genome.fa.s273.2.7.7.80.10.50.1000.8.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: Scaffold273
Parameters: 2 7 7 80 10 50 1000
Length:  1282806

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 977 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)
1126207--1126259	20	2.7	20	100	0	106	39	15	11	33	1.83
1126361--1126420	20	3.0	20	87	7	95	36	18	11	33	1.87
1126417--1126465	20	2.5	20	90	6	73	42	18	10	28	1.83
1126554--1126774	110	2.0	110	99	0	433	34	10	12	42	1.77
1128701--1128732	16	2.0	16	93	0	55	28	6	6	59	1.46
1128810--1128917	49	2.2	49	81	3	119	24	26	23	25	2.00
1130082--1130121	20	2.0	20	90	0	62	30	2	0	67	1.04
1130444--1130489	22	2.1	22	84	8	58	56	2	4	36	1.31
1130457--1130510	16	3.3	16	80	12	56	57	3	3	35	1.34
1130728--1130773	23	2.0	23	83	8	58	36	6	4	52	1.47
1131182--1131211	15	2.0	15	100	0	60	60	0	0	40	0.97
1131898--1131938	15	2.6	16	77	14	50	39	0	0	60	0.96
1132080--1132121	22	1.9	22	95	0	75	54	0	0	45	0.99
1133824--1133907	37	2.4	34	71	19	82	53	1	3	41	1.26
1133936--1133967	16	2.0	16	100	0	64	62	6	0	31	1.20
1134281--1134317	13	2.7	14	84	16	51	13	2	2	81	0.92
1134386--1134421	13	2.6	14	91	8	56	33	0	0	66	0.92
1140459--1140492	18	1.9	18	88	5	52	58	2	0	38	1.13
1141217--1141242	2	13.0	2	100	0	52	50	0	0	50	1.00
1144272--1144310	21	1.9	19	85	10	51	58	2	10	28	1.44
1146830--1146870	22	1.9	21	85	14	57	41	0	0	58	0.98
1146842--1146908	35	1.9	35	82	11	84	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148050--1148106	27	2.0	29	83	6	73	54	0	0	45	0.99
1148116--1148208	39	2.4	38	81	10	107	63	0	2	34	1.07
1148150--1148208	19	3.1	18	71	28	50	67	0	1	30	1.00
1151629--1151675	22	2.1	22	88	0	67	72	0	25	2	0.96
1151622--1151690	35	1.9	35	82	8	86	73	0	24	1	0.91
1156232--1156438	72	2.9	70	81	7	254	55	9	0	34	1.38
1161813--1161880	32	2.1	33	88	2	102	30	11	20	36	1.89
1161920--1161944	13	1.9	13	100	0	50	32	16	16	36	1.90
1161953--1162081	52	2.5	52	90	0	204	36	17	16	30	1.91
1166623--1166665	21	2.0	21	86	0	59	25	32	0	41	1.56
1166967--1167004	7	5.7	7	84	9	53	23	0	13	63	1.30
1171828--1171868	15	2.7	15	88	0	64	24	51	9	14	1.72
1171968--1172021	27	2.0	27	88	0	81	29	46	1	22	1.62
1172926--1172974	20	2.5	20	96	0	89	10	16	12	61	1.57
1181345--1181390	21	2.1	22	84	4	58	30	19	30	19	1.97
1186943--1186971	2	14.5	2	100	0	58	51	0	0	48	1.00
1189054--1189092	20	1.9	21	84	5	53	12	7	7	71	1.29
1190479--1190569	7	12.9	7	80	6	87	48	2	1	48	1.21
1192780--1192811	2	16.0	2	100	0	64	50	0	0	50	1.00
1196000--1196047	21	2.3	21	82	3	53	54	6	0	39	1.26
1197419--1197510	46	2.0	46	93	0	157	33	22	17	26	1.96
1202626--1202668	21	2.0	21	86	0	59	25	32	0	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202727--1202784	26	2.2	27	81	9	66	25	3	8	62	1.40
1202907--1202946	15	2.7	15	88	7	55	30	2	25	42	1.68
1207801--1207848	15	3.2	15	84	0	69	20	50	10	18	1.76
1208256--1208368	44	2.6	44	97	0	208	35	6	22	36	1.79
1211867--1211908	19	2.3	19	87	4	59	40	4	2	52	1.35
1212055--1212111	27	2.1	27	81	12	64	45	0	0	54	0.99
1212524--1212563	2	20.0	2	100	0	80	50	0	0	50	1.00
1212678--1212728	25	2.1	24	85	10	68	37	0	0	62	0.95
1212673--1212739	26	2.6	26	73	15	66	40	0	0	59	0.97
1213965--1214090	63	2.0	64	85	4	175	38	26	15	19	1.92
1214495--1214537	21	2.0	23	90	9	72	62	0	0	37	0.95
1217011--1217060	24	2.1	24	100	0	100	52	8	8	32	1.60
1217703--1217742	21	1.9	21	85	10	55	67	2	5	25	1.23
1218118--1218156	20	2.0	20	89	0	60	38	7	12	41	1.72
1218410--1218447	19	2.0	20	84	5	51	73	5	7	13	1.22
1218516--1218558	6	6.7	6	80	15	50	2	27	0	69	1.00
1218861--1218935	39	1.9	38	83	2	96	50	10	9	29	1.68
1220922--1224762	146	26.2	146	70	14	1374	53	13	2	31	1.53
1220922--1222138	290	4.1	287	81	7	1211	52	13	2	31	1.53
1220922--1223570	73	36.4	72	71	12	971	53	13	2	31	1.53
1222105--1222171	33	2.0	33	88	0	98	62	5	2	28	1.33
1220922--1222151	148	8.4	146	76	8	618	53	13	2	31	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222335--1222384	25	2.1	23	82	10	57	60	10	2	28	1.40
1222162--1222578	145	2.9	144	82	9	447	53	12	1	32	1.48
1222615--1223497	213	4.1	217	81	7	811	53	13	2	30	1.54
1222644--1223570	217	4.3	215	82	7	803	52	13	2	30	1.54
1223473--1223681	113	1.9	113	85	3	296	51	11	1	35	1.49
1223593--1224762	73	16.2	71	77	8	893	53	13	2	31	1.52
1223593--1224762	219	5.4	214	79	8	1000	53	13	2	31	1.52
1222138--1225554	977	3.5	975	78	9	3180	53	13	2	31	1.52
1224025--1225554	768	2.0	747	92	2	2529	53	13	2	31	1.52
1224790--1225404	73	8.4	73	81	7	624	53	13	1	30	1.51
1224790--1225404	218	2.8	219	82	5	667	53	13	1	30	1.51
1224790--1225424	291	2.2	290	84	4	789	53	14	2	30	1.52
1225537--1225618	24	3.4	25	85	11	109	59	2	0	37	1.11
1225497--1225575	40	2.0	40	82	0	95	56	5	1	36	1.29
1225841--1225878	19	2.0	20	89	5	60	34	2	0	63	1.09
1226148--1226188	15	2.8	15	88	3	57	53	0	0	46	1.00
1230438--1230483	24	1.9	24	86	0	65	47	10	13	28	1.76
1230615--1230664	21	2.3	21	83	13	57	48	6	4	42	1.46
1230614--1230664	22	2.3	21	81	15	59	49	5	3	41	1.45
1231424--1231471	22	2.2	21	82	10	53	27	2	2	68	1.11
1231719--1231772	22	2.3	23	78	18	58	24	5	5	64	1.36
1232617--1232671	24	2.3	24	81	9	69	25	7	18	49	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235200--1235245	21	2.1	22	88	4	67	32	19	28	19	1.96
1236062--1236160	36	2.5	41	76	19	118	32	18	15	34	1.92
1236079--1236147	36	1.9	36	93	0	120	33	18	13	34	1.90
1237792--1237914	43	2.8	44	83	4	169	43	13	18	25	1.86
1242559--1242682	44	2.8	43	91	4	203	42	15	18	23	1.88
1245575--1245613	2	19.5	2	100	0	78	48	0	0	51	1.00
1245922--1245958	16	2.3	16	90	0	56	67	5	18	8	1.36
1247559--1247604	18	2.5	19	75	10	51	52	0	2	45	1.13
1247991--1248020	15	1.9	16	93	6	53	66	3	6	23	1.30
1247991--1248021	16	1.9	16	93	0	53	67	3	6	22	1.28
1249328--1249387	21	2.7	22	80	17	63	61	0	0	38	0.96
1251007--1251057	16	3.2	16	85	0	66	17	9	23	49	1.77
1251036--1251084	16	3.1	16	96	0	89	20	18	22	38	1.93
1251011--1251108	32	3.1	32	75	0	88	16	14	26	42	1.86
1252533--1252767	50	4.7	50	89	2	346	30	21	16	31	1.96
1257303--1257332	11	2.7	11	94	0	51	93	3	3	0	0.42
1257301--1257363	15	4.3	15	81	4	65	85	4	9	0	0.72
1258324--1258895	55	10.4	55	92	2	854	28	29	20	21	1.98
1258511--1258599	29	3.2	29	67	20	89	28	33	19	19	1.96
1258540--1258629	26	3.3	26	68	14	74	28	33	17	20	1.95
1259488--1259529	12	3.0	15	80	20	63	78	0	7	14	0.95
1259494--1259526	12	2.8	12	100	0	66	81	0	6	12	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259538--1259594	21	2.7	21	97	0	105	33	10	19	36	1.86
1259650--1259717	19	3.9	19	78	21	85	35	11	14	38	1.83
1259671--1259695	13	1.9	13	100	0	50	36	16	16	32	1.90
1259652--1259714	32	2.0	32	96	0	117	34	12	15	36	1.86
1259757--1259782	13	2.0	13	100	0	52	30	15	15	38	1.88
1259737--1259803	33	2.0	33	88	0	98	25	14	16	43	1.86
1262259--1262329	27	2.6	27	86	6	90	23	33	21	21	1.97
1262314--1262484	51	3.3	50	78	6	180	29	25	11	33	1.91
1262145--1262484	105	3.2	104	68	14	255	30	26	11	31	1.92
1262467--1262548	28	2.9	28	82	7	96	24	31	17	26	1.97

Tables:   1   2   3   4   5   6   7   8   9