genome.fa.s312.2.7.7.80.10.50.1000.8.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: Scaffold312
Parameters: 2 7 7 80 10 50 1000
Length:  1822960

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

This is table  8  of  12  ( 1415 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)
1113925--1114094	85	2.0	85	94	0	295	30	22	20	27	1.98
1114804--1114914	55	2.0	54	89	1	168	34	16	6	43	1.73
1118014--1118039	2	13.0	2	100	0	52	50	0	0	50	1.00
1119352--1119396	17	2.6	18	80	16	58	75	6	0	17	1.01
1119797--1119845	20	2.5	20	72	21	50	44	4	0	51	1.20
1120252--1120290	17	2.3	17	90	0	60	0	33	0	66	0.92
1120973--1121017	24	1.9	23	82	13	56	64	8	2	24	1.34
1124123--1124171	21	2.3	21	86	6	64	42	14	36	6	1.70
1126947--1126982	3	12.0	3	93	0	63	63	0	2	33	1.08
1130474--1130510	5	7.4	5	93	0	56	24	0	75	0	0.80
1131701--1131740	2	20.0	2	100	0	80	0	50	0	50	1.00
1132424--1132457	2	17.5	2	93	6	61	50	0	0	50	1.00
1134304--1134330	6	4.5	6	100	0	54	0	33	29	37	1.58
1135268--1135315	22	2.2	21	82	7	60	54	0	2	43	1.12
1136476--1136983	180	2.8	175	81	9	485	26	10	13	49	1.73
1136417--1137003	181	3.2	174	79	10	511	27	10	13	48	1.76
1136531--1137003	175	2.7	179	81	7	414	27	10	14	46	1.77
1138134--1138249	51	2.3	51	87	3	162	31	12	27	28	1.92
1138085--1138326	130	1.9	130	82	10	307	34	11	26	26	1.91
1138183--1138665	79	6.1	79	83	2	533	34	13	25	26	1.92
1138627--1138697	28	2.5	28	80	8	99	32	18	26	22	1.97
1141140--1141195	20	2.7	20	86	5	76	41	10	16	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141263--1141316	20	2.6	21	85	2	74	27	18	12	40	1.87
1142428--1142466	21	1.9	20	85	15	53	30	12	7	48	1.69
1142542--1142580	18	2.1	19	85	4	53	46	0	0	53	1.00
1144517--1144554	4	9.0	4	91	8	58	23	0	5	71	1.07
1146131--1146375	39	6.4	39	69	13	132	28	12	15	44	1.82
1148521--1148669	82	1.8	80	85	8	212	34	21	10	34	1.87
1150480--1150526	23	2.0	23	100	0	94	25	25	4	44	1.72
1156452--1156505	20	2.7	20	88	11	76	35	18	14	31	1.91
1157538--1157748	101	2.1	100	83	7	261	28	22	11	37	1.89
1157580--1157772	101	1.9	101	82	4	246	28	21	11	38	1.88
1157994--1158039	23	2.0	23	95	0	83	17	30	6	45	1.73
1159048--1159073	2	13.0	2	100	0	52	50	0	0	50	1.00
1159436--1159750	164	1.9	165	83	5	406	32	12	8	46	1.71
1160129--1160170	19	2.3	19	95	4	77	45	23	11	19	1.83
1162182--1162701	150	3.5	149	82	4	618	25	18	19	37	1.94
1162182--1162734	299	1.8	299	83	3	736	25	18	18	36	1.94
1172982--1173311	115	2.9	115	77	5	312	36	21	12	29	1.91
1172971--1173285	172	1.8	171	86	2	461	35	21	13	30	1.91
1172860--1173311	57	7.9	57	76	2	363	34	21	13	31	1.91
1177364--1177433	23	3.1	23	89	4	99	58	25	10	5	1.52
1179003--1179043	18	2.2	19	95	4	75	21	19	2	56	1.54
1182726--1182799	34	2.1	35	82	7	89	52	12	16	18	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183150--1183201	19	2.7	20	87	3	70	44	15	13	26	1.84
1183153--1183201	20	2.5	19	86	3	62	44	16	12	26	1.82
1184076--1184125	14	3.6	14	88	0	73	40	20	2	38	1.64
1185753--1185815	33	1.9	33	86	0	90	42	15	15	25	1.87
1192056--1192081	13	2.0	13	100	0	52	30	15	15	38	1.88
1192120--1192195	21	3.7	21	82	3	109	28	18	11	40	1.86
1192140--1192213	20	3.7	20	81	3	103	31	20	13	35	1.91
1192120--1192213	41	2.3	41	100	0	188	29	19	12	38	1.89
1192273--1192313	21	2.0	21	85	9	57	39	9	12	39	1.76
1193950--1193974	13	1.9	13	100	0	50	32	16	16	36	1.90
1197622--1197647	13	2.0	13	100	0	52	30	15	15	38	1.88
1197686--1197761	21	3.7	21	82	3	109	28	18	11	40	1.86
1197706--1197779	20	3.7	20	81	3	103	31	20	13	35	1.91
1197686--1197779	41	2.3	41	100	0	188	29	19	12	38	1.89
1197839--1197879	21	2.0	21	85	9	57	39	9	12	39	1.76
1198602--1198628	13	2.1	13	100	0	54	44	14	18	22	1.86
1199539--1199595	26	2.2	26	93	0	96	43	22	5	28	1.75
1204099--1204143	2	23.0	2	86	4	65	48	2	0	48	1.13
1207993--1208018	13	2.0	13	100	0	52	30	15	15	38	1.88
1207973--1208036	33	2.0	32	87	9	94	28	14	17	40	1.88
1208091--1208156	20	3.7	20	66	26	56	36	15	16	31	1.90
1209699--1209737	19	2.1	19	86	13	55	15	17	5	61	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210133--1210179	24	2.0	23	84	15	62	48	12	8	29	1.71
1211910--1212377	79	5.9	78	75	6	365	35	11	23	28	1.90
1211915--1212377	158	2.9	158	75	5	445	35	11	23	28	1.90
1216295--1216320	13	2.0	13	100	0	52	30	15	15	38	1.88
1217027--1217070	21	2.1	21	83	8	54	25	31	4	38	1.76
1218836--1218861	13	2.0	13	100	0	52	38	15	15	30	1.88
1220941--1220971	15	2.1	15	93	0	53	12	22	16	48	1.80
1222775--1222819	21	2.1	21	84	8	56	22	20	4	53	1.63
1225033--1225058	13	2.0	13	100	0	52	30	15	15	38	1.88
1227261--1227337	20	3.8	20	84	6	102	41	12	14	31	1.83
1228229--1228783	28	19.1	29	81	7	576	24	17	29	28	1.97
1228231--1228783	117	4.8	113	83	8	630	24	17	29	28	1.97
1228234--1228783	147	3.8	143	84	6	639	24	17	29	28	1.97
1228778--1228832	28	2.0	28	96	0	101	34	10	27	27	1.90
1230032--1230103	11	6.5	10	73	16	54	1	5	11	81	0.90
1230056--1230103	22	2.2	22	85	3	62	0	4	10	85	0.73
1230033--1230092	20	2.9	19	81	18	59	1	5	11	81	0.91
1230033--1230082	20	2.3	20	86	10	64	2	4	14	80	0.95
1230649--1230714	33	2.0	33	85	5	89	28	15	15	40	1.87
1238605--1238660	20	2.8	19	89	5	76	39	14	16	30	1.88
1238719--1238744	13	2.0	13	100	0	52	38	15	15	30	1.88
1246079--1246137	20	3.0	20	87	5	84	35	16	10	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248614--1248643	13	2.3	13	100	0	60	40	16	13	30	1.87
1248760--1248832	31	2.4	30	82	13	78	57	21	1	19	1.48
1254858--1254884	13	2.1	13	100	0	54	40	14	14	29	1.86
1254839--1254903	32	2.0	33	84	3	87	41	12	13	32	1.82
1257913--1258077	20	7.7	20	71	14	123	40	11	15	32	1.83
1257964--1258077	40	2.8	40	94	0	201	38	12	14	34	1.84
1258968--1259600	28	21.9	28	83	6	696	22	17	30	29	1.96
1258965--1259600	202	3.1	199	87	6	845	23	16	30	29	1.96
1258970--1259600	230	2.7	230	89	3	928	22	17	30	29	1.96
1259595--1259649	28	2.0	28	92	0	92	38	9	25	27	1.86
1260248--1260288	21	2.0	21	85	9	57	41	12	7	39	1.70
1260368--1260504	53	2.6	53	95	1	238	36	18	17	27	1.94
1260548--1260601	21	2.5	22	93	6	101	25	24	11	38	1.88
1260691--1260716	13	2.0	13	100	0	52	30	15	23	30	1.95
1262319--1262367	9	5.6	8	84	15	62	0	4	14	81	0.83
1262319--1262377	9	6.6	9	76	7	57	1	5	11	81	0.93
1262319--1262366	17	2.8	17	81	12	62	0	4	14	81	0.84
1270723--1271247	268	2.0	268	92	0	872	21	16	19	42	1.89
1273555--1273599	23	2.0	23	86	0	63	68	6	13	11	1.37
1281794--1281818	13	1.9	13	100	0	50	36	16	16	32	1.90
1281773--1281837	33	2.0	32	87	3	94	30	16	15	36	1.90
1281803--1281855	19	2.8	20	82	8	74	33	16	16	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281908--1281956	13	4.2	13	70	24	54	34	12	16	36	1.86
1284057--1284111	21	2.6	22	83	11	71	34	12	21	30	1.91
1284238--1284281	20	2.1	22	91	8	74	40	20	9	29	1.83
1286402--1286453	21	2.4	21	78	9	61	63	3	9	23	1.41
1299901--1299954	20	2.7	20	82	2	63	35	14	9	40	1.78
1300578--1300639	19	3.2	19	73	13	63	41	14	16	27	1.87
1300627--1300651	13	1.9	13	100	0	50	36	16	16	32	1.90
1300606--1300678	32	2.3	32	97	0	137	34	12	17	35	1.88
1300608--1300670	19	3.7	18	76	24	73	33	12	17	36	1.88
1300695--1300736	21	2.0	21	100	0	84	42	9	19	28	1.82

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