genome.fa.s4401.2.7.7.80.10.50.1000.4.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: scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2008648

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 759 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)
987749--987857	17	6.5	17	75	14	68	77	7	1	13	1.07
990500--990592	32	2.9	32	91	3	152	38	15	17	29	1.90
998374--998402	15	1.9	15	100	0	58	3	48	0	48	1.18
999109--999256	27	5.5	27	87	0	197	43	20	18	16	1.87
999087--999256	81	2.1	81	86	2	234	45	21	17	15	1.85
999451--999501	26	2.0	26	92	0	84	21	25	17	35	1.95
999610--999719	28	4.0	28	86	1	159	23	24	21	30	1.99
1000976--1001000	5	5.0	5	100	0	50	60	0	0	40	0.97
1002390--1002469	13	5.7	14	76	16	60	58	7	0	33	1.26
1002405--1002470	13	4.9	13	78	14	80	57	7	0	34	1.27
1002390--1002470	41	2.0	41	100	0	162	58	7	0	34	1.26
1005440--1005704	33	8.0	33	83	2	318	29	18	20	31	1.97
1011447--1011480	5	6.8	5	100	0	68	20	58	0	20	1.39
1013858--1014001	27	5.3	26	89	6	171	38	20	20	20	1.94
1013858--1014001	54	2.7	54	87	2	191	38	20	20	20	1.94
1015739--1015882	27	5.3	26	89	6	171	38	20	20	20	1.94
1015739--1015882	54	2.7	54	87	2	191	38	20	20	20	1.94
1022235--1022685	27	16.7	27	82	6	423	45	19	17	17	1.86
1022235--1022684	81	5.6	80	83	5	521	45	20	17	17	1.86
1027774--1027827	20	2.7	20	88	0	72	16	20	3	59	1.52
1028516--1028784	138	2.0	137	82	5	337	35	26	18	20	1.95
1033979--1034038	27	2.3	26	88	2	84	35	16	25	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034111--1034160	24	2.1	24	85	7	66	22	10	20	48	1.79
1034306--1034408	26	4.0	26	87	2	136	14	22	25	37	1.92
1040450--1040587	67	2.1	67	87	0	195	22	36	22	18	1.95
1040457--1040608	67	2.3	67	84	2	189	21	36	23	19	1.95
1043746--1043787	20	2.2	19	87	12	59	16	21	7	54	1.65
1045295--1045336	20	2.2	19	87	12	59	16	21	4	57	1.58
1046841--1046884	20	2.2	20	88	8	63	18	20	6	54	1.66
1047859--1047903	23	2.0	23	82	8	56	42	15	2	40	1.59
1048440--1048481	20	2.2	19	87	12	59	16	21	4	57	1.58
1050050--1050087	20	1.9	20	89	10	60	15	18	7	57	1.62
1051527--1051560	17	1.9	18	88	5	52	26	11	35	26	1.91
1051710--1052143	27	16.1	27	81	0	476	41	21	17	18	1.90
1051710--1052144	161	2.7	161	81	4	464	41	21	17	18	1.90
1054311--1054352	12	3.5	12	75	12	50	33	0	42	23	1.55
1054967--1055429	27	17.2	27	76	2	410	43	22	16	18	1.88
1055830--1055889	29	2.0	32	83	9	81	28	15	15	41	1.86
1057033--1057057	8	3.1	8	100	0	50	52	24	12	12	1.72
1061184--1061225	20	2.2	19	87	12	59	16	21	4	57	1.58
1062121--1062149	2	14.5	2	100	0	58	51	0	0	48	1.00
1066923--1066992	16	4.3	16	72	3	59	48	11	17	22	1.79
1068912--1068941	15	1.9	16	93	6	53	10	13	0	76	1.01
1073025--1073163	45	3.1	45	78	0	143	28	13	23	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082135--1082210	37	2.0	38	97	2	145	23	10	18	47	1.79
1082949--1083006	18	3.3	18	79	13	57	37	10	15	36	1.82
1087890--1087931	12	3.5	12	77	9	50	78	2	11	7	1.04
1090847--1090871	13	1.9	13	100	0	50	32	32	16	20	1.94
1093917--1093945	11	2.6	11	100	0	58	48	0	0	51	1.00
1093955--1094234	143	2.0	143	91	0	452	20	18	28	32	1.96
1094716--1094762	17	2.7	18	87	6	62	23	36	4	36	1.75
1099449--1099574	63	2.0	63	98	0	243	26	14	21	38	1.91
1105336--1105383	24	1.9	26	87	8	73	27	18	6	47	1.72
1109005--1109058	27	2.0	27	85	0	72	20	20	24	35	1.96
1109014--1109225	27	7.9	27	82	2	264	22	18	18	41	1.91
1109014--1109225	82	2.6	82	83	1	266	22	18	18	41	1.91
1118121--1118159	21	1.9	20	84	5	51	15	12	20	51	1.76
1118321--1118346	10	2.6	10	100	0	52	11	34	7	46	1.69
1139195--1139265	35	2.0	35	97	0	133	25	12	30	30	1.93
1143209--1143281	25	2.9	24	77	6	65	17	24	21	35	1.95
1143258--1143325	25	2.7	25	75	8	75	27	20	19	32	1.97
1151867--1151915	19	2.6	19	83	6	64	61	8	2	28	1.36
1151867--1151915	18	2.6	17	81	12	53	61	8	2	28	1.36
1152121--1152231	19	5.7	18	68	20	64	32	3	4	59	1.35
1152121--1152231	18	5.7	19	73	11	91	32	3	4	59	1.35
1152363--1152419	28	2.0	29	96	3	107	47	3	7	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157928--1157982	21	2.6	21	91	0	92	21	9	40	29	1.84
1158068--1158120	16	3.3	16	75	19	65	47	1	13	37	1.54
1158062--1158126	32	2.0	32	100	0	130	43	3	12	41	1.58
1158277--1158328	22	2.3	22	77	9	52	50	5	1	42	1.37
1167526--1167590	28	2.3	28	89	2	94	38	3	0	58	1.14
1167948--1167994	21	2.1	23	84	7	62	40	0	0	59	0.97
1168519--1168561	15	2.7	16	82	10	52	67	4	0	27	1.10
1170341--1170420	23	3.4	23	89	1	115	23	25	7	43	1.79
1170626--1170675	9	5.6	9	90	0	73	44	22	8	26	1.80
1170626--1170683	18	3.2	18	87	0	80	41	22	8	27	1.83
1170626--1170683	9	6.5	8	86	7	53	41	22	8	27	1.83
1170888--1170963	38	2.0	39	92	2	127	21	2	22	53	1.57
1170912--1171022	52	2.2	52	93	1	188	18	1	32	47	1.59
1171002--1171037	17	2.1	18	94	5	65	11	0	50	38	1.38
1171017--1171049	12	2.8	12	95	0	57	15	0	42	42	1.46
1172329--1172704	35	10.4	35	76	10	287	39	14	20	25	1.91
1172329--1172710	144	2.6	143	79	8	391	38	14	20	26	1.91
1172329--1172710	72	5.3	73	77	7	309	38	14	20	26	1.91
1173143--1173193	24	2.2	24	85	3	68	50	11	1	35	1.50
1178618--1178665	24	2.0	24	87	0	69	14	20	8	56	1.64
1178632--1178773	40	3.5	40	87	5	189	21	22	5	50	1.70
1181809--1181898	12	7.5	12	76	0	99	17	33	37	11	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181809--1181907	24	4.1	24	100	0	198	18	33	36	12	1.88
1183802--1183838	11	3.5	11	92	3	58	18	0	5	75	0.99
1184046--1184151	52	2.0	52	94	0	185	56	8	8	26	1.58
1184583--1184714	63	2.1	63	79	0	138	28	9	31	30	1.89
1186803--1186865	25	2.5	25	86	0	90	26	23	22	26	2.00
1186783--1186874	25	3.7	24	75	8	85	26	21	22	29	1.99
1189450--1189479	15	2.0	15	93	0	51	56	0	23	20	1.42
1189496--1189545	22	2.3	22	82	0	64	54	0	10	36	1.34
1189551--1189591	7	5.9	7	97	0	64	34	0	29	36	1.58
1190028--1190062	12	2.8	12	86	4	52	2	14	0	82	0.77
1190660--1190761	40	2.5	40	93	0	177	36	23	17	22	1.95
1191300--1191352	26	1.9	28	88	11	83	20	11	13	54	1.69
1192008--1192050	19	2.3	19	83	0	50	32	2	9	55	1.44
1196171--1196212	19	2.2	19	86	0	57	28	7	0	64	1.20
1200444--1200541	40	2.5	40	91	0	160	27	23	19	29	1.98
1202660--1202725	24	2.8	24	78	0	69	53	28	1	16	1.52
1216339--1216398	30	2.0	30	93	0	102	56	16	3	23	1.55
1217523--1217580	7	8.4	7	76	3	55	77	0	1	20	0.86
1241238--1241273	18	2.1	18	89	5	56	22	2	5	69	1.22
1245886--1245920	12	2.7	13	86	13	54	48	0	17	34	1.47
1245633--1245946	159	2.0	154	88	7	459	39	6	18	36	1.76
1246876--1246924	16	3.1	16	81	18	59	65	0	2	32	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247312--1247348	15	2.5	15	86	0	56	75	0	2	21	0.92
1252168--1252244	26	3.0	26	88	0	118	38	22	22	16	1.93
1252385--1252443	27	2.2	27	84	0	73	23	16	22	37	1.94
1252395--1252454	27	2.2	27	93	0	102	16	16	21	45	1.86
1252671--1252725	20	2.8	20	97	0	101	16	36	23	23	1.94
1254881--1254918	20	1.9	20	88	0	58	52	0	10	36	1.36
1256426--1256508	23	3.5	24	85	3	98	21	15	21	40	1.90
1256722--1256785	24	2.7	24	87	2	85	29	15	17	37	1.91
1256702--1256796	23	4.1	23	77	8	102	31	11	16	40	1.85
1258939--1258964	12	2.2	12	100	0	52	11	7	7	73	1.26

Tables:   1   2   3   4   5   6   7