genome.fa.s90.2.7.7.80.10.50.1000.8.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: Scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1653315

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1200 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)
1162361--1162409	10	4.6	11	78	12	50	83	4	12	0	0.77
1162381--1162431	11	4.5	11	77	15	50	84	9	3	1	0.83
1162352--1162421	23	3.1	22	78	13	63	82	5	10	1	0.88
1162374--1162431	26	2.2	26	85	11	75	82	8	6	1	0.90
1163928--1164092	34	4.8	33	80	10	172	18	31	12	37	1.88
1163921--1164092	69	2.5	69	82	8	215	18	31	11	37	1.87
1163921--1164086	68	2.4	68	85	7	210	19	31	12	36	1.88
1164060--1164141	27	2.9	28	85	7	87	24	29	18	28	1.98
1164080--1164187	28	3.8	28	79	7	112	30	30	17	21	1.96
1164204--1164541	49	6.9	49	76	9	251	25	26	17	30	1.97
1164209--1164541	98	3.4	99	77	9	281	25	25	18	30	1.98
1165355--1165418	19	3.7	19	70	23	68	34	14	14	37	1.86
1165356--1165423	32	2.1	32	94	0	118	35	13	14	36	1.85
1165471--1165495	13	1.9	13	100	0	50	32	16	16	36	1.90
1165504--1165626	53	2.3	53	91	1	212	33	19	18	28	1.96
1171006--1171063	28	2.1	28	86	0	80	22	24	32	20	1.98
1171099--1171235	52	2.6	52	78	6	143	32	14	25	27	1.95
1171209--1171290	27	3.0	28	82	10	98	26	21	29	21	1.99
1171281--1171408	51	2.4	51	79	11	141	33	10	24	32	1.89
1173765--1173790	13	2.0	13	100	0	52	38	15	15	30	1.88
1173744--1173810	33	2.0	33	88	0	98	43	16	14	25	1.86
1173830--1173897	19	3.9	18	76	23	83	38	14	11	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173852--1173876	13	1.9	13	100	0	50	32	16	16	36	1.90
1173833--1173895	32	2.0	32	96	0	117	36	15	12	34	1.86
1173953--1174010	21	2.7	22	94	2	100	37	18	10	32	1.85
1174017--1174042	13	2.0	13	100	0	52	15	7	0	76	0.99
1183792--1183903	10	10.7	10	77	17	88	83	10	6	0	0.82
1183792--1183902	5	21.8	5	74	17	68	82	10	6	0	0.82
1183826--1183894	22	3.2	20	82	10	75	84	7	8	0	0.79
1183792--1183894	1	103.0	1	66	0	53	83	9	6	0	0.81
1185401--1185556	34	4.6	33	84	5	195	17	32	11	37	1.86
1185424--1185595	34	5.5	30	77	12	95	21	33	12	32	1.90
1185386--1185550	68	2.4	68	86	4	233	19	32	11	36	1.88
1185524--1185610	27	3.1	27	83	8	95	24	31	16	28	1.96
1185668--1186006	49	6.9	49	78	9	298	25	25	17	30	1.98
1185684--1186006	150	2.2	144	81	6	355	25	26	18	30	1.98
1186610--1186641	10	3.2	10	90	0	55	34	15	9	40	1.80
1186829--1186892	19	3.7	19	70	23	68	34	14	14	37	1.86
1186830--1186897	32	2.1	32	94	0	118	35	13	14	36	1.85
1186921--1186979	21	2.8	21	100	0	118	38	16	10	33	1.83
1186999--1187129	53	2.5	53	94	1	237	33	18	18	29	1.95
1192838--1192949	10	10.7	10	77	17	88	83	10	6	0	0.82
1192838--1192948	5	21.8	5	74	17	68	82	10	6	0	0.82
1192872--1192940	22	3.2	20	82	10	75	84	7	8	0	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192838--1192940	1	103.0	1	66	0	53	83	9	6	0	0.81
1194454--1194609	34	4.6	33	84	5	195	17	32	11	37	1.86
1194477--1194648	34	5.5	30	77	12	95	21	33	12	32	1.90
1194439--1194603	68	2.4	68	86	4	233	19	32	11	36	1.88
1194577--1194663	27	3.1	27	83	8	95	24	31	16	28	1.96
1194721--1195059	49	6.9	49	78	9	298	25	25	17	30	1.98
1194737--1195059	150	2.2	144	81	6	355	25	26	18	30	1.98
1195663--1195694	10	3.2	10	90	0	55	34	15	9	40	1.80
1195882--1195945	19	3.7	19	70	23	68	34	14	14	37	1.86
1195883--1195950	32	2.1	32	94	0	118	35	13	14	36	1.85
1196031--1196161	53	2.5	53	93	1	228	33	17	18	30	1.94
1201865--1201975	10	10.7	10	75	17	86	82	10	6	0	0.82
1201865--1201974	5	21.8	5	74	18	68	82	10	6	0	0.83
1201899--1201966	22	3.2	20	81	10	73	83	7	8	0	0.80
1201842--1201976	72	1.9	70	84	10	182	80	10	8	0	0.96
1201865--1201966	1	102.0	1	66	0	51	83	9	6	0	0.81
1203476--1203635	34	4.7	34	85	3	214	17	34	11	36	1.87
1203465--1203629	68	2.4	68	88	4	242	18	33	12	35	1.88
1203603--1203689	27	3.1	27	82	11	104	24	32	17	26	1.97
1203623--1203730	28	3.8	28	77	7	103	30	31	17	20	1.96
1203747--1204085	49	6.9	48	78	10	294	26	25	17	30	1.97
1203763--1204085	150	2.2	144	81	6	355	26	26	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204908--1204971	19	3.7	19	70	23	68	34	14	14	37	1.86
1204909--1204976	32	2.1	32	94	0	118	35	13	14	36	1.85
1205057--1205187	53	2.5	53	94	1	237	33	18	18	29	1.95
1208597--1208667	21	3.4	20	75	19	65	1	14	14	70	1.24
1208696--1208756	27	2.3	26	80	11	61	3	16	8	72	1.23
1213018--1213046	14	2.1	14	100	0	58	24	27	20	27	1.99
1215396--1215420	13	1.9	13	100	0	50	32	16	16	36	1.90
1215470--1215521	19	2.7	20	78	6	61	30	17	19	32	1.95
1216671--1216737	33	2.1	32	88	2	98	34	10	19	35	1.86
1218821--1218860	20	2.0	21	85	5	55	5	20	50	25	1.68
1225482--1225507	13	2.0	13	100	0	52	38	15	15	30	1.88
1225460--1225527	33	2.1	33	94	2	120	32	13	20	33	1.91
1227240--1227298	17	3.2	17	70	25	57	6	27	0	66	1.17
1231837--1231890	20	2.7	20	85	0	72	38	14	11	35	1.82
1232595--1232625	9	3.4	9	100	0	62	41	12	22	22	1.88
1235005--1235132	63	2.0	63	96	0	238	26	15	20	37	1.92
1236171--1236409	41	5.9	40	77	6	212	37	14	10	37	1.82
1236159--1236397	122	2.0	123	81	5	288	36	14	11	38	1.82
1237669--1237784	58	2.0	57	86	1	160	34	17	15	32	1.91
1242531--1242584	20	2.7	19	86	11	65	37	18	11	33	1.86
1242613--1242717	20	5.7	20	76	15	84	36	15	17	31	1.91
1242613--1242697	19	4.7	19	76	18	92	37	15	16	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242634--1242697	32	2.0	32	96	0	119	40	14	15	29	1.86
1245541--1245753	91	2.3	90	93	3	356	33	16	14	35	1.90
1254535--1254589	19	2.8	20	88	2	85	34	14	16	34	1.89
1256705--1256735	16	1.9	16	93	0	53	35	9	0	54	1.33
1260913--1260937	13	1.9	13	100	0	50	32	16	16	36	1.90
1261038--1261063	13	2.0	13	100	0	52	30	15	15	38	1.88
1261018--1261085	33	2.1	32	91	2	109	35	19	14	30	1.92
1262730--1262785	19	2.9	19	91	2	85	35	16	17	30	1.92
1262770--1262801	13	2.5	13	94	0	55	40	12	15	31	1.85
1263397--1263427	2	15.5	2	93	0	53	48	3	0	48	1.17
1268171--1268207	3	12.3	3	88	0	56	27	2	0	70	1.01
1268766--1268805	19	2.0	20	95	4	73	45	0	35	20	1.51
1270565--1270598	6	5.7	6	96	0	50	0	55	0	44	0.99
1271614--1271638	2	12.5	2	100	0	50	52	0	0	48	1.00
1275374--1275434	32	1.9	31	83	3	77	40	3	14	40	1.62
1275388--1275434	16	2.9	16	78	12	60	40	4	14	40	1.66
1276542--1276579	13	2.9	13	100	0	76	36	15	15	31	1.90
1276589--1276627	20	1.9	21	94	5	71	25	15	23	35	1.94
1280264--1280337	28	2.7	27	81	8	78	32	13	31	22	1.93
1280381--1280555	79	2.2	79	88	2	253	30	17	25	26	1.97
1280564--1280741	51	3.5	50	83	3	223	34	11	24	30	1.90
1283462--1283551	42	2.1	42	82	8	103	37	15	30	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283536--1284208	61	11.3	60	82	6	773	24	20	28	26	1.99
1283536--1284213	121	5.7	120	86	6	850	25	20	28	25	1.99
1283536--1284208	182	3.8	180	84	7	768	24	20	28	26	1.99
1283953--1284182	55	4.1	54	80	9	273	26	19	26	27	1.99
1285195--1285247	17	3.2	16	78	7	61	0	1	13	84	0.69
1285185--1285235	23	2.2	23	86	6	68	0	3	11	84	0.75
1285185--1285246	13	4.4	14	86	12	74	0	3	12	83	0.75
1297081--1297161	28	3.0	27	74	5	83	30	16	28	24	1.96
1297144--1297318	52	3.4	52	82	6	203	32	10	25	30	1.90
1297144--1297363	51	4.3	51	82	5	219	33	11	25	29	1.91

Tables:   1   2   3   4   5   6   7   8   9   10