genome.fa.s75.2.7.7.80.10.50.1000.8.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: Scaffold75
Parameters: 2 7 7 80 10 50 1000
Length:  1998514

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1375 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)
1132168--1132238	32	2.2	32	97	0	133	36	18	12	32	1.88
1143664--1143730	2	34.0	2	72	14	50	52	2	1	43	1.25
1144858--1144907	26	2.0	25	84	4	64	46	0	2	52	1.12
1150184--1150225	20	2.1	20	82	8	50	57	7	0	35	1.26
1150210--1150251	18	2.3	19	84	12	52	45	11	0	42	1.41
1150334--1150537	113	1.8	112	85	7	288	55	3	4	36	1.38
1150317--1150554	113	2.1	113	76	8	243	55	4	5	35	1.41
1153264--1153302	20	2.0	20	100	0	78	30	15	23	30	1.95
1153840--1153872	2	16.5	2	100	0	66	51	0	0	48	1.00
1154846--1154877	3	11.0	3	93	6	57	31	0	0	68	0.90
1156008--1156041	8	4.2	8	92	0	50	0	5	2	91	0.51
1156392--1156784	153	2.6	154	81	6	455	52	7	6	33	1.56
1156700--1156761	30	2.2	28	85	8	81	58	6	0	35	1.24
1156392--1156855	153	3.0	153	81	5	426	52	7	6	32	1.57
1164943--1164978	17	2.1	17	89	0	54	83	0	16	0	0.65
1171391--1171463	36	2.1	34	87	5	101	72	8	12	6	1.27
1171733--1171760	14	2.0	14	100	0	56	85	14	0	0	0.59
1172810--1173371	27	20.6	27	92	2	935	22	35	14	28	1.93
1172810--1173371	109	5.1	109	93	2	941	22	35	14	28	1.93
1172810--1173371	82	6.9	81	93	1	935	22	35	14	28	1.93
1172874--1174124	32	42.6	28	89	4	605	26	34	17	21	1.96
1173416--1174168	32	24.2	32	91	3	1109	30	33	18	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174201--1174319	49	2.5	47	80	9	127	19	29	22	28	1.98
1175414--1175449	17	2.1	17	89	0	54	83	0	16	0	0.65
1175820--1175850	2	15.5	2	93	0	53	45	0	3	51	1.17
1187131--1187213	43	2.0	42	80	7	96	44	1	6	48	1.35
1187261--1187290	14	2.1	14	93	0	51	43	6	0	50	1.28
1187496--1187540	6	7.5	6	92	0	63	20	2	0	77	0.87
1195281--1195331	26	2.0	26	88	0	75	23	9	17	49	1.77
1198179--1198203	12	2.1	12	100	0	50	32	16	0	52	1.44
1202519--1202561	18	2.3	19	92	4	70	83	0	13	2	0.74
1206545--1206579	18	1.9	18	94	0	61	0	65	0	34	0.93
1206591--1206635	3	15.0	3	95	0	81	2	33	0	64	1.06
1207823--1207851	2	14.5	2	100	0	58	48	0	0	51	1.00
1208753--1208848	42	2.5	37	78	20	106	38	3	0	58	1.14
1208790--1208916	18	6.5	17	69	26	67	43	0	0	55	1.05
1208767--1208861	42	2.3	42	87	10	133	37	3	0	58	1.14
1208830--1208948	58	2.0	59	96	1	222	42	0	0	57	0.99
1208838--1208917	38	2.0	40	83	4	101	43	0	0	56	0.99
1208726--1208933	97	2.1	95	82	12	246	41	1	0	56	1.08
1209018--1209068	22	2.3	23	83	10	70	52	0	0	47	1.00
1209929--1210018	46	2.0	46	90	0	144	54	4	2	38	1.33
1213410--1213452	21	2.0	21	90	0	68	20	9	16	53	1.70
1213647--1213730	37	2.3	37	83	4	98	46	15	9	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215209--1215387	51	3.5	51	85	2	236	32	11	27	28	1.91
1214964--1215274	79	3.9	81	80	5	339	31	14	27	26	1.95
1215205--1215387	102	1.8	101	87	3	278	32	11	28	27	1.91
1217692--1217761	33	2.1	33	97	0	131	40	12	18	28	1.88
1217674--1217778	53	2.0	53	85	7	142	40	13	17	29	1.87
1217674--1217778	20	5.6	19	75	19	96	40	13	17	29	1.87
1217711--1217741	13	2.4	13	100	0	62	38	16	16	29	1.90
1217796--1217820	13	1.9	13	100	0	50	32	16	20	32	1.94
1217803--1217841	20	2.0	20	94	0	69	43	15	12	28	1.83
1220547--1220587	20	2.1	19	86	4	55	24	2	0	73	0.96
1220906--1220973	29	2.4	27	76	9	66	35	8	7	48	1.62
1222155--1222347	51	3.8	51	82	5	221	30	5	16	47	1.70
1222152--1222347	102	1.9	102	85	4	270	30	5	16	47	1.70
1224903--1225311	153	2.7	149	77	7	401	42	17	12	27	1.86
1227205--1227260	28	2.0	28	82	6	69	42	7	3	46	1.48
1228900--1229043	28	5.0	28	71	9	103	41	4	20	33	1.73
1228968--1229039	30	2.5	28	82	8	90	40	2	16	40	1.63
1232795--1232846	20	2.5	21	84	3	61	36	15	7	40	1.76
1233429--1233469	2	20.5	2	100	0	82	51	0	0	48	1.00
1233725--1233863	51	2.7	51	92	0	224	28	15	12	43	1.83
1233832--1233876	20	2.2	20	92	0	72	26	17	11	44	1.82
1236008--1236213	97	2.1	97	81	3	227	28	20	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238242--1238275	2	17.0	2	87	0	50	50	0	0	50	1.00
1240050--1240104	21	2.8	20	83	8	60	52	16	7	23	1.68
1247445--1247469	13	1.9	13	100	0	50	36	16	16	32	1.90
1247425--1247488	32	2.0	33	96	3	121	34	12	18	34	1.89
1247424--1247507	19	4.7	19	80	18	108	33	11	17	36	1.87
1247581--1247754	52	3.3	52	96	0	312	35	18	18	27	1.95
1254147--1254196	26	2.0	25	88	11	75	46	0	2	52	1.12
1254196--1254248	19	2.7	19	75	21	56	37	0	0	62	0.96
1254398--1254458	12	5.2	12	82	9	65	50	3	0	45	1.17
1254421--1254461	21	1.9	22	95	5	75	46	2	0	51	1.14
1254415--1254495	15	5.3	15	75	15	60	45	2	0	51	1.14
1258028--1258072	3	15.3	3	95	4	83	68	0	0	31	0.89
1259541--1259580	15	2.7	15	82	17	57	47	0	2	50	1.14
1260721--1260764	15	2.6	18	82	13	58	29	2	13	54	1.51
1262555--1262597	19	2.4	17	75	14	50	46	6	25	20	1.76
1267202--1267257	21	2.8	21	77	20	66	66	8	1	23	1.30
1267202--1267258	20	2.9	20	76	21	66	64	8	1	24	1.31
1267514--1267553	20	2.0	21	90	5	64	40	17	2	40	1.63
1274580--1274669	37	2.3	40	77	13	105	36	12	16	34	1.86
1274592--1274685	37	2.5	37	82	5	109	31	13	14	39	1.86
1279419--1279471	23	2.3	23	93	0	88	39	0	9	50	1.35
1283176--1283215	2	20.0	2	89	0	62	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284124--1284179	28	2.0	28	96	0	103	55	0	0	44	0.99
1285076--1285134	18	3.1	18	76	16	57	66	5	3	25	1.28
1285071--1285133	27	2.3	27	81	13	67	69	4	3	22	1.21
1285162--1285212	24	2.1	24	92	0	84	52	1	3	41	1.31
1285123--1285249	55	2.3	55	85	5	159	49	3	3	42	1.39
1284758--1285606	421	2.0	421	96	0	1545	51	6	9	33	1.59
1285787--1285833	15	3.1	15	76	11	51	76	4	2	17	1.04
1286912--1286955	20	2.1	21	87	4	63	47	0	0	52	1.00
1286895--1286955	21	2.9	21	80	7	70	45	0	1	52	1.10
1287795--1287860	25	2.5	25	78	7	60	63	3	6	27	1.32
1287787--1287932	58	2.5	56	75	15	136	62	2	6	29	1.31
1290021--1290129	56	1.9	56	86	0	155	36	11	32	19	1.88
1290638--1290686	16	3.1	16	82	5	55	46	12	2	38	1.53
1290778--1290994	109	2.0	109	89	3	330	39	9	12	38	1.75
1298155--1298197	18	2.5	17	84	3	59	46	0	2	51	1.13
1299339--1299383	21	2.1	21	91	0	72	33	13	11	42	1.79
1300175--1300245	31	2.3	31	90	2	115	29	36	2	30	1.72
1305309--1305368	21	3.1	19	79	11	77	48	3	0	48	1.18
1305312--1305375	19	3.2	20	72	14	62	50	3	0	46	1.17
1305861--1305893	15	2.1	16	88	5	50	30	3	0	66	1.06
1309846--1309967	16	7.8	16	67	18	60	36	1	0	60	1.12
1310421--1310455	18	2.1	18	89	10	56	25	0	5	68	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310412--1310451	21	2.0	19	85	9	53	27	0	5	67	1.11
1310863--1310928	6	11.5	6	88	6	75	31	6	0	62	1.20
1310867--1310942	12	6.3	12	83	13	86	31	9	0	59	1.29
1310869--1310920	15	3.2	16	79	15	61	30	5	0	63	1.18
1311080--1311118	20	2.0	19	85	14	53	51	0	0	48	1.00
1312706--1312776	20	3.4	21	79	16	76	49	1	0	49	1.09
1312706--1312779	23	3.5	22	74	25	70	48	1	0	50	1.09
1313064--1313126	33	1.9	33	86	0	90	17	31	1	49	1.56
1315362--1315395	13	2.6	13	90	0	50	38	5	41	14	1.70
1315486--1315559	27	2.7	27	85	6	96	48	21	4	25	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12