genome.fa.s35.2.7.7.80.10.50.1000.8.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   30   

This is table  8  of  30  ( 3549 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)
1149321--1149382	32	1.9	33	90	3	99	38	16	16	29	1.90
1151986--1152010	13	1.9	13	100	0	50	36	16	16	32	1.90
1158177--1158241	32	2.0	33	87	3	96	41	16	13	27	1.87
1160141--1160213	20	3.6	20	81	3	92	35	12	19	32	1.89
1160159--1160234	21	3.7	21	80	3	100	42	10	17	30	1.82
1160141--1160234	41	2.3	41	96	0	170	39	11	18	30	1.86
1160273--1160298	13	2.0	13	100	0	52	38	15	15	30	1.88
1162514--1162558	21	2.1	21	84	8	56	53	4	20	22	1.63
1164362--1164392	15	2.1	15	93	0	53	48	16	22	12	1.80
1166407--1166485	20	3.7	21	75	15	72	26	13	15	44	1.84
1166472--1166510	13	3.0	13	96	0	69	30	17	15	35	1.91
1168967--1169039	20	3.6	20	81	3	101	35	13	19	31	1.91
1168985--1169060	21	3.7	21	80	3	100	42	11	17	28	1.84
1168967--1169060	41	2.3	41	98	0	179	39	12	18	29	1.88
1169099--1169124	13	2.0	13	100	0	52	38	15	15	30	1.88
1172477--1172633	78	2.0	78	94	0	278	47	9	19	23	1.78
1173596--1174497	28	32.5	28	85	3	826	26	31	14	27	1.95
1173596--1174244	110	5.9	109	87	2	804	25	32	13	28	1.94
1173596--1174541	110	8.5	111	82	5	801	26	31	15	27	1.96
1173632--1174695	28	38.2	28	82	7	631	26	31	15	26	1.96
1173600--1174695	56	19.7	56	83	8	703	26	31	15	26	1.96
1175075--1175099	11	2.3	11	100	0	50	92	0	8	0	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175541--1175940	27	14.5	28	87	2	537	25	33	14	27	1.94
1175541--1176316	83	9.3	83	83	5	531	26	31	16	25	1.96
1175541--1175940	110	3.6	109	89	3	563	25	33	14	27	1.94
1175577--1176335	28	27.2	28	81	7	447	26	31	16	25	1.96
1184654--1184739	40	2.2	40	100	0	172	36	24	19	19	1.95
1185698--1185765	34	2.0	35	91	2	111	23	30	11	33	1.91
1185740--1185836	27	3.6	27	87	5	133	27	32	14	24	1.94
1190629--1190695	20	3.3	20	89	2	89	41	11	14	31	1.83
1191790--1191815	13	2.0	13	100	0	52	30	15	15	38	1.88
1191854--1191929	21	3.7	21	80	3	100	28	17	11	42	1.84
1191875--1191947	20	3.6	20	81	3	101	31	19	13	35	1.91
1191854--1191947	41	2.3	41	98	0	179	29	18	12	39	1.88
1194386--1194424	13	3.0	13	96	0	69	35	15	17	30	1.91
1194410--1194488	20	3.7	20	75	18	70	45	15	13	25	1.83
1196503--1196533	15	2.1	15	93	0	53	12	22	16	48	1.80
1200314--1200339	13	2.0	13	100	0	52	30	15	15	38	1.88
1200378--1200453	21	3.7	21	80	3	100	28	17	11	42	1.84
1200399--1200471	20	3.6	20	81	3	101	31	19	13	35	1.91
1200378--1200471	41	2.3	41	98	0	179	29	18	12	39	1.88
1204108--1204133	13	2.0	13	100	0	52	30	15	15	38	1.88
1206482--1206528	21	2.3	21	76	23	55	42	4	19	34	1.70
1206649--1206687	13	3.0	13	96	0	69	35	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206673--1206751	20	3.7	20	78	15	77	44	15	15	25	1.85
1207271--1207311	21	2.0	21	85	9	57	39	12	9	39	1.76
1207351--1207421	20	3.6	19	77	7	70	40	16	12	29	1.86
1207498--1207528	10	3.1	10	90	0	53	22	29	6	41	1.78
1207516--1207574	22	2.6	23	83	5	75	30	22	10	37	1.87
1207603--1207628	13	2.0	13	100	0	52	30	15	23	30	1.95
1208107--1208173	37	1.9	35	88	11	102	32	11	25	29	1.92
1210123--1210153	15	2.1	15	93	0	53	12	22	16	48	1.80
1214212--1214237	13	2.0	13	100	0	52	30	15	15	38	1.88
1215123--1215184	24	2.5	24	80	12	65	16	20	11	51	1.74
1216309--1217038	42	17.4	41	80	5	593	43	15	23	16	1.86
1216265--1217038	84	9.2	84	81	2	705	43	15	23	16	1.87
1216265--1217038	126	6.1	126	81	2	759	43	15	23	16	1.87
1217009--1217063	25	2.2	25	90	3	85	45	14	27	12	1.81
1217029--1218315	42	29.9	42	73	10	717	43	15	23	17	1.87
1216890--1217189	152	2.0	151	84	3	388	46	15	23	14	1.83
1217279--1217340	25	2.5	24	80	17	65	45	16	25	12	1.83
1217209--1217533	109	3.0	110	85	4	392	44	15	24	16	1.85
1217119--1217575	151	3.0	150	74	11	439	44	15	24	16	1.86
1217510--1218031	277	1.9	276	82	1	659	42	14	24	18	1.88
1217637--1217927	151	1.9	151	79	4	327	43	15	23	17	1.87
1221757--1221812	20	2.8	20	80	0	67	42	14	12	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221840--1222010	43	3.8	43	71	13	135	28	18	12	40	1.87
1221840--1221912	20	3.5	20	75	10	65	28	16	12	42	1.84
1221837--1222042	95	2.2	95	93	0	349	29	18	12	39	1.87
1221935--1222011	20	3.7	20	81	10	91	28	19	11	40	1.87
1222790--1222821	16	2.0	16	93	0	55	18	28	18	34	1.95
1230194--1230220	13	2.1	13	100	0	54	40	14	14	29	1.86
1235348--1235379	3	10.7	3	93	0	55	28	34	0	37	1.57
1242721--1242766	21	2.2	21	100	0	92	21	17	32	28	1.96
1244035--1244096	25	2.5	26	78	7	83	80	9	0	9	0.90
1244049--1244090	12	3.4	12	81	12	50	78	9	0	11	0.96
1245447--1245500	28	1.9	28	88	0	81	29	27	18	24	1.98
1245699--1245842	32	4.5	33	80	5	161	33	25	18	22	1.97
1245714--1245833	64	1.9	64	87	3	179	34	29	15	21	1.94
1246972--1247048	20	3.7	20	80	10	82	27	16	12	42	1.85
1253560--1253592	17	2.0	17	88	5	50	39	30	0	30	1.57
1260854--1260925	12	5.7	12	71	11	54	80	9	0	9	0.91
1260861--1260925	20	3.4	19	76	14	53	80	9	0	10	0.92
1262836--1262860	13	1.9	13	100	0	50	32	16	16	36	1.90
1263435--1263514	31	3.1	24	76	22	74	41	20	6	32	1.77
1264564--1264605	22	2.0	21	86	13	61	40	0	21	38	1.53
1264727--1264752	13	2.0	13	100	0	52	38	15	15	30	1.88
1268788--1268843	19	2.9	19	89	2	76	35	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268828--1268854	13	2.1	13	100	0	54	40	14	14	29	1.86
1268809--1268873	32	2.0	33	87	3	96	43	13	13	29	1.83
1272693--1272779	14	6.5	13	69	12	52	33	12	16	37	1.86
1272800--1272873	28	2.7	28	91	2	114	24	31	20	24	1.98
1273061--1273205	32	4.5	33	87	5	190	31	31	18	18	1.95
1273061--1273205	64	2.3	64	90	2	220	31	31	18	18	1.95
1273371--1273478	52	2.1	52	84	3	137	27	25	13	33	1.94
1276236--1276268	17	2.0	17	88	5	50	39	30	0	30	1.57
1284907--1284952	13	3.5	13	84	3	56	28	13	19	39	1.89
1285005--1285071	28	2.4	28	87	2	100	28	20	22	28	1.99
1285253--1285406	32	4.8	33	80	5	181	31	30	18	19	1.96
1285251--1285406	64	2.4	64	84	2	215	31	30	17	19	1.96
1285468--1285683	52	4.2	52	76	4	184	24	25	13	37	1.92
1285624--1285803	60	3.0	59	80	8	184	23	23	13	39	1.90
1285650--1285827	60	2.9	59	80	6	178	24	21	13	41	1.89
1286434--1286486	20	2.6	21	87	3	72	45	11	15	28	1.80
1286535--1286612	20	3.8	20	80	9	84	26	15	12	44	1.82
1295432--1295456	13	1.9	13	100	0	50	36	16	16	32	1.90
1296744--1296792	21	2.3	21	100	0	98	14	26	26	32	1.94
1302612--1302667	3	18.7	3	96	0	103	30	33	0	35	1.58
1304344--1304407	32	2.0	32	87	6	94	43	17	10	28	1.82
1308188--1308213	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315294--1315454	74	2.1	75	79	6	166	28	26	11	32	1.92
1317364--1317403	20	2.0	20	100	0	80	15	10	35	40	1.80
1319890--1319915	13	2.0	13	100	0	52	30	15	15	38	1.88
1320614--1320657	21	2.1	21	83	8	54	27	31	2	38	1.69
1322275--1322321	21	2.3	21	76	23	55	42	4	19	34	1.70
1322442--1322480	13	3.0	13	88	0	60	35	12	17	33	1.88
1322466--1322544	20	3.7	20	78	15	77	44	15	15	25	1.85
1324550--1324580	15	2.1	15	93	0	53	12	22	16	48	1.80
1326384--1326428	21	2.1	21	84	8	56	22	20	4	53	1.63
1328647--1328672	13	2.0	13	100	0	52	30	15	15	38	1.88

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   30