genome.fa.s45.2.7.7.80.10.50.1000.7.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: Scaffold45
Parameters: 2 7 7 80 10 50 1000
Length:  1408018

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 944 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)
1140964--1141354	79	5.0	77	78	8	353	34	12	24	28	1.92
1140875--1141083	107	2.0	107	84	7	282	35	11	23	28	1.90
1140961--1141353	157	2.5	156	82	8	451	34	12	24	29	1.92
1141807--1141939	34	3.7	34	77	15	133	39	15	26	19	1.91
1141807--1141980	77	2.3	74	88	3	249	40	14	25	20	1.90
1141911--1142070	42	3.8	42	81	6	164	41	12	26	20	1.87
1141911--1142067	85	1.8	86	82	6	203	40	12	26	20	1.88
1142206--1142642	62	7.1	62	86	4	593	29	20	27	22	1.98
1143627--1144842	155	7.8	155	78	5	1078	24	17	20	38	1.93
1150503--1150545	17	2.6	17	89	10	63	76	0	0	23	0.78
1150504--1150543	21	1.9	21	90	10	64	77	0	0	22	0.77
1150220--1150667	182	2.5	176	86	5	598	39	7	8	43	1.64
1163336--1163634	157	1.9	156	87	3	440	40	14	11	33	1.82
1167227--1167283	13	3.9	13	72	24	51	35	19	12	33	1.89
1167240--1167302	19	3.6	19	74	24	75	36	22	11	30	1.89
1167227--1167304	32	2.4	32	97	0	147	34	20	11	33	1.89
1168006--1168056	12	4.1	12	84	5	66	3	19	0	76	0.94
1167993--1168053	23	2.6	23	85	12	72	6	21	0	72	1.07
1168007--1168053	24	2.0	24	91	8	78	4	21	0	74	0.99
1168777--1169095	166	1.9	164	83	6	403	50	9	11	29	1.69
1171682--1171706	13	1.9	13	100	0	50	36	16	16	32	1.90
1171662--1171727	32	2.0	33	94	2	116	34	12	16	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171788--1171968	52	3.5	52	96	0	326	35	17	17	29	1.93
1178566--1178602	5	7.6	5	90	9	51	83	16	0	0	0.64
1178861--1178944	29	3.0	29	75	10	77	79	5	14	0	0.90
1178883--1178937	25	2.3	23	76	17	58	83	9	7	0	0.81
1178883--1178934	12	4.5	12	80	9	54	84	9	5	0	0.77
1179871--1180243	34	11.3	34	76	11	346	20	32	12	34	1.90
1179902--1180227	62	5.1	62	71	18	204	20	32	11	34	1.89
1179881--1180243	96	3.7	96	73	17	273	20	33	11	34	1.89
1179998--1180243	130	1.9	130	87	6	365	20	33	11	33	1.89
1179872--1180243	164	2.3	164	91	0	618	20	33	12	34	1.89
1180234--1180566	33	10.2	33	88	6	468	29	33	17	19	1.95
1180234--1180559	98	3.3	97	91	3	512	29	33	17	20	1.95
1180232--1180566	65	5.2	65	86	7	452	29	33	17	20	1.95
1180559--1180738	43	3.7	49	82	10	228	27	23	18	30	1.98
1180554--1180738	95	2.0	93	90	4	291	26	24	17	30	1.97
1180751--1180877	67	1.9	68	85	1	175	24	25	11	38	1.89
1181597--1181652	21	2.7	21	97	0	103	33	10	19	35	1.87
1181710--1181734	13	1.9	13	100	0	50	36	16	16	32	1.90
1181690--1181787	32	3.0	32	92	1	160	35	11	16	36	1.84
1181688--1181785	19	5.8	18	67	28	72	34	11	16	37	1.84
1181828--1181852	13	1.9	13	100	0	50	32	16	16	36	1.90
1181861--1182041	52	3.5	52	94	0	317	36	17	16	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194229--1194305	21	3.7	21	84	3	102	37	12	14	35	1.84
1194341--1194408	19	3.9	19	78	21	85	35	11	14	38	1.83
1194343--1194405	32	2.0	32	96	0	117	34	12	15	36	1.86
1194362--1194386	13	1.9	13	100	0	50	36	16	16	32	1.90
1194428--1194482	20	2.8	20	82	0	74	23	14	16	45	1.84
1196937--1197009	27	2.7	27	86	2	92	23	35	21	19	1.96
1212173--1212251	22	3.7	21	76	8	70	37	12	16	32	1.86
1214744--1214854	53	2.1	54	80	15	135	33	25	9	32	1.87
1219092--1219140	12	4.1	12	87	10	73	0	22	0	77	0.77
1219093--1219142	24	2.0	25	92	3	84	0	24	0	76	0.80
1219632--1219675	19	2.3	19	80	11	54	59	6	0	34	1.24
1224969--1225137	84	2.0	84	97	0	320	42	19	14	23	1.88
1226363--1226431	32	2.2	32	82	12	88	4	26	0	69	1.07
1226997--1227512	167	3.1	163	86	6	664	52	8	9	29	1.63
1226998--1227512	166	3.1	165	84	5	655	52	8	9	29	1.63
1230547--1230571	12	2.1	12	100	0	50	36	8	24	32	1.84
1231469--1231509	21	2.0	21	85	9	57	39	12	9	39	1.76
1231543--1231601	20	2.9	21	80	10	68	40	13	15	30	1.86
1231589--1231725	53	2.6	53	95	1	238	37	17	17	27	1.92
1231749--1231779	10	3.1	10	90	0	53	22	29	6	41	1.78
1231767--1231816	21	2.3	22	96	3	93	28	26	10	36	1.88
1231912--1231937	13	2.0	13	100	0	52	30	15	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232892--1232917	13	2.0	13	100	0	52	38	15	15	30	1.88
1235137--1235181	21	2.1	21	84	8	56	53	4	20	22	1.63
1236985--1237023	15	2.6	15	88	8	53	53	15	17	12	1.72
1239029--1239108	20	3.8	20	75	15	79	26	15	15	43	1.85
1239094--1239132	13	3.0	13	96	0	69	30	17	15	35	1.91
1240958--1241019	21	3.0	21	90	4	90	32	4	32	30	1.79
1240926--1240982	29	2.0	29	100	0	114	33	7	28	31	1.84
1241715--1241740	13	2.0	13	100	0	52	38	15	15	30	1.88
1243956--1244268	167	1.9	165	83	3	412	32	9	8	48	1.68
1244008--1244425	167	2.5	165	79	6	418	31	11	8	48	1.70
1245580--1246003	179	2.3	183	79	5	430	38	12	12	37	1.80
1249276--1249449	79	2.2	79	89	0	258	32	13	25	28	1.94
1249401--1249505	28	3.8	27	73	13	97	25	22	30	20	1.99
1249322--1249586	135	2.0	135	83	0	341	29	16	28	25	1.97
1249460--1249628	79	2.2	77	81	4	196	31	13	27	27	1.94
1249566--1249785	51	4.4	50	78	6	230	32	12	26	28	1.92
1249588--1249784	102	1.9	103	92	3	335	33	12	25	28	1.92
1252952--1252976	13	1.9	13	100	0	50	36	16	16	32	1.90
1252929--1252996	33	2.1	33	88	2	102	32	14	17	35	1.91
1253029--1253079	20	2.5	20	90	0	75	31	15	13	39	1.87
1253067--1253091	13	1.9	13	100	0	50	36	16	16	32	1.90
1253724--1253783	26	2.3	26	94	2	104	30	23	0	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255373--1255413	22	2.0	21	86	13	59	41	4	21	31	1.74
1255546--1255581	13	2.8	13	95	0	63	33	16	16	33	1.92
1261775--1261799	13	1.9	13	100	0	50	36	16	16	32	1.90
1261752--1261819	33	2.1	33	88	2	102	32	14	17	35	1.91
1261852--1261902	20	2.5	20	90	0	75	31	15	13	39	1.87
1261890--1261914	13	1.9	13	100	0	50	36	16	16	32	1.90
1262300--1262461	42	3.8	42	79	11	141	37	12	27	22	1.91
1262319--1262461	42	3.3	42	80	9	155	36	12	27	23	1.91
1262560--1262653	39	2.4	39	96	0	170	30	17	28	23	1.97
1262666--1262727	31	2.0	31	100	0	124	22	25	25	25	2.00
1262747--1262832	27	3.1	27	62	9	66	27	22	24	25	1.99
1262697--1263030	54	5.8	55	80	10	321	26	21	25	25	2.00
1262957--1263246	99	3.0	100	88	6	418	26	18	31	24	1.97
1264220--1264301	1	82.0	1	75	0	74	0	1	10	87	0.59
1264220--1264301	17	4.8	17	96	1	146	0	1	10	87	0.59
1264220--1264301	9	9.4	9	88	7	125	0	1	10	87	0.59
1271182--1271327	51	2.9	51	80	7	167	35	13	23	26	1.93
1271098--1271248	79	1.9	78	79	5	162	33	14	24	27	1.94
1271315--1271612	79	3.8	79	86	4	424	32	14	25	27	1.95
1271284--1271661	155	2.4	155	90	3	580	33	14	25	26	1.94
1274015--1274056	21	2.0	21	100	0	84	28	19	9	42	1.82
1274077--1274141	17	4.0	16	72	23	64	35	15	12	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274073--1274143	32	2.3	31	90	4	108	33	15	12	38	1.85
1281103--1281275	79	2.2	79	83	3	206	31	12	25	30	1.93
1281231--1281328	28	3.5	28	77	10	110	24	21	30	23	1.99
1281283--1281455	79	2.2	76	86	3	238	29	17	28	24	1.97
1281392--1281610	51	4.4	50	76	5	219	33	13	26	27	1.93
1281414--1281609	102	1.9	102	89	2	304	34	12	25	28	1.92
1283907--1283976	33	2.1	33	86	5	97	40	11	18	30	1.86
1283938--1283993	20	2.8	20	89	7	87	42	16	16	25	1.87
1283927--1283956	13	2.3	13	94	0	51	40	10	16	33	1.82
1284022--1284076	20	2.8	20	91	0	83	43	14	16	25	1.86

Tables:   1   2   3   4   5   6   7   8