genome.fa.s12.2.7.7.80.10.50.1000.6.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: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Length:  2382857

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

This is table  6  of  12  ( 1413 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)
1056863--1056891	13	2.2	13	100	0	58	27	13	17	41	1.87
1058607--1058650	21	2.2	21	88	8	65	27	4	18	50	1.66
1059417--1059486	33	2.1	34	84	7	90	34	12	20	32	1.90
1060173--1060225	21	2.6	21	84	3	72	39	15	15	30	1.87
1066669--1066709	22	2.0	20	86	13	57	31	21	4	41	1.74
1068395--1068439	22	2.0	22	87	8	65	35	2	28	33	1.70
1068992--1069016	13	1.9	13	100	0	50	32	16	16	36	1.90
1069117--1069142	13	2.0	13	100	0	52	30	15	15	38	1.88
1074385--1074791	149	2.8	147	76	7	414	41	21	14	23	1.89
1076798--1077436	166	3.8	166	80	8	651	48	10	12	28	1.73
1078711--1078864	46	3.3	46	84	0	200	40	9	24	25	1.84
1078711--1078882	46	3.7	47	80	6	183	40	8	25	25	1.84
1078712--1078882	92	1.8	93	82	3	220	40	8	25	25	1.84
1078850--1079410	35	16.5	35	75	11	364	44	10	21	23	1.83
1078857--1079410	140	4.1	139	76	14	424	44	10	21	23	1.84
1079150--1079186	19	1.9	19	94	0	65	48	10	18	21	1.78
1079114--1079221	54	2.0	54	88	0	162	47	11	20	21	1.81
1079080--1079256	89	2.0	89	88	2	266	44	10	22	22	1.83
1079011--1079326	159	2.0	158	87	5	451	43	10	22	23	1.84
1080161--1080214	20	2.7	20	88	5	74	37	16	12	33	1.87
1080242--1080299	19	3.1	18	83	11	80	34	15	13	36	1.87
1080283--1080309	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080264--1080328	33	2.0	32	87	3	94	41	15	13	29	1.86
1082630--1082672	21	2.0	23	86	9	63	41	0	25	32	1.56
1084611--1084664	20	2.7	20	88	5	74	38	18	11	31	1.86
1084692--1084765	20	3.8	19	87	8	96	37	16	14	31	1.89
1091470--1091523	20	2.7	20	91	0	81	31	14	14	38	1.87
1091552--1091607	19	2.9	19	89	2	76	37	19	14	28	1.91
1091592--1091620	13	2.2	13	100	0	58	37	13	17	31	1.89
1091573--1091637	32	2.0	33	93	3	114	40	15	15	29	1.88
1093689--1093758	34	2.1	34	89	7	108	32	15	20	31	1.94
1099884--1099912	13	2.2	13	100	0	58	27	13	17	41	1.87
1101629--1101672	21	2.2	21	88	8	65	27	4	18	50	1.66
1102359--1102414	19	2.9	19	86	5	76	32	14	21	32	1.93
1103196--1103248	20	2.6	21	82	8	65	37	15	16	30	1.90
1103383--1103436	20	2.7	20	94	0	99	38	20	11	29	1.87
1106298--1106406	54	2.0	54	98	0	209	38	11	9	40	1.74
1109567--1109604	13	2.9	13	96	0	67	31	15	18	34	1.92
1110863--1110900	13	2.9	13	96	0	67	31	15	18	34	1.92
1112755--1112799	22	2.0	22	87	8	65	35	2	28	33	1.70
1113479--1113504	13	2.0	13	100	0	52	30	15	15	38	1.88
1118729--1119134	148	2.8	147	75	7	403	41	21	14	22	1.88
1118729--1119134	149	2.8	147	76	8	351	41	21	14	22	1.88
1121044--1121779	166	4.4	165	82	4	749	49	9	11	30	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123051--1123204	46	3.3	46	83	0	191	40	9	25	25	1.85
1123051--1123222	46	3.7	47	80	6	174	39	8	26	25	1.85
1123052--1123222	92	1.8	93	81	3	211	39	8	25	25	1.84
1123190--1123508	35	9.1	35	80	4	329	42	10	22	24	1.86
1123190--1123508	70	4.6	70	82	6	385	42	10	22	24	1.86
1123211--1123508	105	2.8	105	86	0	398	42	11	21	24	1.86
1123455--1123562	54	2.0	53	85	1	144	46	11	20	22	1.82
1123508--1123751	35	6.9	35	79	4	206	45	11	21	22	1.83
1123424--1123597	89	2.0	89	86	4	244	42	11	21	24	1.86
1123354--1123667	159	2.0	159	87	3	454	42	11	22	23	1.86
1123311--1123702	194	2.0	194	84	2	502	42	10	22	23	1.85
1123508--1123751	105	2.3	105	87	2	337	45	11	21	22	1.83
1123508--1123751	70	3.5	70	81	1	274	45	11	21	22	1.83
1124502--1124555	20	2.7	20	88	5	74	37	16	12	33	1.87
1124583--1124672	19	5.1	18	76	21	100	35	14	14	35	1.87
1124624--1124682	13	5.1	13	75	23	60	38	13	15	32	1.86
1124605--1124701	32	3.0	32	90	1	149	40	14	14	30	1.86
1125390--1125442	17	3.4	17	71	28	62	50	13	16	18	1.77
1125390--1125451	30	2.1	30	100	0	124	54	12	16	16	1.71
1128994--1129047	20	2.7	20	88	5	74	38	18	11	31	1.86
1129075--1129148	20	3.8	19	87	8	96	37	16	14	31	1.89
1137797--1137827	13	2.4	13	94	0	53	35	12	19	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137777--1137840	33	1.9	33	84	6	85	34	18	15	31	1.93
1137871--1137924	19	2.8	19	89	10	83	33	18	14	33	1.92
1143353--1143410	19	3.1	18	88	11	89	32	17	15	34	1.91
1143375--1143439	32	2.0	32	84	3	85	38	13	16	30	1.88
1149651--1149692	22	1.9	22	85	0	57	14	9	2	73	1.18
1149675--1149712	18	2.2	18	90	4	60	2	7	2	86	0.74
1153640--1153677	20	1.9	19	94	5	67	31	13	10	44	1.77
1153552--1153725	52	3.4	51	80	5	154	28	15	12	43	1.83
1156129--1156347	79	2.8	78	81	4	251	32	26	10	30	1.90
1165768--1166131	79	4.6	78	81	6	351	30	25	10	33	1.90
1166063--1166183	53	2.3	52	84	6	156	30	25	11	32	1.91
1169660--1169737	38	2.1	38	95	0	138	47	16	19	16	1.83
1171027--1171052	13	2.0	13	100	0	52	38	15	15	30	1.88
1179461--1180131	31	21.8	31	78	12	491	23	30	14	31	1.94
1179660--1179774	27	4.0	27	76	14	113	21	33	13	30	1.93
1179503--1180374	61	14.0	62	73	15	236	22	31	13	32	1.93
1179503--1179960	183	2.5	183	80	11	519	23	30	14	31	1.94
1179904--1179957	27	2.0	27	92	0	90	25	33	11	29	1.91
1179925--1180010	34	2.5	34	87	5	138	23	32	8	36	1.84
1179471--1180300	278	3.0	273	84	8	1018	22	30	14	32	1.94
1180020--1180131	30	3.7	28	81	14	109	22	31	15	31	1.94
1180153--1180206	27	2.0	27	92	0	90	22	33	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180174--1180405	34	6.9	33	78	5	243	18	31	12	36	1.89
1180418--1181096	49	14.4	48	74	13	378	25	26	17	30	1.97
1180420--1180583	90	1.8	88	86	2	238	24	25	20	29	1.99
1180551--1180807	87	2.9	87	87	4	372	27	27	18	27	1.98
1180420--1180673	138	1.8	139	94	2	458	24	26	19	29	1.98
1180720--1181057	150	2.3	148	79	3	363	26	25	15	32	1.96
1182678--1183084	79	5.2	78	84	3	447	29	23	12	34	1.91
1182704--1183140	158	2.8	158	82	3	506	29	24	12	33	1.92
1182712--1183140	79	5.4	77	80	5	304	29	24	12	33	1.92
1182704--1183140	157	2.8	157	81	4	436	29	24	12	33	1.92
1191442--1191640	67	3.0	67	81	8	160	28	22	17	31	1.97
1191457--1192383	137	6.7	136	75	12	546	25	23	16	34	1.95
1191457--1192378	70	13.4	68	75	12	642	25	23	16	34	1.95
1192032--1192671	70	9.3	70	76	9	481	25	23	15	35	1.94
1192000--1192921	411	2.3	405	78	6	937	26	22	15	35	1.94
1192786--1192976	68	3.0	62	78	11	179	28	24	15	32	1.95
1193598--1193697	52	1.9	52	85	0	137	29	17	10	44	1.81
1196692--1197015	157	2.1	157	95	1	580	26	16	12	45	1.82
1197261--1197317	28	2.0	28	96	0	105	28	22	14	35	1.93
1200388--1200557	85	2.0	85	88	2	252	36	10	24	28	1.88
1203665--1204357	52	13.3	52	79	1	634	33	17	25	24	1.96
1205548--1205606	18	3.2	18	81	9	82	11	3	10	74	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213322--1213626	153	2.0	153	92	0	511	20	15	24	39	1.91
1218903--1219025	20	5.6	20	71	19	102	41	11	16	30	1.83
1219876--1220295	28	14.4	28	82	6	383	22	17	31	28	1.97
1219857--1220300	174	2.5	173	83	7	572	24	17	30	28	1.97
1219876--1220295	145	2.9	145	85	6	546	22	17	31	28	1.97
1221532--1221597	9	7.4	9	78	11	57	4	1	9	84	0.81
1221520--1221597	8	9.6	8	74	12	61	5	1	8	84	0.82
1235338--1235392	20	2.8	20	88	0	83	40	14	12	32	1.84
1243611--1243670	21	2.9	21	78	14	70	20	26	1	51	1.56
1245766--1245817	22	2.4	22	90	0	77	44	11	21	23	1.84

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