	24	0	25	1.49
1109063--1109091	6	4.8	6	100	0	58	51	13	0	34	1.42
1110319--1110416	47	2.1	47	86	0	133	45	2	8	43	1.45
1111036--1111064	15	1.9	15	100	0	58	34	37	0	27	1.57
1111316--1111982	113	5.9	113	88	2	874	28	24	22	24	2.00
1112188--1112234	25	1.9	24	86	4	67	63	2	8	25	1.34
1113192--1113243	10	4.8	10	76	17	50	75	1	7	15	1.12
1113994--1114296	44	6.8	44	70	11	177	30	21	18	29	1.97
1114160--1114886	143	5.0	142	82	5	855	27	21	20	30	1.98
1114750--1114865	45	2.6	44	79	4	117	23	24	20	31	1.98
1126726--1126825	43	2.3	43	82	5	112	25	29	16	30	1.96
1126929--1126962	15	2.3	15	89	0	50	58	29	2	8	1.43
1127245--1127292	21	2.3	21	88	0	69	4	45	18	31	1.68
1131308--1131488	90	2.0	90	97	0	344	33	23	18	24	1.97
1132893--1132954	26	2.4	25	86	2	79	38	3	16	41	1.64
1133240--1133359	9	13.3	9	66	16	61	32	0	20	45	1.57
1133267--1133371	25	4.3	25	83	10	119	33	0	21	44	1.53
1134082--1134154	21	3.3	21	68	17	67	58	6	5	28	1.46
1134542--1134645	45	2.3	43	82	11	120	40	19	7	32	1.80
1136668--1136709	15	2.9	15	85	3	59	42	38	0	19	1.51
1137240--1138243	114	8.8	114	91	1	1568	24	21	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145576--1145618	15	2.8	16	82	10	54	65	11	0	23	1.25
1148696--1148720	11	2.3	11	100	0	50	60	0	24	16	1.36
1149485--1149509	13	1.9	13	100	0	50	36	0	8	56	1.29
1149746--1149783	20	1.9	20	84	10	51	21	0	2	76	0.91
1154935--1155147	106	2.0	107	99	0	419	39	15	10	34	1.82
1164199--1164243	24	1.9	23	86	4	63	13	0	26	60	1.34
1167872--1167904	6	5.5	6	89	10	50	36	0	0	63	0.95
1167854--1167902	16	3.0	16	82	8	55	36	0	0	63	0.95
1167909--1168197	142	2.0	142	99	0	569	38	10	16	34	1.82
1167952--1168242	142	2.0	140	85	6	381	40	10	15	32	1.82
1168593--1168690	46	2.2	46	94	1	171	43	19	3	33	1.66
1173209--1173306	46	2.2	46	94	1	171	43	19	3	33	1.66
1177883--1177914	15	2.1	15	94	0	55	68	9	6	15	1.36
1178931--1178999	29	2.4	29	87	2	95	43	0	37	18	1.51
1178931--1179014	29	2.9	28	81	8	89	41	1	38	19	1.59
1179052--1179088	18	2.1	18	94	0	65	27	5	13	54	1.61
1184235--1184273	15	2.6	15	88	8	53	28	35	15	20	1.93
1188595--1188643	20	2.7	18	77	22	57	51	4	2	42	1.32
1199226--1199270	18	2.5	18	85	7	56	28	46	11	13	1.77
1199433--1199477	18	2.5	18	88	0	63	33	17	13	35	1.89
1201327--1201508	91	2.0	91	91	2	294	28	12	19	40	1.87
1213587--1213645	25	2.4	25	97	0	109	45	6	20	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215318--1215343	3	8.7	3	100	0	52	69	0	30	0	0.89
1217366--1217431	1	66.0	1	92	0	96	93	4	0	1	0.38
1217359--1217431	38	2.0	37	94	5	130	91	5	0	2	0.49
1220019--1220095	36	2.3	32	82	8	82	11	11	9	67	1.42
1220971--1221606	45	14.3	45	78	4	491	30	16	22	29	1.96
1220982--1221606	89	7.0	90	83	4	615	30	16	22	30	1.96
1220982--1221606	134	4.7	134	84	2	603	30	16	22	30	1.96
1223089--1223135	3	15.7	3	79	16	53	31	4	0	63	1.13
1225603--1225637	18	2.0	17	88	5	52	54	0	0	45	0.99
1231398--1231436	2	20.0	2	94	5	71	51	0	0	48	1.00
1232142--1232796	328	2.0	328	95	0	1175	33	16	28	20	1.95
1235410--1235860	156	2.9	156	92	1	708	28	14	17	39	1.89
1241634--1241694	30	2.0	30	90	0	95	11	27	34	26	1.91
1243390--1243487	43	2.3	44	76	5	110	36	28	14	20	1.92
1249304--1249331	13	2.2	13	100	0	56	25	25	35	14	1.93
1258233--1258760	44	12.1	45	72	10	359	29	24	16	28	1.97
1258233--1258760	133	4.0	133	86	4	743	29	24	16	28	1.97
1258475--1258724	123	2.0	123	95	0	446	30	24	16	28	1.96
1258536--1258679	79	1.8	77	85	2	198	32	24	15	27	1.95
1258233--1258760	256	2.0	262	87	3	771	29	24	16	28	1.97
1258950--1259041	3	30.7	3	100	0	184	32	0	0	67	0.91
1259509--1259561	26	2.0	27	85	10	74	62	7	13	16	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259518--1259566	26	1.9	26	84	12	66	65	8	10	16	1.46
1269167--1269305	48	2.9	48	100	0	278	25	23	25	25	2.00
1275536--1275575	11	3.5	11	86	3	53	72	0	2	25	0.97
1277444--1277470	2	13.5	2	100	0	54	0	0	48	51	1.00
1279007--1279051	23	2.0	23	90	0	72	57	4	6	31	1.44
1279097--1279275	69	2.6	66	77	10	173	53	5	6	34	1.51
1279924--1279972	22	2.2	21	75	10	53	36	16	6	40	1.73
1280647--1280706	21	2.9	21	85	9	86	26	0	3	70	1.03
1283461--1283518	24	2.3	25	88	8	91	24	8	15	51	1.71
1284471--1284601	66	2.0	66	96	0	244	32	9	22	35	1.87
1284934--1285117	59	3.1	59	72	12	212	41	1	4	52	1.30
1284957--1285147	61	3.2	61	73	11	230	42	1	4	51	1.29
1284879--1285176	120	2.5	120	99	0	587	42	1	3	52	1.25
1284961--1285144	56	3.1	59	71	20	200	42	1	4	51	1.30
1286400--1286438	14	2.9	14	84	3	53	30	0	0	69	0.89
1286405--1286453	3	16.3	3	80	16	57	30	0	2	67	1.02
1289268--1290724	729	2.0	729	97	0	2761	33	14	28	23	1.94
1294920--1294985	28	2.4	27	76	19	64	18	18	1	62	1.41
1298486--1298530	3	15.0	3	100	0	90	66	0	0	33	0.92
1299694--1300073	44	8.6	44	83	4	460	30	16	24	29	1.96
1299694--1300073	89	4.3	88	86	4	442	30	16	24	29	1.96
1299694--1300105	133	3.1	133	88	4	546	29	16	25	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299694--1300105	222	1.9	222	93	1	718	29	16	25	28	1.97
1300113--1300233	44	2.9	42	85	7	156	32	16	23	28	1.96
1301437--1301489	14	3.9	14	82	2	54	24	1	0	73	0.93
1301456--1301504	3	16.3	3	80	16	57	28	0	2	69	1.00
1301439--1301507	12	6.5	11	75	20	58	26	1	1	71	1.03
1301804--1301857	27	2.0	27	100	0	108	37	25	7	29	1.83
1301864--1301901	16	2.4	16	95	0	67	26	34	2	36	1.71
1305673--1305729	29	1.9	29	89	3	87	35	21	15	28	1.94
1307620--1307704	42	2.0	42	97	0	161	38	10	21	29	1.87
1312902--1312930	2	14.5	2	100	0	58	51	0	0	48	1.00
1313438--1313479	17	2.4	18	80	11	52	23	2	7	66	1.28
1314363--1314433	30	2.4	29	80	15	83	38	5	7	49	1.54
1321656--1321689	17	2.0	17	100	0	68	41	23	5	29	1.78
1325665--1325733	18	3.8	18	82	0	93	13	42	2	42	1.58
1326446--1326473	12	2.3	12	100	0	56	28	7	17	46	1.75
1328809--1328848	20	2.0	20	90	0	62	50	12	10	27	1.72
1328797--1328863	34	1.9	35	87	3	100	46	11	8	32	1.72
1328832--1328871	14	2.9	14	84	0	53	42	17	7	32	1.77
1335265--1335294	14	2.1	14	100	0	60	33	16	13	36	1.88
1338328--1338433	20	5.3	20	71	8	81	23	26	16	33	1.96
1338325--1338468	40	3.6	40	85	0	180	23	24	16	35	1.95
1343276--1343326	20	2.4	21	80	9	59	23	25	35	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346887--1346920	15	2.3	15	89	0	50	29	0	2	67	1.05
1352147--1352190	24	1.9	22	100	0	70	43	20	9	27	1.82
1356994--1357050	28	2.0	29	96	3	107	61	0	17	21	1.35
1366669--1366768	33	3.0	33	91	0	146	32	21	19	28	1.97
1380740--1380970	115	2.0	116	99	0	455	42	9	5	42	1.59
1381453--1381483	15	2.1	15	94	5	55	45	25	16	12	1.83
1383672--1383702	15	2.1	15	94	5	55	45	25	16	12	1.83
1384759--1384803	17	2.7	16	83	10	63	24	4	0	71	1.05
1384794--1384828	15	2.2	17	90	10	56	34	2	0	62	1.10
1384842--1384881	18	2.2	17	86	8	53	20	0	7	72	1.08

Tables:   1   2   3   4   5   6