genome.fa.s409.2.7.7.80.10.50.1000.8.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  8  of  25  ( 2882 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)
1128882--1128919	13	2.9	13	96	0	67	31	15	18	34	1.92
1131000--1131030	15	2.1	15	93	0	53	12	22	16	48	1.80
1131077--1131145	21	3.2	21	65	15	59	34	21	5	37	1.78
1131061--1131148	44	2.0	44	100	0	176	31	20	6	40	1.79
1132877--1132921	21	2.1	21	84	8	56	22	20	4	53	1.63
1135105--1135130	13	2.0	13	100	0	52	30	15	15	38	1.88
1135084--1135148	32	2.0	33	93	6	114	27	12	15	44	1.82
1135084--1135148	19	3.6	19	73	26	70	27	12	15	44	1.82
1138513--1138589	16	4.8	16	75	1	64	9	7	33	49	1.63
1139595--1139640	16	2.9	16	96	0	83	17	15	23	43	1.87
1143026--1143081	19	2.9	19	86	2	76	33	14	17	33	1.90
1143158--1143392	117	2.0	117	100	0	470	38	13	10	37	1.79
1143676--1144100	165	2.6	163	79	9	425	32	12	7	48	1.68
1145535--1145906	144	2.6	139	82	8	403	32	11	12	44	1.78
1145577--1145906	140	2.3	143	82	8	397	32	11	11	43	1.77
1153708--1153827	47	2.6	47	79	2	143	20	21	18	39	1.93
1153976--1154089	41	2.8	40	70	2	93	18	25	12	43	1.85
1154100--1154357	85	3.0	85	83	5	299	19	22	13	44	1.85
1155714--1155743	12	2.5	12	94	0	51	80	0	16	3	0.85
1156397--1156423	13	2.1	13	100	0	54	29	14	14	40	1.86
1156476--1156538	33	1.9	33	87	6	92	34	14	19	31	1.91
1160009--1160034	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163694--1163718	13	1.9	13	100	0	50	36	16	16	32	1.90
1165724--1165749	13	2.0	13	100	0	52	38	15	15	30	1.88
1169541--1169567	13	2.1	13	100	0	54	29	14	14	40	1.86
1171479--1171504	13	2.0	13	100	0	52	30	0	23	46	1.53
1172074--1172100	13	2.1	13	100	0	54	29	14	14	40	1.86
1172150--1172243	20	4.7	20	88	7	138	31	12	19	36	1.89
1172150--1172243	40	2.3	40	100	0	188	31	12	19	36	1.89
1174261--1174398	69	2.0	69	100	0	276	27	27	13	31	1.93
1184094--1184223	69	1.9	69	95	0	233	35	14	14	35	1.87
1185933--1185971	20	2.0	20	94	0	69	43	15	10	30	1.80
1187881--1188062	99	1.9	98	88	4	280	48	3	20	26	1.67
1189115--1189169	19	2.8	20	83	5	76	38	16	16	29	1.90
1189806--1189854	21	2.3	21	89	0	71	40	22	4	32	1.73
1195831--1195897	33	2.0	33	83	11	84	38	13	13	34	1.84
1196727--1197423	87	7.3	96	77	9	555	30	18	25	24	1.98
1197012--1197160	39	3.6	39	72	15	118	26	17	28	27	1.98
1197232--1197429	43	4.3	43	79	10	162	31	18	24	25	1.98
1197138--1197409	52	5.6	49	80	11	227	30	19	25	24	1.98
1197138--1197404	95	2.7	94	83	6	309	30	19	25	24	1.98
1197420--1198224	33	25.3	33	77	12	510	36	14	29	19	1.91
1197413--1197898	93	5.1	92	78	14	360	36	13	30	18	1.90
1197488--1197960	126	3.8	126	85	3	609	36	14	30	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197739--1198015	34	8.8	34	75	13	231	34	13	32	19	1.90
1197839--1198053	27	7.2	28	73	14	139	33	13	31	20	1.92
1197772--1198015	89	2.7	90	86	6	325	34	13	31	20	1.91
1197962--1198782	33	25.7	33	82	8	997	35	14	27	23	1.94
1198018--1198779	287	2.7	286	91	2	1201	35	14	26	22	1.93
1197962--1198782	63	12.8	64	84	7	971	35	14	27	23	1.94
1207066--1207093	13	2.2	13	100	0	56	39	17	14	28	1.89
1207973--1208021	23	2.1	23	96	0	89	38	10	20	30	1.86
1213533--1213559	13	2.1	13	100	0	54	29	14	14	40	1.86
1213547--1213600	20	2.7	20	88	0	81	37	14	16	31	1.89
1215184--1215687	52	9.8	52	75	9	361	34	15	24	25	1.94
1215173--1215687	104	5.0	103	77	7	409	35	14	24	25	1.94
1215169--1215690	156	3.4	155	80	4	480	35	14	24	25	1.93
1215696--1215816	32	3.8	31	88	5	172	18	16	31	33	1.93
1215696--1215816	63	1.9	63	89	3	190	18	16	31	33	1.93
1215993--1216055	28	2.3	27	80	2	72	30	19	25	25	1.98
1218130--1218181	19	2.6	20	93	6	88	26	11	15	46	1.80
1220562--1220599	13	2.9	13	96	0	67	31	15	18	34	1.92
1223042--1223067	13	2.0	13	100	0	52	30	15	15	38	1.88
1225607--1225644	13	2.9	13	96	0	67	31	15	18	34	1.92
1227726--1227756	15	2.1	15	93	0	53	12	22	16	48	1.80
1229560--1229604	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231808--1231833	13	2.0	13	100	0	52	30	15	15	38	1.88
1232611--1232641	15	2.1	15	93	0	53	12	22	16	48	1.80
1234445--1234489	21	2.1	21	84	8	56	22	20	4	53	1.63
1236711--1236736	13	2.0	13	100	0	52	30	15	15	38	1.88
1236690--1236754	32	2.0	33	93	6	114	27	12	15	44	1.82
1236690--1236754	19	3.6	19	73	26	70	27	12	15	44	1.82
1236785--1236841	21	2.7	21	100	0	114	26	19	10	43	1.83
1237190--1237264	14	5.8	13	80	13	84	0	0	13	86	0.57
1237199--1237261	9	6.9	9	82	13	76	0	0	12	87	0.55
1237190--1237265	24	3.2	24	83	9	102	0	0	14	85	0.60
1237190--1237261	33	2.1	36	87	7	105	0	0	13	86	0.58
1237197--1237264	1	68.0	1	76	0	64	0	0	11	88	0.52
1256284--1256501	97	2.2	97	82	7	255	26	22	13	37	1.92
1257497--1257537	21	1.9	22	90	5	66	46	2	0	51	1.14
1257520--1257555	11	3.3	11	88	11	56	33	0	0	66	0.92
1257759--1257801	18	2.6	16	85	14	52	65	20	9	4	1.40
1257814--1257892	21	4.0	20	77	9	81	58	12	20	8	1.61
1257810--1257895	40	2.2	40	89	0	127	60	11	19	8	1.56
1257894--1257940	24	2.0	24	83	8	60	68	4	14	12	1.36
1257902--1257981	19	4.0	22	79	12	75	63	3	17	15	1.44
1257902--1257981	41	2.0	41	82	7	101	63	3	17	15	1.44
1257908--1257984	22	3.7	21	76	8	61	67	3	15	12	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259829--1260427	150	4.0	148	80	5	542	26	16	18	38	1.92
1259927--1260469	300	1.8	300	81	8	674	25	16	18	38	1.92
1261888--1261936	23	2.2	22	81	3	53	14	0	16	69	1.19
1272514--1273193	151	4.5	152	76	6	559	38	19	17	24	1.92
1273097--1273280	93	2.0	93	85	2	253	39	16	19	24	1.91
1275111--1275174	22	2.9	22	80	0	65	4	17	12	65	1.42
1275192--1275350	20	8.3	19	71	21	61	2	15	18	63	1.42
1275188--1275285	40	2.5	40	86	3	126	2	16	18	63	1.41
1275307--1275340	18	1.9	17	88	5	50	2	8	23	64	1.36
1275963--1276009	24	2.0	24	100	0	94	57	12	12	17	1.65
1276367--1277319	44	21.7	43	71	10	387	41	16	22	19	1.90
1276367--1276789	132	3.2	131	82	3	440	42	17	20	19	1.90
1276723--1276964	131	1.8	131	79	6	283	42	18	21	18	1.90
1276812--1277379	132	4.3	129	78	6	434	41	16	22	19	1.90
1276588--1277181	175	3.4	175	92	1	935	42	17	21	18	1.89
1276894--1277380	132	3.7	132	80	7	438	41	16	22	19	1.90
1277663--1277694	5	6.4	5	100	0	64	81	0	0	18	0.70
1278155--1278232	28	2.8	28	84	1	104	44	14	25	15	1.84
1280367--1280560	98	2.0	99	90	1	309	30	20	20	28	1.97
1283784--1283835	6	9.3	6	78	16	58	82	1	15	0	0.75
1283784--1283835	27	1.9	27	88	0	77	82	1	15	0	0.75
1283784--1283836	11	4.8	11	79	9	63	83	1	15	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283784--1283835	21	2.4	22	83	6	70	82	1	15	0	0.75
1285128--1285270	44	3.3	43	70	13	121	20	16	15	47	1.82
1285092--1285316	88	2.6	87	80	9	244	20	17	15	47	1.83
1285617--1285823	89	2.3	89	79	7	197	31	23	15	29	1.95
1285706--1285908	90	2.3	89	81	7	218	32	21	14	32	1.93
1286065--1286206	48	3.0	48	85	12	184	21	21	15	41	1.90
1286509--1287211	42	16.7	44	73	12	204	18	27	14	39	1.90
1286503--1286781	128	2.2	127	84	2	344	18	27	14	39	1.90
1286566--1287213	84	7.7	85	72	10	282	18	28	14	38	1.90
1287171--1287266	49	2.0	49	83	2	122	17	22	21	37	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25