genome.fa.s26.2.7.7.80.10.50.1000.6.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: Scaffold26
Parameters: 2 7 7 80 10 50 1000
Length:  1656043

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 947 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)
1182685--1182799	51	2.3	51	87	0	158	31	30	9	28	1.89
1182571--1182844	130	2.1	130	82	4	320	31	25	9	33	1.88
1185763--1185803	12	3.3	12	83	6	55	0	4	26	68	1.10
1185763--1185803	13	3.2	13	86	3	57	0	4	26	68	1.10
1186203--1186237	12	2.9	12	86	0	52	11	22	5	60	1.52
1186715--1186759	8	5.8	8	80	15	58	24	0	0	75	0.80
1186707--1186769	14	4.2	14	84	13	65	25	1	0	73	0.93
1186719--1186769	17	3.1	16	89	10	77	23	0	0	76	0.79
1186719--1186763	9	5.2	9	86	10	67	24	0	0	75	0.80
1191493--1191517	5	5.0	5	100	0	50	40	0	0	60	0.97
1191734--1191759	4	6.5	4	100	0	52	73	0	0	26	0.84
1192351--1192486	63	2.2	63	84	5	177	36	5	24	33	1.80
1193043--1193089	16	2.9	16	83	0	58	38	31	21	8	1.83
1193360--1193411	16	3.2	16	78	10	61	21	3	0	75	0.97
1193773--1193832	19	3.2	18	86	6	75	45	0	5	50	1.23
1193789--1193831	19	2.3	19	95	0	77	37	0	6	55	1.27
1195142--1195205	32	2.0	32	96	0	119	25	14	37	23	1.92
1195254--1195440	97	1.9	98	80	7	220	36	9	22	31	1.87
1197679--1197728	20	2.5	20	90	3	73	40	10	16	34	1.81
1198580--1198632	22	2.4	22	93	0	88	16	22	5	54	1.63
1201856--1202197	68	5.0	68	79	10	227	33	15	24	27	1.95
1201915--1202197	68	4.2	68	78	10	285	33	14	23	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206852--1206968	51	2.3	51	84	0	144	30	29	11	28	1.91
1206738--1206995	130	2.0	130	82	3	313	31	25	10	32	1.90
1207460--1207589	35	3.8	33	75	13	113	47	4	29	18	1.68
1207474--1207589	35	3.4	34	92	3	196	43	5	32	18	1.73
1208839--1209096	79	3.3	79	97	0	480	26	27	16	29	1.97
1208949--1209224	130	2.1	130	93	0	471	27	25	14	31	1.95
1209028--1209147	51	2.4	51	94	0	204	28	25	15	31	1.95
1208870--1209596	209	3.3	209	81	10	898	26	25	14	32	1.95
1208839--1209384	288	1.9	288	94	0	966	27	25	15	32	1.95
1209079--1209534	79	5.8	79	92	0	750	27	25	14	32	1.95
1209474--1209620	52	2.8	49	74	12	125	25	22	14	37	1.92
1210566--1212265	849	2.0	849	98	0	3310	30	19	16	34	1.94
1214174--1214214	12	3.3	12	83	6	55	0	4	26	68	1.10
1214174--1214214	13	3.2	13	86	3	57	0	4	26	68	1.10
1214612--1214646	12	2.9	12	86	0	52	11	22	5	60	1.52
1215112--1215157	23	2.0	23	91	4	76	23	0	0	76	0.79
1215112--1215160	14	3.5	13	78	13	53	24	0	0	75	0.80
1217075--1217114	21	1.9	21	84	0	53	25	27	15	32	1.95
1218018--1218057	18	2.3	18	95	4	73	32	12	10	45	1.75
1218809--1218898	27	3.3	27	88	0	135	23	23	13	40	1.90
1219014--1219141	65	2.0	64	84	10	167	29	32	17	20	1.95
1219014--1219151	32	4.4	31	83	8	165	29	33	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219209--1219553	52	6.6	52	78	5	313	22	26	15	34	1.94
1219144--1219544	104	3.9	101	75	9	329	23	25	16	34	1.95
1219242--1219539	156	1.9	156	84	2	393	23	26	16	33	1.96
1220234--1220259	13	2.0	13	100	0	52	46	15	7	30	1.74
1220283--1220361	20	3.8	20	77	12	70	35	16	10	37	1.82
1222499--1222567	27	2.6	27	100	0	138	23	30	20	26	1.98
1225578--1225781	79	2.6	79	85	2	268	34	12	26	26	1.92
1228124--1228230	50	2.1	50	86	3	144	43	13	13	29	1.81
1234244--1234551	55	5.6	54	85	2	361	30	26	13	28	1.94
1234231--1234554	110	3.0	109	86	2	406	30	27	14	27	1.95
1240321--1240358	2	19.5	2	94	5	69	50	0	0	50	1.00
1242825--1242853	7	4.3	7	95	4	51	27	0	0	72	0.85
1243405--1243519	47	2.5	47	78	12	116	40	0	0	57	1.11
1243429--1243459	12	2.5	13	94	5	55	29	0	0	70	0.87
1243430--1243534	47	2.2	48	85	11	137	40	0	0	59	1.04
1243810--1243840	4	8.0	4	92	7	55	77	0	0	22	0.77
1244474--1244576	33	3.1	33	92	2	170	21	66	6	5	1.37
1244489--1244550	6	10.7	6	82	6	56	19	69	6	4	1.29
1244902--1244938	3	12.3	3	100	0	74	32	0	0	67	0.91
1248720--1248787	13	4.9	13	76	16	66	75	0	0	25	0.81
1248709--1248788	30	2.7	29	79	12	85	73	0	1	25	0.90
1249043--1249102	27	2.1	29	81	12	70	45	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251919--1252362	87	5.2	88	77	9	380	34	9	25	30	1.88
1252436--1252507	35	2.1	35	94	0	126	34	0	15	50	1.44
1253470--1253502	12	2.8	12	100	0	66	33	0	24	42	1.55
1254510--1254560	20	2.5	21	90	3	77	41	13	15	29	1.86
1258764--1259048	68	4.2	69	80	5	235	30	15	27	26	1.96
1258815--1259079	68	3.9	68	80	3	259	32	15	26	26	1.95
1258825--1259079	135	1.9	136	81	4	309	32	15	26	25	1.95
1259103--1259392	68	4.3	67	80	7	273	27	14	28	30	1.95
1258879--1259305	225	1.9	224	81	3	509	31	15	25	27	1.95
1259103--1259392	136	2.1	135	82	5	343	27	14	28	30	1.95
1263910--1263948	14	2.7	14	92	4	60	0	7	5	87	0.68
1263904--1263948	21	2.1	22	87	4	65	2	8	4	84	0.84
1275646--1275716	35	2.0	35	94	0	124	47	18	15	18	1.82
1275558--1275792	122	1.9	122	84	3	312	34	14	22	28	1.94
1275689--1275991	87	3.5	87	77	4	290	36	11	21	30	1.89
1275689--1276043	87	4.1	87	75	10	278	34	12	23	29	1.91
1280473--1280513	18	2.4	17	84	8	55	36	9	7	46	1.65
1282659--1282686	2	14.0	2	100	0	56	50	0	0	50	1.00
1283155--1283179	3	8.3	3	100	0	50	32	0	0	68	0.90
1286109--1286156	21	2.3	20	80	13	53	68	4	2	25	1.18
1286314--1286355	22	1.9	22	85	9	59	0	26	0	73	0.83
1286962--1287023	18	3.5	17	79	18	65	79	0	1	19	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291047--1291461	86	4.8	87	77	8	366	33	8	25	32	1.86
1291047--1291246	87	2.3	87	82	5	219	32	8	27	32	1.86
1291566--1291633	34	2.0	34	97	0	127	38	1	14	45	1.54
1293633--1293679	20	2.3	21	88	3	69	38	14	17	29	1.89
1293745--1293798	21	2.7	20	85	2	63	35	14	16	33	1.90
1297785--1298090	68	4.5	68	78	6	273	29	15	27	27	1.96
1297851--1298101	135	1.9	136	84	5	339	32	15	26	25	1.95
1298138--1298331	68	2.9	68	78	9	189	32	14	23	29	1.94
1298216--1298429	68	3.1	68	83	6	247	28	14	27	29	1.95
1299932--1299985	20	2.7	20	85	5	74	31	11	18	38	1.86
1301179--1301218	21	2.0	21	90	5	64	22	15	10	52	1.71
1304227--1304266	12	3.5	12	78	21	50	0	2	12	85	0.71
1304232--1304267	14	2.6	14	91	4	56	0	2	13	83	0.76
1316014--1316081	35	1.9	35	96	0	127	50	17	13	19	1.78
1315930--1316157	122	1.9	119	83	2	294	35	14	23	27	1.93
1318851--1318884	16	2.2	16	89	5	52	35	0	2	61	1.11
1319722--1319769	18	2.7	18	96	0	87	12	66	8	12	1.44
1319682--1319769	45	2.0	42	80	6	95	13	62	11	12	1.55
1320871--1320911	18	2.4	17	84	8	55	36	9	7	46	1.65
1323623--1323675	27	2.0	26	82	10	63	28	0	1	69	0.99
1324536--1324571	10	3.6	10	84	0	54	50	0	0	50	1.00
1324463--1324557	47	2.0	47	80	11	106	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325039--1325168	30	4.3	30	84	4	145	16	69	6	7	1.33
1325101--1325153	15	3.5	15	76	0	52	16	71	1	9	1.21
1325103--1325149	24	2.0	24	91	0	76	19	68	2	10	1.30
1325066--1325144	12	6.5	12	66	2	50	17	67	3	11	1.36
1328446--1328491	18	2.6	19	86	10	62	60	6	2	30	1.34
1328452--1328507	19	2.8	20	73	13	62	62	5	0	32	1.18
1329111--1329138	14	2.0	14	100	0	56	71	7	14	7	1.29
1329580--1329636	17	3.6	17	76	23	61	71	1	0	26	0.95
1329582--1329626	10	4.4	11	76	23	53	73	0	0	26	0.84
1329571--1329621	26	1.9	27	84	11	70	70	0	0	29	0.87

Tables:   1   2   3   4   5   6   7   8