genome.fa.s93.2.7.7.80.10.50.1000.10.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: Scaffold93
Parameters: 2 7 7 80 10 50 1000
Length:  1685797

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  10  of  14  ( 1563 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)
1172569--1172684	13	7.5	13	70	29	70	35	18	12	33	1.89
1172577--1172705	19	7.8	18	70	28	108	37	17	11	33	1.86
1172569--1172703	32	4.2	32	98	0	252	36	18	11	33	1.87
1173476--1173755	49	5.8	48	80	7	302	30	19	25	24	1.98
1173476--1173750	92	2.9	96	87	4	389	29	20	25	24	1.99
1173772--1174182	28	14.4	28	83	4	455	19	17	30	32	1.95
1173772--1174183	58	7.2	57	85	2	429	19	16	31	32	1.94
1173788--1174182	86	4.6	85	86	3	490	19	17	30	32	1.95
1173772--1174190	144	2.9	143	87	3	567	20	16	31	31	1.95
1175638--1175697	22	2.8	21	82	12	68	1	3	10	85	0.79
1175626--1175728	14	7.2	13	73	20	64	2	3	11	81	0.93
1175626--1175696	7	9.7	7	80	17	74	1	2	12	83	0.83
1182997--1183072	21	3.7	20	87	8	100	38	11	15	34	1.84
1183109--1183172	19	3.7	19	74	23	77	34	10	15	39	1.83
1183110--1183180	32	2.2	32	94	0	124	33	11	16	38	1.85
1183224--1183249	13	2.0	13	100	0	52	30	15	15	38	1.88
1183204--1183270	33	2.0	33	88	0	98	25	14	16	43	1.86
1185509--1185730	80	2.8	79	86	7	278	26	26	14	32	1.95
1185665--1185837	52	3.3	52	75	10	156	28	26	13	32	1.93
1185822--1185893	28	2.6	28	86	4	92	22	34	19	23	1.96
1198318--1198373	11	5.1	11	84	6	78	87	8	3	0	0.65
1198318--1198383	12	5.3	12	81	15	64	86	9	4	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1198318--1198383	16	4.3	16	77	11	59	86	9	4	0	0.70
1198318--1198383	21	3.1	20	79	14	69	86	9	4	0	0.70
1198318--1198383	1	66.0	1	73	0	51	86	9	4	0	0.70
1199369--1200087	120	6.2	118	84	7	762	26	27	20	24	1.99
1199369--1200087	175	4.1	174	85	7	847	26	27	20	24	1.99
1199364--1200087	295	2.5	293	89	4	1092	26	27	20	25	1.99
1200835--1200951	21	5.7	20	84	5	144	35	11	18	35	1.87
1200835--1200951	41	2.8	41	90	1	171	35	11	18	35	1.87
1200988--1201051	19	3.7	19	74	23	77	34	12	15	37	1.85
1200989--1201059	32	2.2	32	97	0	133	33	12	16	36	1.87
1201008--1201032	13	1.9	13	100	0	50	36	16	16	32	1.90
1203564--1203636	27	2.7	27	85	6	85	27	28	17	26	1.98
1203698--1203867	51	3.3	52	77	5	175	29	27	11	31	1.92
1203593--1203764	74	2.3	74	83	10	197	27	26	14	30	1.95
1209342--1209398	13	3.9	13	74	24	51	36	14	15	33	1.88
1209322--1209422	32	3.1	32	92	1	166	36	11	15	35	1.85
1209320--1209417	19	5.8	18	68	28	72	35	12	15	36	1.85
1209480--1209608	52	2.5	52	98	0	249	35	17	17	28	1.93
1214113--1214265	52	2.9	52	96	0	270	29	16	18	34	1.94
1214296--1214347	19	2.7	19	93	0	95	40	17	11	30	1.85
1215151--1215189	17	2.4	17	82	4	53	25	17	5	51	1.66
1215160--1215195	17	2.1	17	89	0	54	25	13	5	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217031--1217055	13	1.9	13	100	0	50	32	20	16	32	1.94
1217233--1217263	8	3.8	8	95	4	53	61	25	0	12	1.32
1220701--1220726	13	2.0	13	100	0	52	38	15	15	30	1.88
1228042--1228098	10	5.2	10	80	15	60	85	8	5	0	0.72
1228043--1228110	16	4.1	17	83	9	77	83	8	7	0	0.80
1229093--1229811	120	6.2	118	84	5	724	27	27	20	25	1.99
1229093--1229811	175	4.1	175	84	7	795	27	27	20	25	1.99
1229088--1229811	295	2.5	292	88	4	1047	27	27	20	25	1.99
1229705--1229791	28	3.1	28	63	20	65	25	27	22	24	2.00
1230559--1230675	21	5.7	21	83	5	132	35	10	17	36	1.84
1230559--1230675	41	2.8	41	90	1	171	35	10	17	36	1.84
1231714--1231915	79	2.6	79	82	3	219	29	15	29	25	1.96
1231870--1231946	28	2.8	28	85	0	91	23	20	33	22	1.97
1231966--1232102	52	2.6	52	82	8	154	33	13	24	27	1.94
1231931--1232275	107	3.2	105	70	15	285	31	12	25	29	1.93
1232076--1232157	27	3.0	28	82	10	98	26	21	29	21	1.99
1231863--1232272	214	1.9	214	89	2	644	30	13	27	28	1.94
1234625--1234650	13	2.0	13	100	0	52	38	15	15	30	1.88
1234604--1234670	33	2.0	33	88	0	98	43	16	14	25	1.86
1234690--1234755	19	3.8	18	75	24	79	36	15	12	36	1.84
1234712--1234736	13	1.9	13	100	0	50	32	16	16	36	1.90
1234693--1234757	32	2.0	32	96	0	121	35	15	12	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237513--1237565	27	2.0	27	96	0	97	24	32	18	24	1.97
1237513--1237585	27	2.7	27	87	6	94	26	28	19	26	1.98
1237647--1237816	51	3.3	52	79	5	184	29	28	11	30	1.92
1237542--1237715	74	2.3	74	83	10	201	26	27	16	30	1.96
1243288--1243344	13	3.9	13	76	24	60	35	14	17	33	1.90
1243268--1243368	32	3.1	32	95	1	175	35	11	16	35	1.86
1243266--1243363	19	5.8	18	70	28	81	34	12	16	36	1.86
1243426--1243554	52	2.5	52	97	0	240	35	17	18	27	1.94
1248119--1248249	52	2.5	52	98	0	253	29	18	19	33	1.95
1248237--1248262	13	2.0	13	100	0	52	38	15	15	30	1.88
1248315--1248366	19	2.7	19	93	0	95	40	17	11	30	1.85
1249170--1249208	17	2.4	17	82	4	53	25	17	5	51	1.66
1249179--1249214	17	2.1	17	89	0	54	25	13	5	55	1.60
1250574--1250615	20	2.0	21	86	4	59	14	28	40	16	1.88
1251050--1251074	13	1.9	13	100	0	50	32	20	16	32	1.94
1251252--1251282	8	3.8	8	95	4	53	61	25	0	12	1.32
1258093--1258275	63	2.9	62	77	11	192	26	14	16	42	1.87
1258711--1259072	50	7.3	49	76	8	205	35	18	19	25	1.95
1258756--1259085	50	6.6	50	76	7	217	36	18	19	25	1.94
1258756--1259078	150	2.2	149	80	6	348	36	18	19	25	1.94
1258658--1259070	100	4.2	98	78	5	341	35	19	20	25	1.96
1258711--1259096	150	2.6	150	77	4	318	36	19	18	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262092--1262165	20	3.7	20	81	3	103	35	13	20	31	1.91
1262110--1262185	21	3.7	21	82	3	109	40	11	18	28	1.86
1262092--1262185	41	2.3	41	100	0	188	38	12	19	29	1.89
1264463--1264507	21	2.1	21	84	8	56	53	4	20	22	1.63
1268355--1268434	20	3.8	20	75	15	79	26	15	15	43	1.85
1268420--1268458	13	3.0	13	96	0	69	30	17	15	35	1.91
1271000--1271025	13	2.0	13	100	0	52	38	15	15	30	1.88
1273323--1273375	20	2.6	21	88	8	74	28	13	15	43	1.84
1273424--1273472	21	2.3	21	92	0	80	40	16	6	36	1.73
1275215--1275267	20	2.7	20	85	5	63	26	13	13	47	1.79
1280112--1280156	24	2.0	23	87	12	67	46	0	28	24	1.53
1289534--1289588	20	2.7	20	82	5	65	29	14	10	45	1.79
1290618--1290661	20	2.2	20	100	0	88	4	13	27	54	1.58
1290803--1291045	79	3.1	78	77	8	251	30	20	10	39	1.86
1290844--1291093	78	3.2	77	74	10	231	30	22	12	34	1.91
1297154--1297280	31	4.1	33	77	16	114	22	29	14	33	1.94
1297152--1297279	30	4.2	29	76	11	114	21	31	14	32	1.94
1297285--1301699	62	70.2	62	76	7	3345	24	22	18	33	1.96
1299275--1299429	77	2.0	76	82	3	186	23	26	14	35	1.93
1300100--1300129	14	2.1	14	100	0	60	16	36	6	40	1.75
1300038--1300192	77	2.0	76	86	1	211	22	27	14	35	1.93
1299914--1300314	201	2.0	199	85	4	538	23	24	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300937--1301436	61	8.0	60	71	12	233	24	22	17	35	1.95
1301090--1301274	67	2.8	66	82	6	203	24	21	17	35	1.95
1300938--1301699	60	12.3	61	73	11	408	25	21	17	35	1.95
1301616--1301913	162	1.8	161	81	8	372	25	19	19	35	1.95
1301749--1302160	62	6.6	62	77	4	346	25	21	18	34	1.96
1301811--1302158	187	1.9	187	82	6	445	25	21	18	34	1.96
1301748--1302160	125	3.3	123	73	9	327	25	21	18	35	1.96
1302122--1302199	39	2.0	39	92	0	129	19	33	16	30	1.94
1302135--1302213	39	2.1	37	83	6	97	24	29	18	27	1.98
1301999--1302324	164	2.0	164	80	4	363	25	22	18	33	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14