genome.fa.s171.2.7.7.80.10.50.1000.7.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: Scaffold171
Parameters: 2 7 7 80 10 50 1000
Length:  2364178

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

This is table  7  of  13  ( 1521 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)
1092563--1093547	28	35.1	28	76	9	729	24	17	29	28	1.97
1102240--1102267	13	2.2	13	100	0	56	39	17	14	28	1.89
1103055--1103453	49	8.4	49	70	12	199	32	18	24	24	1.97
1103189--1103318	48	2.7	49	78	5	147	33	19	22	24	1.97
1103280--1103357	39	2.0	39	84	0	102	29	23	20	26	1.99
1103228--1103448	48	5.0	43	72	16	130	32	20	22	24	1.98
1103470--1103711	29	8.5	29	81	6	280	20	16	30	32	1.95
1103470--1103711	85	2.8	84	85	6	308	20	16	30	32	1.95
1103470--1103714	57	4.3	57	86	5	300	20	16	31	32	1.94
1105132--1105229	1	98.0	1	69	0	52	3	3	10	83	0.86
1105132--1105229	9	11.1	9	74	11	78	3	3	10	83	0.86
1105132--1105214	34	2.4	34	82	9	98	3	1	12	83	0.84
1105153--1105206	19	2.9	19	88	2	74	3	0	14	81	0.82
1111157--1111224	19	3.9	19	78	21	85	35	11	14	38	1.83
1111178--1111202	13	1.9	13	100	0	50	36	16	16	32	1.90
1111159--1111221	32	2.0	32	96	0	117	34	12	15	36	1.86
1111264--1111289	13	2.0	13	100	0	52	30	15	15	38	1.88
1111492--1111543	21	2.5	21	77	0	59	30	19	19	30	1.96
1111570--1111636	33	2.0	33	85	0	89	32	10	14	41	1.80
1111653--1111710	21	2.8	21	100	0	116	39	17	10	32	1.83
1111698--1111722	13	1.9	13	100	0	50	32	16	16	36	1.90
1116438--1116660	52	4.3	52	82	7	222	29	25	12	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116648--1116719	28	2.6	28	84	4	83	20	36	20	22	1.96
1129276--1129323	20	2.3	20	85	3	60	87	6	6	0	0.67
1129277--1129321	11	3.9	12	85	11	51	86	6	6	0	0.70
1130307--1131257	59	16.3	59	89	5	1214	25	27	21	25	1.99
1130307--1131253	235	4.1	237	87	6	1264	25	28	21	25	1.99
1131070--1131210	28	5.1	27	61	16	65	27	30	19	21	1.98
1132009--1132076	19	3.9	19	78	21	85	35	11	14	38	1.83
1132011--1132073	32	2.0	32	96	0	117	34	12	15	36	1.86
1132030--1132054	13	1.9	13	100	0	50	36	16	16	32	1.90
1132116--1132141	13	2.0	13	100	0	52	30	15	15	38	1.88
1132096--1132162	33	2.0	33	88	0	98	25	14	16	43	1.86
1134595--1134665	27	2.6	28	86	2	90	23	33	21	21	1.97
1134650--1134870	52	4.2	53	82	6	229	30	26	10	32	1.90
1134858--1134921	28	2.3	28	83	5	76	21	32	20	25	1.97
1134479--1134980	264	1.9	262	88	3	767	29	27	13	30	1.94
1142382--1142434	22	2.6	21	91	8	83	26	11	13	49	1.75
1143624--1143696	19	3.7	19	80	5	83	35	15	12	36	1.84
1150158--1150304	79	1.9	79	81	5	181	33	13	25	27	1.93
1150082--1150351	130	2.1	129	79	8	284	34	14	24	26	1.94
1156591--1156616	13	2.0	13	100	0	52	38	15	15	30	1.88
1156569--1156636	33	2.1	33	89	8	104	33	11	17	36	1.86
1156669--1156721	20	2.7	20	90	0	79	30	15	13	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157286--1157330	22	2.0	22	91	8	74	35	28	0	35	1.58
1158737--1158788	20	2.4	21	81	12	61	5	26	48	19	1.71
1159209--1159246	13	2.9	13	96	0	67	34	18	15	31	1.92
1166144--1166169	13	2.0	13	100	0	52	30	15	15	38	1.88
1166869--1166912	21	2.1	21	83	8	54	25	31	4	38	1.76
1166887--1166958	34	2.1	34	97	0	135	40	23	2	33	1.69
1168754--1168779	13	2.0	13	100	0	52	38	15	15	30	1.88
1172691--1172735	21	2.1	21	84	8	56	22	20	4	53	1.63
1174960--1174985	13	2.0	13	100	0	52	30	15	15	38	1.88
1174941--1175003	32	2.0	32	87	6	92	28	15	15	39	1.89
1175435--1175487	20	2.7	20	87	0	70	32	15	11	41	1.82
1178345--1178391	22	2.2	21	85	14	62	29	17	8	44	1.78
1179545--1179586	18	2.3	18	84	12	50	61	11	4	21	1.48
1180873--1180944	13	5.5	13	100	0	144	36	15	16	31	1.90
1180989--1181016	13	2.2	13	100	0	56	28	14	17	39	1.89
1185726--1185751	13	2.0	13	100	0	52	30	15	15	38	1.88
1185706--1185769	32	2.0	33	90	3	103	28	14	15	42	1.86
1188591--1188755	84	2.0	84	82	7	201	24	19	3	52	1.62
1190803--1190828	13	2.0	13	100	0	52	30	15	15	38	1.88
1190783--1190846	32	2.0	33	90	3	103	28	14	15	42	1.86
1197824--1198235	155	2.7	155	81	5	481	39	18	17	24	1.92
1198509--1198979	156	3.0	155	84	4	586	42	11	9	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199877--1199945	29	2.4	28	81	9	77	4	20	0	75	0.97
1200411--1200913	163	3.1	163	80	7	518	51	7	9	30	1.63
1200888--1200929	19	2.2	19	83	8	50	69	7	9	14	1.37
1204542--1204607	30	2.2	28	89	7	96	30	3	4	62	1.30
1204628--1204679	23	2.3	23	90	6	79	55	1	1	40	1.22
1208581--1208623	19	2.3	19	91	0	68	48	18	6	25	1.73
1209102--1209141	21	1.9	20	90	10	62	45	5	0	50	1.23
1209494--1209532	16	2.4	17	82	8	53	46	0	7	46	1.31
1211484--1211811	109	2.9	113	80	8	350	38	7	10	42	1.69
1211652--1211698	23	2.0	24	83	4	60	34	2	4	59	1.29
1212842--1212884	21	1.9	24	86	13	65	37	11	9	41	1.74
1212999--1213023	13	1.9	13	100	0	50	32	16	16	36	1.90
1213123--1213148	13	2.0	13	100	0	52	38	15	15	30	1.88
1213105--1213168	33	2.0	32	87	3	92	39	18	14	28	1.90
1219344--1219385	22	2.0	20	86	13	59	38	21	0	40	1.53
1221693--1221717	13	1.9	13	100	0	50	32	16	16	36	1.90
1221806--1221831	13	2.0	13	100	0	52	38	15	15	30	1.88
1221788--1221851	33	2.0	32	87	3	92	39	18	14	28	1.90
1223401--1223431	16	1.9	16	100	0	62	32	25	12	29	1.93
1222780--1224671	634	3.0	633	94	0	3327	30	16	14	38	1.89
1230228--1230267	20	2.0	21	90	5	64	42	25	15	17	1.88
1230809--1230853	23	2.0	23	86	8	65	33	6	20	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238517--1238584	34	1.9	36	82	8	86	23	27	16	32	1.96
1238659--1238806	80	1.9	78	80	6	174	20	24	14	39	1.91
1238658--1238883	121	1.9	120	80	6	269	21	24	14	39	1.91
1238541--1238848	162	1.9	163	84	6	419	20	23	14	41	1.89
1238968--1239046	31	2.5	31	77	0	77	27	31	24	16	1.96
1239030--1239185	37	4.7	31	65	18	89	32	26	21	19	1.97
1239048--1239170	37	3.5	36	71	13	121	30	24	21	22	1.99
1239020--1239185	68	2.4	67	87	3	233	31	25	22	19	1.98
1239151--1239263	41	2.8	41	93	0	181	30	29	22	17	1.97
1239233--1239395	31	5.3	30	70	5	101	26	25	28	19	1.99
1239268--1239413	62	2.4	62	85	0	202	26	26	28	19	1.99
1239376--1239525	37	4.2	37	75	10	159	34	28	20	16	1.94
1239310--1239491	68	2.8	68	84	5	214	31	28	23	16	1.96
1240080--1240134	20	2.7	20	91	2	83	38	12	18	30	1.88
1240080--1240150	20	3.5	20	86	3	70	36	11	16	35	1.85
1247163--1248268	42	26.1	42	73	8	688	17	28	18	36	1.93
1247163--1248242	127	8.5	127	78	6	895	17	28	18	35	1.93
1247163--1248267	84	13.1	84	78	5	764	17	28	18	36	1.93
1248798--1248855	10	6.0	10	77	22	54	72	0	0	27	0.85
1248796--1248849	15	3.6	15	77	7	65	72	0	0	27	0.85
1248908--1249091	67	2.8	67	88	4	261	21	19	16	42	1.89
1249098--1249132	12	2.9	12	86	0	52	20	28	14	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254116--1254186	1	71.0	1	77	0	70	88	7	2	1	0.65
1254116--1254186	20	3.5	20	81	9	90	88	7	2	1	0.65
1254116--1254186	29	2.4	29	86	4	99	88	7	2	1	0.65
1254116--1254200	8	10.2	8	80	14	59	85	5	7	1	0.77
1254116--1254203	10	8.2	10	77	16	70	85	5	7	1	0.80
1254116--1254188	19	3.7	20	83	10	96	87	6	4	1	0.71
1255270--1255737	62	7.6	63	85	3	587	23	26	19	30	1.98
1255265--1255735	61	7.6	61	85	3	557	23	26	19	30	1.98
1255884--1256078	45	4.4	45	78	10	136	21	26	13	38	1.90
1255912--1256077	45	3.8	44	80	12	173	18	27	13	40	1.88

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