genome.fa.s160.2.7.7.80.10.50.1000.7.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   26   27   28   29   30   

This is table  7  of  30  ( 3592 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)
1061469--1061739	149	1.8	151	79	7	318	18	24	15	41	1.89
1061869--1062189	31	9.8	31	71	10	169	30	28	23	16	1.96
1061869--1062118	130	1.9	130	82	0	311	30	28	24	16	1.97
1061869--1062156	130	2.2	130	80	2	310	30	28	23	16	1.96
1062085--1062202	37	3.2	38	84	4	152	33	27	22	16	1.95
1062780--1062818	20	2.0	20	100	0	78	38	10	20	30	1.86
1064256--1064292	19	1.9	19	100	0	74	18	10	32	37	1.86
1064377--1064427	26	2.0	26	100	0	102	23	33	11	31	1.91
1068157--1068361	113	1.8	113	90	2	331	24	12	21	41	1.87
1070408--1070462	28	2.0	28	96	0	101	40	18	16	25	1.91
1074472--1074498	13	2.1	13	100	0	54	29	14	14	40	1.86
1074567--1074593	13	2.1	13	100	0	54	29	14	14	40	1.86
1080782--1081361	290	2.0	290	93	0	991	25	32	16	25	1.96
1083113--1083139	13	2.1	13	100	0	54	29	14	14	40	1.86
1083123--1083179	19	2.9	19	84	2	78	31	19	17	31	1.95
1083224--1083254	13	2.4	13	94	0	53	35	16	12	35	1.87
1083209--1083277	33	2.1	34	86	8	97	31	13	20	34	1.91
1084258--1084292	17	2.1	17	88	0	52	28	5	2	62	1.32
1088090--1088121	2	16.0	2	100	0	64	50	0	0	50	1.00
1089943--1089984	22	2.0	20	86	9	57	42	0	2	54	1.13
1090531--1090565	14	2.5	14	95	0	61	37	0	0	62	0.95
1092739--1092815	33	2.3	34	82	8	88	48	2	7	41	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093830--1093858	14	2.1	14	100	0	58	58	6	6	27	1.50
1094527--1094570	22	2.1	21	91	8	72	45	6	9	38	1.63
1095250--1095341	36	2.7	34	80	12	118	32	11	23	31	1.91
1096420--1096462	21	2.0	21	86	0	59	41	4	27	25	1.75
1096892--1097012	32	3.8	30	79	13	118	31	25	13	29	1.93
1096887--1097043	64	2.4	63	79	10	183	32	22	12	31	1.92
1098173--1098198	13	2.0	13	100	0	52	30	15	15	38	1.88
1098259--1098331	20	3.6	20	81	3	101	31	19	13	35	1.91
1098237--1098331	41	2.3	42	96	1	174	29	17	12	40	1.87
1098937--1098983	17	2.7	17	93	3	76	31	38	2	27	1.69
1100791--1100829	13	3.0	13	96	0	69	35	15	17	30	1.91
1100815--1100893	20	3.7	20	75	18	70	45	15	13	25	1.83
1102908--1102938	15	2.1	15	93	0	53	12	22	16	48	1.80
1107000--1107025	13	2.0	13	100	0	52	30	15	15	38	1.88
1107064--1107139	21	3.7	21	80	3	100	28	17	11	42	1.84
1107085--1107157	20	3.6	20	81	3	101	31	19	13	35	1.91
1107064--1107157	41	2.3	41	98	0	179	29	18	12	39	1.88
1107513--1107554	22	1.9	22	95	0	75	38	14	21	26	1.91
1107608--1107632	13	1.9	13	100	0	50	36	8	16	40	1.77
1113336--1113449	20	5.6	20	79	10	122	39	12	15	32	1.85
1114162--1114285	49	2.7	46	85	7	160	32	20	26	20	1.97
1114366--1114880	28	17.9	28	83	6	575	20	16	32	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114361--1114877	174	3.0	173	88	3	706	21	16	32	29	1.95
1120735--1120801	33	2.0	33	88	0	98	34	11	13	40	1.81
1120755--1120779	13	1.9	13	100	0	50	36	16	16	32	1.90
1120845--1120869	13	1.9	13	100	0	50	32	16	16	36	1.90
1120878--1120998	52	2.3	52	97	0	224	34	18	18	28	1.94
1128203--1128236	15	2.3	15	89	0	50	85	5	8	0	0.75
1129252--1129430	65	2.8	61	86	8	268	25	30	17	25	1.97
1129245--1129437	96	2.0	96	98	0	377	23	30	16	29	1.96
1129252--1129430	31	5.7	31	88	6	279	25	30	17	25	1.97
1129408--1129917	34	14.8	34	85	7	561	20	32	12	34	1.89
1129438--1129917	140	3.5	139	87	6	645	20	33	11	34	1.89
1129991--1130827	49	17.8	48	83	10	1041	25	25	18	31	1.98
1130037--1130104	22	3.1	22	62	26	54	23	25	20	30	1.98
1129986--1130836	92	9.1	92	91	3	1238	25	25	17	31	1.97
1133149--1133215	33	2.0	33	88	0	98	34	11	13	40	1.81
1133169--1133193	13	1.9	13	100	0	50	36	16	16	32	1.90
1133259--1133283	13	1.9	13	100	0	50	32	16	16	36	1.90
1133292--1133412	52	2.3	52	97	0	224	34	18	18	28	1.94
1144077--1144193	20	5.7	20	74	9	101	40	12	15	31	1.85
1145545--1145597	21	2.5	21	84	0	61	18	20	0	60	1.36
1145558--1145601	21	2.1	21	91	0	70	20	18	0	61	1.35
1146577--1146651	20	3.8	20	87	0	114	32	14	13	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156442--1156547	10	11.2	10	73	18	77	83	13	2	0	0.74
1156456--1156549	1	94.0	1	78	0	80	87	10	2	0	0.63
1156456--1156549	11	8.5	11	82	8	120	87	10	2	0	0.63
1156446--1156537	21	4.3	21	74	20	75	85	11	2	0	0.68
1157772--1158157	28	13.5	28	87	4	470	29	30	17	23	1.97
1157766--1158177	113	3.6	113	85	7	519	28	29	17	24	1.97
1159061--1159135	20	3.8	20	78	0	87	30	16	13	40	1.86
1163453--1163608	32	4.9	31	80	13	167	32	25	12	29	1.92
1163450--1163607	65	2.4	65	82	9	223	33	25	12	28	1.92
1164057--1164098	22	1.9	22	95	0	75	35	9	23	30	1.87
1164058--1164105	22	2.2	22	84	0	60	37	10	20	31	1.87
1164752--1164792	21	2.0	21	85	9	57	56	4	19	19	1.60
1167636--1167679	22	2.1	21	87	8	63	45	9	9	36	1.68
1167880--1167906	13	2.1	13	100	0	54	29	14	14	40	1.86
1167892--1167943	20	2.6	20	96	0	95	32	9	21	36	1.86
1168376--1168467	36	2.7	34	73	18	102	32	11	25	30	1.92
1168923--1168988	24	2.7	24	75	11	71	62	0	1	36	1.05
1174950--1175120	78	2.2	77	87	1	243	36	15	18	29	1.92
1175238--1175378	72	2.0	72	82	2	176	39	17	15	28	1.90
1176392--1176907	148	3.5	148	83	6	571	35	18	18	27	1.94
1177406--1177457	16	3.2	16	78	10	61	26	0	1	71	0.97
1177406--1177452	21	2.3	21	85	3	60	25	0	2	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178205--1178259	20	2.8	20	85	0	74	34	16	10	38	1.84
1178337--1178361	13	1.9	13	100	0	50	36	16	16	32	1.90
1179071--1179100	15	2.0	15	100	0	60	53	13	0	33	1.40
1180191--1180245	21	2.6	21	88	2	74	41	14	7	36	1.74
1181862--1181911	20	2.4	20	83	6	55	18	26	38	18	1.93
1183705--1183742	16	2.3	17	81	4	51	34	13	0	52	1.40
1187747--1187804	13	4.9	13	70	23	56	31	17	17	34	1.93
1187729--1187824	33	2.9	33	93	6	160	31	18	15	34	1.93
1187760--1187825	20	3.7	20	73	26	83	31	18	18	31	1.95
1187853--1187910	19	3.1	19	83	16	84	31	17	15	36	1.91
1187874--1187952	13	7.2	12	67	27	59	36	17	13	31	1.89
1187908--1187972	20	3.6	19	73	26	70	40	16	13	29	1.88
1187876--1187973	33	3.0	33	92	1	153	37	16	14	31	1.88
1190126--1190166	13	3.1	14	79	13	50	39	14	14	31	1.87
1194220--1194257	20	1.9	20	100	0	76	31	18	10	39	1.85
1194222--1194277	20	2.8	20	81	5	60	37	14	10	37	1.81
1194923--1194977	22	2.5	22	88	2	85	34	27	0	38	1.57
1203077--1203128	19	2.7	20	87	3	70	38	17	15	28	1.90
1204745--1204784	13	3.1	13	96	0	71	30	12	15	42	1.83
1204835--1204899	33	2.0	33	87	0	94	38	15	15	30	1.88
1205151--1205181	8	3.8	8	91	8	53	12	22	0	64	1.27
1205152--1205180	9	3.3	9	95	4	51	10	20	0	68	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208044--1208112	17	3.8	17	92	7	102	31	7	30	30	1.84
1211027--1211052	13	2.0	13	100	0	52	30	15	15	38	1.88
1213517--1213570	19	2.7	21	83	11	69	33	16	16	33	1.92
1213517--1213571	20	2.8	19	81	13	67	34	16	16	32	1.91
1215702--1215745	23	1.9	24	90	9	74	40	25	4	29	1.75
1216422--1216840	145	2.9	145	81	4	472	25	21	17	34	1.96
1216830--1217093	143	1.8	143	84	3	361	28	21	16	32	1.95
1220710--1221210	166	3.0	164	79	8	505	29	11	10	48	1.72
1223114--1223477	140	2.6	139	81	7	432	32	10	11	45	1.75
1223632--1224396	156	4.9	153	82	5	852	24	18	19	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   26   27   28   29   30