genome.fa.s1432.2.7.7.80.10.50.1000.4.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: scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  1915636

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 644 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)
983439--983481	21	2.1	21	86	4	61	39	13	27	18	1.89
983460--983601	51	2.8	51	84	0	194	30	16	22	29	1.96
983645--983816	44	3.9	44	77	2	168	31	19	21	27	1.97
983648--983807	88	1.8	87	86	6	234	30	19	21	28	1.98
983735--983830	44	2.2	44	82	0	111	31	18	20	29	1.97
983936--984049	44	2.6	44	91	2	176	28	16	22	32	1.96
983689--984290	242	2.5	242	88	1	841	30	18	20	29	1.97
983931--985051	287	3.9	288	89	2	1729	30	18	20	30	1.96
984467--984631	44	3.8	44	90	0	222	29	16	22	30	1.96
983936--985103	573	2.0	573	92	0	1917	30	18	20	30	1.96
984746--984915	44	3.8	44	80	6	155	31	20	19	28	1.97
984837--984932	44	2.2	44	86	3	131	31	16	18	33	1.94
986502--986532	16	1.9	16	93	0	53	35	0	3	61	1.12
994274--994309	18	2.0	18	100	0	72	33	22	22	22	1.97
997939--998029	42	2.2	42	80	7	96	25	26	23	25	2.00
998390--998443	26	2.1	26	100	0	108	40	22	7	29	1.81
998641--998695	27	2.0	27	100	0	110	49	10	21	18	1.78
998650--998695	15	3.3	15	70	17	53	45	8	23	21	1.80
1002591--1002632	11	3.8	11	78	12	50	80	4	11	2	0.95
1002578--1002630	22	2.5	22	84	3	63	77	3	13	5	1.09
1013695--1013808	38	3.0	38	87	5	158	40	29	17	12	1.86
1026034--1026067	3	11.3	3	100	0	68	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026115--1026148	3	11.3	3	100	0	68	67	0	0	32	0.91
1026006--1026164	81	2.1	74	89	8	237	55	3	6	29	1.41
1040512--1040545	14	2.4	14	90	5	50	79	0	0	20	0.73
1040520--1040545	7	3.7	7	100	0	52	76	0	0	23	0.78
1044551--1044584	14	2.2	16	90	10	54	52	0	0	47	1.00
1044579--1044786	85	2.4	86	82	9	264	34	11	11	42	1.76
1044712--1044973	84	3.1	86	78	10	231	34	10	9	45	1.72
1052728--1052773	20	2.3	20	88	7	67	34	0	0	65	0.93
1054858--1055137	139	2.0	140	99	0	553	27	16	22	32	1.96
1066230--1066272	22	1.9	24	81	13	56	58	2	6	32	1.38
1075413--1075475	31	2.0	31	100	0	126	19	19	6	55	1.63
1078429--1078597	9	18.4	9	69	17	82	33	1	4	60	1.26
1078465--1078597	9	14.3	9	72	17	87	34	1	3	60	1.21
1078465--1078597	19	7.2	18	69	18	69	34	1	3	60	1.21
1078560--1078589	15	1.9	16	93	6	53	23	0	0	76	0.78
1079087--1079119	16	2.1	16	88	11	50	51	0	0	48	1.00
1081524--1081562	18	2.3	16	86	8	51	35	20	7	35	1.81
1081690--1081726	18	2.1	18	94	0	65	13	21	8	56	1.63
1083905--1084140	50	4.8	50	82	8	254	22	30	21	25	1.99
1086319--1086355	19	2.0	19	89	5	58	29	2	10	56	1.47
1087857--1087908	20	2.6	19	85	11	68	38	15	11	34	1.83
1088780--1088855	28	2.9	27	83	9	88	53	18	11	15	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093899--1094057	27	5.9	27	75	7	128	35	20	18	25	1.96
1093928--1094057	54	2.4	54	81	10	158	36	20	18	25	1.95
1098707--1098776	28	2.5	28	88	0	95	31	12	25	30	1.93
1099514--1099783	23	11.5	23	72	6	200	25	16	15	42	1.87
1099512--1099800	71	4.1	71	84	5	334	25	15	16	42	1.87
1099512--1099856	71	4.9	71	80	5	270	26	14	17	41	1.88
1106114--1106237	30	4.1	30	91	0	194	32	9	16	41	1.80
1106114--1106257	30	4.7	32	87	5	174	31	9	15	43	1.79
1111574--1112141	50	11.4	50	68	8	282	32	22	20	25	1.98
1111579--1112141	98	5.7	100	84	2	652	31	22	20	25	1.98
1113610--1113687	3	25.7	3	73	7	59	32	7	1	58	1.34
1113624--1113687	15	4.3	15	78	7	67	32	9	1	56	1.41
1116702--1116914	118	1.8	119	88	9	330	39	11	4	44	1.60
1117041--1117084	19	2.4	19	88	7	65	40	13	0	45	1.44
1119091--1119173	39	2.1	39	95	0	148	36	18	18	27	1.94
1124928--1125007	3	26.3	3	73	7	63	60	1	7	31	1.33
1131629--1131687	29	2.0	30	83	9	77	62	5	13	18	1.48
1137256--1137318	21	3.1	21	90	9	112	38	14	9	38	1.78
1137256--1137319	19	3.3	19	95	4	110	37	15	9	37	1.80
1137256--1137329	19	3.9	18	89	7	60	36	16	10	36	1.83
1138117--1138492	44	8.7	44	83	8	468	28	25	18	27	1.98
1138117--1138492	170	2.2	170	85	8	501	28	25	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138117--1138452	126	2.6	126	90	4	496	28	25	18	27	1.98
1138506--1138776	88	3.1	88	92	0	425	19	24	27	28	1.99
1138712--1138833	57	2.1	57	86	3	165	19	26	25	28	1.99
1138536--1139008	232	2.0	233	89	1	716	18	24	28	28	1.98
1138769--1139301	88	6.1	88	87	0	762	20	24	28	27	1.99
1138807--1139032	44	5.2	44	62	13	124	18	23	31	26	1.97
1146253--1146310	22	2.6	22	84	7	73	43	17	3	36	1.66
1146266--1146344	21	3.8	19	80	12	77	39	16	7	36	1.77
1146300--1146343	21	2.1	21	100	0	88	38	13	9	38	1.77
1148169--1148217	3	16.3	3	91	8	82	34	0	0	65	0.93
1148539--1148578	18	2.2	18	86	0	53	40	0	0	60	0.97
1149873--1149907	16	2.2	16	89	0	52	17	14	20	48	1.81
1152527--1152601	1	75.0	1	70	0	51	85	8	5	1	0.80
1152527--1152601	16	4.6	15	78	15	78	85	8	5	1	0.80
1152527--1152599	24	3.0	24	80	11	85	84	8	5	1	0.81
1152527--1152602	10	7.6	10	75	10	59	84	9	5	1	0.83
1153091--1153144	15	3.6	16	76	19	62	66	0	16	16	1.25
1154511--1155136	50	12.5	49	69	5	365	28	23	26	21	1.99
1154511--1155179	100	6.7	100	91	0	1043	28	23	26	21	1.99
1156627--1156731	3	35.7	3	79	11	119	32	0	2	63	1.15
1181754--1181787	10	3.3	10	88	8	50	44	0	0	55	0.99
1184067--1184100	16	2.1	16	88	0	50	52	0	2	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187380--1187436	25	2.3	25	79	8	64	22	17	17	42	1.89
1194540--1194606	26	2.6	26	83	4	73	20	23	22	32	1.98
1194557--1194628	26	2.8	26	83	6	76	16	26	20	36	1.94
1201992--1202030	19	2.1	19	95	0	69	43	17	5	33	1.72
1213002--1213037	16	2.2	16	95	0	63	66	2	5	25	1.27
1213076--1213113	18	2.1	18	95	0	67	34	0	36	28	1.58
1215825--1216460	318	2.0	318	100	0	1272	35	9	11	43	1.73
1216523--1216573	10	5.0	10	75	13	50	7	9	1	80	0.98
1216815--1216859	22	2.1	22	83	4	56	73	2	13	11	1.19
1219251--1220024	100	7.7	100	87	1	1071	23	25	22	28	1.99
1224396--1224442	15	3.1	15	85	11	69	12	19	0	68	1.21
1224396--1224434	8	5.1	8	81	12	55	12	20	0	66	1.24
1224948--1224993	23	1.9	24	91	8	76	2	4	10	82	0.89
1224948--1225037	6	15.0	6	73	17	71	1	3	15	80	0.91
1224948--1225037	25	3.7	25	80	15	82	1	3	15	80	0.91
1230916--1230998	19	4.4	18	72	18	64	65	2	3	28	1.22
1235697--1235748	20	2.6	20	78	9	61	65	3	0	30	1.10
1235726--1235766	16	2.6	16	88	3	57	63	2	0	34	1.08
1237110--1237143	15	2.2	16	89	5	52	26	8	0	64	1.22
1242785--1242819	2	17.5	2	100	0	70	48	51	0	0	1.00
1252402--1252476	39	1.9	39	97	0	141	36	12	20	32	1.89
1253575--1253608	12	2.8	12	100	0	68	23	0	17	58	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258346--1258398	26	2.0	26	100	0	106	43	22	15	18	1.87
1261431--1261464	2	17.0	2	100	0	68	0	50	0	50	1.00
1263647--1263688	22	1.9	22	90	0	66	11	7	9	71	1.31
1263813--1264015	101	2.0	102	99	0	399	45	2	5	45	1.42
1264763--1264807	21	2.1	21	95	0	81	15	28	4	51	1.63
1272033--1272108	20	3.8	20	79	10	91	30	13	6	50	1.67
1276368--1276491	54	2.3	55	80	4	144	25	27	25	20	1.99
1312844--1312869	12	2.2	12	100	0	52	92	7	0	0	0.39
1316494--1316541	17	2.9	17	81	3	62	75	0	10	14	1.06
1316768--1316821	27	2.0	27	100	0	108	37	3	18	40	1.69

Tables:   1   2   3   4   5   6