genome.fa.s113.2.7.7.80.10.50.1000.8.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

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

This is table  8  of  23  ( 2678 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)
1162483--1162547	33	2.0	33	87	0	94	30	18	15	35	1.92
1162578--1162604	13	2.1	13	100	0	54	40	14	14	29	1.86
1169038--1169094	19	2.9	19	89	2	87	31	17	15	35	1.92
1169124--1169221	33	3.0	32	94	5	153	34	14	18	32	1.91
1169144--1169201	13	4.9	13	72	23	65	36	13	17	32	1.89
1169157--1169222	20	3.7	20	73	26	83	34	12	18	34	1.88
1170734--1170767	3	11.3	3	93	0	59	35	0	35	29	1.58
1174860--1174924	20	3.6	20	73	26	81	33	15	12	38	1.85
1174879--1174938	13	4.1	13	74	25	57	31	15	13	40	1.85
1174860--1174937	33	2.4	33	100	0	156	33	15	12	38	1.85
1174996--1175035	20	2.0	20	85	14	55	32	22	0	45	1.53
1176717--1176760	22	2.0	23	86	4	63	40	2	27	29	1.68
1177303--1177329	13	2.1	13	100	0	54	29	14	14	40	1.86
1177313--1177369	19	2.9	19	84	2	78	29	17	17	35	1.93
1181507--1181557	22	2.3	22	71	18	52	50	9	5	33	1.59
1192749--1192803	13	3.8	13	75	25	56	34	12	18	34	1.89
1192730--1192830	32	3.1	32	94	1	166	34	12	17	34	1.88
1192728--1192825	19	5.8	18	68	28	72	33	13	17	35	1.88
1192884--1193032	52	2.9	51	88	6	194	34	18	16	30	1.93
1197675--1197792	27	4.0	28	79	9	121	20	34	16	28	1.94
1197676--1198284	33	18.7	33	78	11	555	19	33	13	33	1.90
1197676--1198284	100	6.2	100	80	10	561	19	33	13	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197961--1198054	27	3.2	27	85	11	107	19	32	13	34	1.91
1197931--1198055	27	4.1	28	75	19	101	19	32	13	35	1.90
1197828--1198222	196	2.0	193	89	5	600	18	33	13	34	1.89
1197673--1198285	262	2.4	258	84	7	853	19	34	13	33	1.90
1197675--1198284	67	9.4	65	79	12	585	19	33	13	33	1.90
1198287--1198549	32	8.0	34	84	10	316	28	32	18	20	1.96
1198292--1198546	65	3.9	65	88	5	356	29	32	18	20	1.96
1198549--1199191	49	13.8	48	81	11	707	25	24	18	32	1.97
1198549--1199142	92	6.5	92	90	3	876	25	24	18	31	1.97
1199100--1199249	55	2.8	54	82	2	185	26	24	16	34	1.95
1199100--1199238	53	2.6	53	83	2	170	25	24	15	34	1.95
1202739--1203077	115	2.9	115	85	2	423	42	11	10	35	1.76
1205765--1205798	15	2.3	15	90	10	52	0	17	0	82	0.67
1206046--1206104	20	3.0	20	80	5	75	0	22	11	66	1.24
1206315--1206435	33	3.6	33	87	3	170	16	20	13	49	1.79
1206793--1206922	62	2.1	62	85	0	170	41	15	20	23	1.89
1206992--1207035	13	3.5	13	82	11	56	20	0	0	79	0.73
1207521--1207617	43	2.3	42	89	1	140	42	17	23	16	1.89
1207594--1208522	42	22.0	42	73	7	535	36	18	28	17	1.93
1208058--1208369	169	1.9	168	83	0	408	35	18	28	16	1.93
1207551--1208525	127	7.7	126	75	6	621	36	18	28	17	1.93
1208513--1208748	47	5.1	47	86	4	302	40	18	22	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208885--1209215	89	3.7	88	79	4	308	29	14	25	30	1.95
1219589--1219627	20	1.9	21	89	5	62	41	5	5	48	1.47
1219589--1219631	21	2.0	21	86	8	61	41	4	4	48	1.44
1220410--1220448	15	2.8	14	88	7	53	0	20	0	79	0.73
1220410--1220447	11	3.5	11	85	3	51	0	18	0	81	0.69
1220962--1221030	33	2.1	33	83	0	84	21	21	10	46	1.81
1221593--1221633	9	5.0	8	85	14	57	17	0	0	82	0.66
1221595--1221635	7	6.0	7	78	16	50	17	0	0	82	0.66
1221593--1221633	17	2.5	15	85	14	55	17	0	0	82	0.66
1221593--1221634	11	3.6	11	84	9	57	16	0	0	83	0.65
1222223--1222396	50	3.5	50	78	4	145	27	20	16	36	1.93
1222973--1223115	36	3.9	36	74	3	126	35	10	16	37	1.83
1223345--1223435	38	2.5	35	80	10	101	36	9	18	35	1.84
1223285--1223484	36	5.7	36	69	11	146	37	10	17	36	1.83
1237172--1237384	107	2.0	107	89	3	331	46	12	21	19	1.83
1237573--1237607	17	2.1	17	94	0	61	60	14	22	2	1.48
1243533--1243559	13	2.1	13	100	0	54	29	14	14	40	1.86
1243545--1243597	19	2.7	20	79	8	63	35	15	15	33	1.88
1245963--1246017	20	2.8	20	82	0	74	23	14	16	45	1.84
1248361--1248459	51	1.9	52	89	2	155	30	22	11	36	1.89
1248467--1248543	28	2.7	30	86	7	99	23	33	19	23	1.97
1253782--1253810	13	2.2	13	100	0	58	27	13	17	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256267--1256293	13	2.1	13	100	0	54	29	14	14	40	1.86
1256281--1256332	19	2.7	19	96	0	95	30	13	17	38	1.88
1256382--1256448	33	2.0	32	86	11	91	35	11	17	34	1.87
1257390--1257491	52	2.0	52	92	3	170	46	10	12	30	1.76
1259117--1259160	21	2.1	21	82	0	52	36	4	20	38	1.73
1262094--1262119	12	2.2	12	100	0	52	42	34	7	15	1.75
1263460--1263501	16	2.6	16	81	7	50	64	26	0	9	1.24
1263696--1263748	22	2.4	22	87	0	70	50	3	7	37	1.49
1266357--1266445	2	45.5	2	89	4	101	50	6	0	42	1.28
1266516--1266562	2	23.5	2	95	0	85	53	46	0	0	1.00
1266562--1266592	2	15.5	2	100	0	62	51	0	0	48	1.00
1266719--1267096	187	2.0	187	96	0	702	37	8	7	46	1.63
1267909--1268045	66	2.1	67	80	12	149	54	3	0	40	1.23
1271897--1271952	28	2.0	28	100	0	112	39	17	0	42	1.50
1272919--1272995	36	2.1	36	100	0	154	33	15	5	45	1.69
1272818--1273096	137	2.0	137	97	0	531	40	16	6	36	1.75
1272955--1273147	101	1.9	101	97	0	368	44	17	7	31	1.76
1273117--1273178	31	2.0	31	96	0	115	54	20	9	14	1.68
1276267--1276665	161	2.5	161	81	7	429	44	12	7	36	1.69
1280701--1280867	40	3.9	39	70	19	127	32	13	11	41	1.80
1280701--1280765	20	3.3	19	78	8	76	33	13	12	40	1.82
1280793--1280869	20	3.8	20	81	6	84	33	15	10	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280691--1280898	91	2.3	91	84	1	283	31	15	10	42	1.80
1284649--1284676	13	2.2	13	100	0	56	32	14	14	39	1.86
1284630--1284694	32	2.0	33	90	3	105	38	12	12	36	1.80
1284713--1284792	21	3.8	21	96	0	151	38	18	10	32	1.84
1284779--1284803	13	1.9	13	100	0	50	32	16	16	36	1.90
1298744--1298801	13	4.2	13	78	20	64	84	13	0	1	0.70
1298745--1298810	19	3.6	18	86	8	89	84	13	0	1	0.68
1298748--1298810	26	2.3	28	86	8	85	84	14	0	1	0.71
1298744--1298810	32	2.2	31	86	7	93	83	14	0	1	0.72
1300251--1300468	33	6.7	33	89	3	327	30	31	20	17	1.96
1300474--1300806	43	6.9	49	80	10	348	25	24	17	32	1.96
1300472--1300757	92	3.1	92	95	2	491	24	25	17	32	1.97
1300658--1300811	52	2.9	53	81	4	193	25	24	14	35	1.94
1301646--1301682	13	2.8	13	95	0	65	35	16	10	37	1.83
1301763--1301891	52	2.5	52	94	0	231	37	17	17	27	1.92
1310539--1310665	20	5.8	20	72	20	85	32	16	13	37	1.87
1312964--1313129	51	3.3	50	83	3	190	29	25	12	33	1.92
1313065--1313565	79	6.4	78	84	4	613	26	25	14	32	1.95
1319685--1320067	61	6.3	61	81	9	396	25	24	18	31	1.98
1319685--1320075	125	3.2	120	82	9	447	26	24	18	30	1.98
1320459--1320484	13	2.0	13	100	0	52	38	15	15	30	1.88
1322703--1322747	21	2.1	21	84	8	56	53	4	20	22	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324551--1324581	15	2.1	15	93	0	53	48	16	22	12	1.80
1326567--1326592	13	2.0	13	100	0	52	30	15	15	38	1.88
1329139--1329164	13	2.0	13	100	0	52	38	15	15	30	1.88
1329934--1330160	62	3.7	62	85	4	309	25	29	20	24	1.99
1329923--1330178	122	2.1	123	88	2	383	23	29	19	26	1.98
1330185--1330376	55	3.4	55	81	9	224	28	30	20	20	1.98
1329995--1330585	210	2.8	208	85	6	756	26	29	19	25	1.98
1330241--1330524	154	1.8	155	90	2	455	25	29	19	25	1.98
1330396--1331012	61	10.3	60	84	8	728	25	27	20	26	1.99
1330396--1331009	299	2.1	298	90	2	966	25	27	20	26	1.99

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