genome.fa.s59.2.7.7.80.10.50.1000.6.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  6  of  25  ( 2913 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)
985118--985159	18	2.3	19	88	12	61	66	2	0	30	1.04
985034--985165	69	1.9	71	81	9	164	55	1	0	43	1.09
985049--985159	19	6.2	18	72	14	63	58	1	0	39	1.09
990645--990694	23	2.2	22	89	6	82	58	2	2	38	1.21
990646--990700	23	2.4	23	87	6	76	58	3	1	36	1.26
998490--998561	36	2.0	36	100	0	144	13	27	16	41	1.87
1004755--1004785	2	15.5	2	100	0	62	48	0	0	51	1.00
1007275--1007312	20	2.0	18	90	10	58	55	0	0	44	0.99
1007990--1008023	15	2.3	15	89	0	50	29	0	5	64	1.17
1009392--1009426	2	17.5	2	93	0	61	45	0	2	51	1.16
1009816--1009868	25	2.2	25	86	3	72	41	1	3	52	1.30
1009827--1009875	25	2.0	25	91	0	80	42	0	0	57	0.99
1011244--1011284	19	2.2	19	90	0	64	29	0	2	68	1.03
1015621--1015666	24	2.0	22	83	8	56	43	2	4	50	1.34
1018379--1018416	17	2.2	18	85	4	51	36	2	0	60	1.11
1019556--1019596	2	20.5	2	100	0	82	48	0	0	51	1.00
1020409--1020444	2	18.0	2	100	0	72	50	0	0	50	1.00
1022981--1023156	85	2.1	86	97	1	336	36	13	7	42	1.73
1032200--1032251	25	2.1	25	85	0	68	25	1	1	71	1.07
1032328--1032379	17	3.1	16	72	8	50	40	1	0	57	1.10
1032326--1032395	33	2.1	34	86	7	99	42	2	0	54	1.15
1032336--1032408	33	2.2	34	85	2	94	39	2	0	57	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037253--1037296	17	2.4	18	85	11	54	40	0	0	59	0.98
1037256--1037302	19	2.5	19	80	16	53	42	0	0	57	0.98
1037329--1037363	16	2.3	15	95	5	61	57	0	0	42	0.99
1038083--1038112	15	2.0	15	93	0	51	56	0	3	40	1.16
1038638--1038680	4	10.8	4	85	9	61	0	20	4	74	1.00
1038640--1038680	16	2.5	17	92	7	68	0	21	4	73	1.02
1039668--1039739	33	2.2	33	80	7	76	44	0	0	55	0.99
1039979--1040015	14	2.6	15	87	8	51	10	21	0	67	1.21
1040274--1040308	17	2.1	17	94	0	61	25	20	8	45	1.79
1042959--1043031	37	1.9	38	83	10	96	46	2	4	46	1.36
1043545--1043613	26	2.7	26	75	20	74	47	1	1	49	1.19
1045870--1045978	32	3.4	32	71	17	93	33	0	2	63	1.15
1046073--1046157	24	3.4	23	71	20	64	30	5	1	62	1.26
1046120--1046154	12	3.0	12	87	4	54	31	0	0	68	0.90
1046250--1046301	21	2.6	21	85	8	65	71	0	28	0	0.87
1046400--1046445	21	2.3	21	85	7	60	21	6	8	63	1.46
1046603--1046648	21	2.2	21	88	0	65	76	0	19	4	0.96
1046625--1046667	13	3.3	13	76	0	50	79	0	18	2	0.85
1046730--1046788	31	1.9	31	82	6	75	32	6	1	59	1.34
1047032--1047064	16	2.0	17	94	5	59	72	0	0	27	0.85
1047200--1047235	15	2.5	14	91	8	63	86	0	13	0	0.58
1047315--1047374	22	2.6	22	82	15	68	40	6	0	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047308--1047389	12	6.9	12	72	10	62	36	6	2	54	1.38
1048582--1048621	14	2.8	15	85	11	57	30	0	0	70	0.88
1050015--1050095	41	2.0	41	100	0	162	22	18	4	54	1.63
1053750--1053797	16	3.0	16	78	6	53	29	0	0	70	0.87
1055861--1055894	6	5.7	6	92	0	50	20	2	44	32	1.67
1065088--1065117	14	2.1	14	93	0	51	16	0	23	60	1.36
1065856--1065880	12	2.1	12	100	0	50	76	0	0	24	0.80
1068047--1068079	2	16.5	2	100	0	66	0	48	0	51	1.00
1068079--1068103	2	12.5	2	100	0	50	48	0	0	52	1.00
1070390--1070418	2	14.5	2	100	0	58	48	0	0	51	1.00
1070499--1070584	44	2.0	43	95	2	154	51	16	8	24	1.71
1070615--1070652	3	12.7	3	100	0	76	68	31	0	0	0.90
1070651--1070698	3	16.0	3	100	0	96	66	0	0	33	0.92
1072363--1072388	4	6.5	4	100	0	52	0	0	46	53	1.00
1072608--1072667	27	2.3	25	76	15	68	50	1	0	48	1.11
1073401--1073442	12	3.6	12	77	6	50	69	2	2	26	1.13
1073649--1073700	23	2.3	23	82	0	59	71	7	1	19	1.20
1073702--1073743	9	4.9	9	80	11	52	0	21	0	78	0.75
1073858--1073891	13	2.6	13	85	0	50	82	0	0	17	0.67
1074299--1074342	15	2.9	15	77	12	54	0	20	2	77	0.88
1074460--1074498	20	2.0	21	85	14	57	41	0	0	58	0.98
1074456--1074523	25	2.6	25	75	13	75	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074751--1074805	28	2.0	28	89	10	87	36	1	0	61	1.06
1074756--1074816	28	2.2	28	82	11	72	40	1	0	57	1.08
1075387--1075442	28	1.9	30	85	7	80	28	0	7	64	1.20
1075377--1075442	30	2.4	28	83	14	77	31	0	6	62	1.20
1076722--1076763	18	2.3	19	83	4	59	54	0	0	45	0.99
1081143--1081194	22	2.3	22	83	9	61	42	0	3	53	1.19
1081142--1081196	16	3.6	15	76	16	51	41	0	3	54	1.18
1081673--1081754	11	7.1	12	72	12	73	65	0	1	32	1.00
1081673--1081752	23	3.5	23	77	10	74	65	0	1	33	1.01
1081691--1081754	23	2.8	24	86	9	89	68	0	0	31	0.90
1082195--1082237	13	2.8	17	76	23	58	48	0	0	51	1.00
1082264--1082304	22	2.0	19	86	13	55	65	0	0	34	0.93
1087636--1087685	16	2.9	17	74	14	50	40	0	0	60	0.97
1088272--1088310	16	2.5	15	84	12	51	30	0	0	69	0.89
1088326--1088397	28	2.5	28	77	8	74	50	1	0	48	1.09
1088812--1088874	26	2.3	26	81	8	72	46	0	0	53	1.00
1089283--1089340	22	2.6	23	86	8	84	46	0	0	53	1.00
1089271--1089336	19	3.3	19	76	23	64	46	0	0	53	1.00
1089289--1089350	23	2.8	22	85	4	63	45	1	1	51	1.20
1089877--1089911	15	2.2	17	90	10	56	51	0	0	48	1.00
1093963--1093988	13	2.0	13	100	0	52	23	15	15	46	1.83
1097502--1097548	22	2.3	21	82	13	62	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100042--1100067	9	2.9	9	100	0	52	42	0	0	57	0.98
1100169--1100208	12	3.3	12	85	0	53	35	0	0	65	0.93
1100434--1100502	30	2.3	30	84	0	93	42	2	2	52	1.31
1100447--1100520	27	2.6	29	79	12	73	47	1	1	50	1.18
1109123--1109186	2	32.5	2	85	3	67	39	0	6	54	1.26
1109994--1110030	18	2.1	18	94	0	65	37	5	24	32	1.78
1111079--1111109	15	2.0	16	93	6	55	41	0	0	58	0.98
1115787--1115829	19	2.3	18	80	11	50	34	0	0	65	0.93
1116520--1116554	2	18.0	2	94	5	63	51	0	0	48	1.00
1120798--1120858	18	3.6	18	69	22	60	45	0	0	54	1.00
1120792--1120869	32	2.3	34	80	14	99	42	0	0	57	0.98
1120867--1120946	28	2.7	28	78	9	79	63	0	0	36	0.94
1120875--1120937	28	2.2	28	83	8	83	63	0	0	36	0.95
1121338--1121365	8	3.5	8	100	0	56	42	0	0	57	0.99
1121320--1121379	16	3.5	18	78	15	65	48	0	0	51	1.00
1121336--1121398	25	2.4	25	80	15	67	46	0	1	52	1.10
1122916--1122958	2	21.5	2	95	0	77	48	0	2	48	1.14
1127431--1127460	2	15.0	2	100	0	60	50	0	0	50	1.00
1127834--1127872	20	2.0	20	84	0	51	46	10	2	41	1.51
1129577--1129607	2	15.5	2	100	0	62	51	0	0	48	1.00
1137864--1137895	14	2.1	16	88	11	50	56	0	0	43	0.99
1138932--1138970	20	1.9	21	84	5	53	41	0	2	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139383--1139423	13	3.1	13	89	3	55	48	0	0	51	1.00
1142675--1142700	2	13.0	2	100	0	52	50	0	0	50	1.00
1148959--1149006	21	2.5	19	80	10	53	37	6	0	56	1.25
1149354--1149397	17	2.8	16	80	10	54	56	0	4	38	1.20
1149380--1149430	19	2.6	20	87	9	70	62	0	5	31	1.19
1149812--1149899	40	2.3	39	84	9	110	51	0	0	48	1.00
1152929--1152963	15	2.3	15	90	0	52	48	0	2	48	1.16
1155368--1155412	17	2.6	18	83	13	51	42	0	2	55	1.12
1155498--1155524	14	1.9	14	100	0	54	37	0	0	62	0.95
1157749--1157782	2	17.0	2	100	0	68	0	50	0	50	1.00

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