genome.fa.s247.2.7.7.80.10.50.1000.9.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  9  of  29  ( 3470 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)
1079052--1079090	20	2.0	19	90	5	60	43	0	0	56	0.99
1080276--1080309	16	2.1	16	88	0	50	29	2	20	47	1.65
1082927--1082969	22	2.0	22	90	0	68	37	4	6	51	1.50
1083143--1083194	16	3.2	16	80	0	50	7	9	28	53	1.61
1090886--1091387	250	2.0	250	91	1	819	36	13	14	35	1.85
1091599--1091631	3	11.0	3	100	0	66	66	0	33	0	0.92
1093010--1093074	32	2.0	32	93	0	112	38	16	7	36	1.78
1093172--1093223	28	1.9	27	88	7	79	25	34	15	25	1.95
1093320--1093599	81	3.5	81	76	9	299	30	25	8	35	1.87
1093182--1093597	81	5.2	79	74	9	290	28	26	10	34	1.89
1093524--1093649	53	2.4	52	85	4	155	31	25	7	35	1.83
1093445--1093733	132	2.2	132	85	4	379	31	24	7	35	1.84
1093584--1093764	80	2.3	80	82	3	213	30	25	8	34	1.87
1095762--1095796	4	8.8	4	87	0	52	25	0	2	71	1.00
1102754--1102826	20	3.7	20	83	0	101	43	13	12	30	1.81
1109895--1109938	21	2.2	20	88	12	63	84	4	2	9	0.85
1110890--1111442	61	8.8	60	76	8	390	27	24	15	32	1.95
1110947--1111438	126	3.9	125	81	5	494	27	23	16	32	1.96
1110888--1111444	249	2.2	249	81	4	627	27	24	15	32	1.95
1110888--1111286	188	2.1	186	82	4	500	29	24	14	31	1.95
1111397--1111722	69	4.7	68	75	8	293	26	24	14	34	1.94
1111399--1111708	138	2.2	138	81	3	372	27	24	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112958--1112990	11	3.0	11	86	13	50	78	0	18	3	0.87
1113097--1113377	144	2.0	144	97	0	526	28	13	12	45	1.80
1114709--1115016	80	3.8	79	72	7	201	30	26	8	33	1.87
1114709--1115016	161	1.9	160	84	5	417	30	26	8	33	1.87
1114941--1115067	53	2.4	53	79	8	134	31	25	9	33	1.88
1114866--1115142	134	2.1	133	92	0	455	31	25	9	33	1.88
1115000--1115434	81	5.4	80	72	9	321	30	25	10	33	1.90
1114709--1115298	295	2.0	293	85	3	803	30	26	9	33	1.89
1115000--1115441	160	2.7	159	83	4	512	30	25	10	33	1.89
1115000--1115434	80	5.4	79	76	8	342	30	25	10	33	1.90
1122815--1122856	18	2.3	18	88	8	59	78	0	21	0	0.75
1122801--1122856	22	2.5	22	82	11	60	76	0	19	3	0.93
1123029--1123053	13	1.9	13	100	0	50	32	4	8	56	1.47
1123056--1123109	21	2.6	21	72	0	54	44	0	1	53	1.11
1123056--1123160	40	2.6	39	83	10	115	42	0	1	55	1.11
1123075--1123160	13	6.5	13	74	16	72	43	0	1	55	1.07
1123082--1123159	27	2.9	27	78	14	72	41	0	1	57	1.07
1126587--1126611	7	3.6	7	100	0	50	72	0	0	28	0.86
1136886--1137093	79	2.6	78	78	6	213	31	11	26	29	1.92
1137046--1137161	51	2.3	51	81	6	135	31	9	26	31	1.88
1139903--1139965	33	1.9	33	83	0	81	25	12	15	46	1.82
1142292--1142470	51	3.5	51	80	4	175	26	26	12	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142406--1142863	79	5.8	77	80	6	431	28	25	13	32	1.94
1142796--1142918	51	2.4	51	89	2	185	26	26	14	31	1.95
1142850--1142997	79	1.9	79	89	0	233	25	27	16	31	1.96
1142758--1143085	130	2.5	130	89	3	491	26	25	13	33	1.93
1142929--1143048	51	2.4	51	91	0	195	29	27	13	30	1.94
1144122--1144176	20	2.8	20	94	0	92	43	14	14	27	1.84
1151877--1151935	32	1.9	30	83	13	75	59	10	10	20	1.58
1152215--1152240	13	2.0	13	100	0	52	30	15	15	38	1.88
1152194--1152258	32	2.0	33	90	6	105	29	12	15	43	1.83
1154787--1154825	13	3.0	13	84	0	60	38	15	15	30	1.88
1156903--1156933	15	2.1	15	93	0	53	12	22	16	48	1.80
1160997--1161022	13	2.0	13	100	0	52	30	15	15	38	1.88
1160976--1161040	32	2.0	33	90	6	105	29	12	15	43	1.83
1168080--1168126	18	2.6	18	82	0	58	48	2	0	48	1.13
1168114--1168175	23	2.8	22	72	13	63	30	8	4	56	1.49
1168221--1168276	13	4.2	13	75	11	51	41	1	1	55	1.21
1168226--1168307	25	3.2	25	77	11	69	40	1	4	53	1.30
1168317--1168375	27	2.2	28	79	14	70	50	1	0	47	1.11
1168677--1168726	26	2.0	24	81	18	57	62	4	2	32	1.25
1168687--1168734	21	2.3	22	78	10	55	64	4	2	29	1.23
1170810--1170851	2	21.0	2	100	0	84	50	0	0	50	1.00
1178498--1178534	18	2.1	18	100	0	74	16	32	27	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189695--1189723	2	14.5	2	100	0	58	51	0	0	48	1.00
1191847--1191941	28	3.4	27	81	8	111	29	10	15	44	1.80
1192014--1192087	36	2.0	37	84	2	96	18	10	8	62	1.52
1199538--1199564	6	4.5	6	100	0	54	48	0	0	51	1.00
1208172--1208220	23	2.2	23	85	3	64	59	14	8	18	1.59
1208644--1208683	15	2.7	15	88	3	55	0	12	5	82	0.82
1208643--1208682	18	2.2	19	90	4	64	0	12	5	82	0.82
1208642--1208684	19	2.2	20	84	12	63	0	13	4	81	0.84
1209020--1209064	23	2.0	24	82	8	58	4	11	15	68	1.34
1209456--1209505	25	2.0	25	88	0	73	40	10	28	22	1.86
1209715--1209773	3	19.7	3	89	6	93	35	0	1	62	1.05
1210248--1210340	41	2.2	42	84	1	116	37	15	32	15	1.88
1210308--1210596	42	6.9	42	76	4	188	39	12	28	19	1.88
1210328--1210568	84	2.9	84	77	3	234	40	12	27	19	1.88
1210326--1210596	126	2.2	126	80	4	296	40	12	27	19	1.87
1210413--1210596	84	2.2	84	82	5	212	40	12	27	19	1.88
1210718--1211069	44	8.0	44	75	9	258	41	13	23	21	1.89
1210709--1210997	88	3.3	89	77	12	326	41	14	22	21	1.89
1210709--1211069	132	2.7	129	80	8	338	41	13	23	21	1.88
1210709--1211036	88	3.7	87	75	9	301	41	14	22	21	1.89
1214657--1214683	13	2.1	13	100	0	54	44	18	0	37	1.50
1226128--1226191	33	1.9	33	96	0	119	20	15	20	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226182--1226231	25	2.0	25	88	0	73	40	10	28	22	1.86
1226449--1226474	9	2.9	9	100	0	52	23	0	7	69	1.14
1226486--1226520	17	2.1	17	94	0	61	28	20	5	45	1.73
1230629--1230701	34	2.1	34	89	0	110	34	9	34	21	1.86
1236659--1236707	24	2.1	22	82	14	55	42	18	22	16	1.88
1238516--1238548	12	2.8	12	90	4	50	72	0	15	12	1.12
1238533--1238571	18	2.2	18	86	4	53	71	0	7	20	1.10
1251821--1251873	20	2.6	21	72	16	58	22	5	3	67	1.28
1252533--1252563	2	15.5	2	93	0	53	51	0	0	48	1.00
1260740--1261011	137	2.0	138	87	6	392	36	17	17	28	1.93
1261488--1261528	21	1.9	21	90	5	64	78	2	12	7	1.06
1264052--1264078	3	9.0	3	100	0	54	66	0	33	0	0.92
1280964--1280991	6	4.7	6	100	0	56	32	35	0	32	1.58
1284518--1284584	31	2.2	31	80	0	80	32	25	13	28	1.93
1285330--1285748	84	5.1	82	79	7	438	47	13	6	31	1.69
1285330--1285729	169	2.4	163	83	7	470	47	13	7	32	1.70
1288966--1289005	20	2.0	21	85	5	55	30	0	17	52	1.45
1290679--1290769	42	2.2	42	90	4	139	50	0	37	12	1.40
1290690--1290762	24	3.3	23	70	21	75	46	0	39	13	1.44
1290723--1290790	33	2.1	33	91	0	109	44	1	42	11	1.50
1296782--1296814	15	2.1	17	88	11	52	42	0	6	51	1.26
1296782--1296833	17	3.0	17	83	13	54	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)
1298063--1298102	2	20.5	2	94	5	73	52	0	0	47	1.00
1298255--1298279	2	12.5	2	100	0	50	48	0	0	52	1.00
1298462--1298499	19	2.0	20	89	5	60	44	0	0	55	0.99
1298463--1298505	19	2.3	19	84	8	52	41	2	0	55	1.12
1304893--1304957	31	2.1	31	85	2	85	43	0	27	29	1.56
1305429--1305485	15	3.2	18	76	21	57	57	0	1	40	1.09
1305428--1305474	20	2.3	20	85	3	58	55	0	2	42	1.12
1305553--1305618	29	2.3	29	82	7	82	43	1	0	54	1.09
1313817--1313850	17	2.0	17	88	11	52	58	8	0	32	1.29
1313874--1313943	32	2.2	31	82	10	79	58	5	2	32	1.36

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29