genome.fa.s163.2.7.7.80.10.50.1000.8.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: Scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1788591

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1505 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)
982579--982629	26	2.0	26	92	0	84	41	0	3	54	1.19
984139--984190	23	2.3	23	82	0	68	26	3	1	67	1.18
986340--986364	13	1.9	13	100	0	50	32	16	16	36	1.90
986373--986493	52	2.3	52	97	0	224	34	18	18	28	1.94
992866--992900	12	2.9	12	88	12	54	57	0	42	0	0.99
993187--993217	12	2.7	12	95	5	55	54	6	0	38	1.26
993250--993290	21	1.9	22	85	5	57	58	14	2	24	1.49
993340--993372	11	2.8	12	81	9	50	51	0	0	48	1.00
994527--994567	22	2.0	22	85	9	59	41	0	0	58	0.98
996588--996659	21	3.6	21	75	12	53	47	0	13	38	1.44
996798--996891	25	3.7	24	80	18	93	46	3	3	46	1.34
997176--997211	14	2.4	15	90	9	56	75	0	16	8	1.04
998761--998798	15	2.4	17	83	16	55	44	0	0	55	0.99
1000735--1000781	19	2.4	19	79	10	51	34	2	0	63	1.06
1001304--1001345	20	2.0	20	86	9	57	45	2	0	52	1.13
1003706--1003739	17	1.9	18	88	5	52	44	0	2	52	1.16
1003969--1003996	3	9.3	3	100	0	56	67	0	0	32	0.91
1004236--1004276	3	13.7	3	100	0	82	0	31	0	68	0.90
1004379--1004425	24	2.0	24	95	0	85	25	17	17	40	1.90
1005290--1005314	13	1.9	13	100	0	50	8	12	0	80	0.92
1005754--1005804	15	3.6	14	74	10	50	45	1	1	50	1.24
1005876--1005924	24	2.0	26	84	8	66	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005863--1005942	15	5.1	17	69	26	61	43	0	0	56	0.99
1005876--1005944	24	2.8	24	76	18	63	42	0	0	57	0.98
1005905--1005965	20	2.9	21	80	4	61	42	0	0	57	0.98
1005908--1005964	14	3.9	15	71	19	50	40	0	0	59	0.97
1005881--1005944	8	8.0	8	71	13	51	40	0	0	59	0.97
1011769--1011820	2	27.0	2	84	7	72	53	0	0	46	1.00
1011839--1011866	13	2.2	13	100	0	56	50	0	0	50	1.00
1012253--1012282	2	15.0	2	100	0	60	0	50	0	50	1.00
1013469--1013506	18	2.2	18	86	9	53	44	0	7	47	1.32
1013514--1013550	14	2.6	14	91	4	56	48	0	0	51	1.00
1014576--1014626	19	2.9	18	80	11	61	35	0	0	64	0.94
1016269--1016307	19	2.1	19	100	0	78	53	5	0	41	1.23
1016550--1016599	24	2.0	24	81	11	57	32	0	4	64	1.12
1016783--1016841	21	2.8	20	80	7	73	40	0	16	42	1.49
1019205--1019430	125	1.8	124	90	2	364	38	15	8	38	1.77
1020203--1020237	2	18.0	2	94	5	63	48	0	0	51	1.00
1021112--1021136	2	12.5	2	100	0	50	52	0	0	48	1.00
1023728--1023801	34	2.3	34	82	17	97	59	0	0	40	0.97
1023866--1023912	24	2.0	24	91	4	78	53	2	0	44	1.12
1023852--1023914	24	2.9	22	82	13	76	50	1	0	47	1.10
1024147--1024217	26	2.8	24	74	18	63	63	0	0	36	0.95
1025177--1025203	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026011--1026073	21	2.8	24	71	22	64	46	0	0	53	1.00
1026030--1026059	15	1.9	16	93	6	53	53	0	0	46	1.00
1026581--1026616	17	2.1	17	89	0	54	19	8	8	63	1.47
1027891--1027952	20	3.2	20	76	15	69	54	0	0	45	0.99
1029234--1029301	23	3.0	25	77	16	67	58	0	2	38	1.13
1029474--1029513	21	1.9	21	90	10	64	37	0	0	62	0.95
1029465--1029556	46	1.9	49	82	10	120	50	0	0	50	1.00
1029719--1029822	8	12.9	8	68	24	51	58	0	0	41	0.98
1029745--1029822	31	2.6	30	77	16	90	56	0	0	43	0.99
1029734--1029836	32	3.2	31	80	12	93	55	0	0	44	0.99
1030228--1030257	15	1.9	16	93	6	53	13	3	0	83	0.77
1030314--1030379	22	3.0	22	77	14	66	51	0	0	48	1.00
1030363--1030439	31	2.4	32	85	10	97	49	0	1	49	1.09
1030372--1030470	29	3.4	28	80	13	87	49	0	1	49	1.07
1030606--1030641	2	18.0	2	94	0	63	47	0	2	50	1.15
1031149--1031213	24	2.6	25	77	15	64	47	0	1	50	1.10
1032044--1032100	18	3.1	18	78	11	62	52	1	0	45	1.11
1032905--1032951	22	2.2	21	85	7	60	48	2	2	46	1.25
1033116--1033156	15	2.7	16	77	11	50	56	0	2	41	1.13
1034456--1034493	17	2.2	18	85	4	51	42	31	0	26	1.56
1038400--1038464	32	2.0	33	87	3	96	33	10	15	40	1.82
1038507--1038534	13	2.2	13	100	0	56	28	14	17	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048969--1049185	83	2.6	80	78	8	220	41	10	12	35	1.77
1049329--1049404	21	3.6	21	72	10	66	43	17	1	38	1.57
1051730--1052234	246	2.0	250	94	3	892	42	10	9	37	1.72
1052986--1053044	26	2.3	26	90	0	91	42	11	6	38	1.68
1058647--1058707	19	3.3	19	77	15	65	47	0	0	52	1.00
1058657--1058740	41	2.0	41	84	4	107	45	1	0	53	1.08
1059348--1059372	2	12.5	2	100	0	50	48	0	0	52	1.00
1060020--1060077	14	4.1	14	75	16	50	43	1	0	55	1.10
1060012--1060077	28	2.4	28	78	12	66	43	3	0	53	1.16
1060585--1060625	13	3.2	12	83	10	55	80	9	0	9	0.91
1061014--1061043	12	2.4	13	94	5	53	43	0	0	56	0.99
1061334--1061382	23	2.0	24	85	14	66	73	0	0	26	0.83
1062067--1062093	14	1.9	14	100	0	54	29	3	0	66	1.09
1064965--1065010	2	23.0	2	95	0	83	50	2	0	47	1.13
1067913--1067979	22	3.0	22	68	10	55	37	0	7	55	1.28
1068682--1068745	28	2.2	29	81	13	78	53	7	1	37	1.40
1069047--1069098	21	2.5	21	73	14	54	28	3	5	61	1.37
1069161--1069226	22	3.1	22	65	12	57	42	3	1	53	1.25
1069769--1069808	21	1.9	21	90	10	64	62	0	0	37	0.95
1072560--1072674	15	7.9	15	76	9	112	10	20	31	37	1.87
1072559--1072672	29	3.9	29	92	0	174	10	21	30	36	1.88
1072879--1072924	16	2.9	16	96	0	83	23	32	26	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072913--1072977	34	1.9	34	100	0	130	24	32	15	27	1.95
1080319--1080398	38	2.1	38	97	0	151	36	13	12	37	1.83
1083001--1083383	193	2.0	193	97	0	730	35	17	16	31	1.92
1084170--1084208	14	2.6	15	88	8	53	5	20	12	61	1.50
1089810--1089876	33	2.0	33	94	5	118	22	2	28	46	1.66
1092203--1092241	19	2.1	19	100	0	78	43	25	5	25	1.75
1094467--1094514	22	2.2	22	81	7	53	43	10	4	41	1.58
1097553--1097583	2	15.5	2	100	0	62	51	0	48	0	1.00
1099696--1099741	24	1.9	24	86	0	65	47	0	6	45	1.28
1099722--1099766	6	7.3	6	85	9	56	37	0	2	60	1.09
1099706--1099768	24	2.7	24	78	9	76	42	0	3	53	1.16
1099691--1099748	29	2.0	29	86	6	82	48	0	5	46	1.24
1100119--1100153	3	11.7	3	100	0	70	68	0	0	31	0.90
1102184--1102208	13	1.9	13	100	0	50	36	16	16	32	1.90
1102164--1102230	33	2.0	33	88	0	98	32	11	14	40	1.83
1102304--1102432	52	2.5	52	87	5	188	34	19	15	30	1.93
1107425--1107475	21	2.4	21	96	0	93	58	13	17	9	1.61
1111994--1112027	15	2.2	15	89	5	50	79	2	0	17	0.86
1111998--1112039	19	2.2	20	86	4	59	76	7	2	14	1.10
1112195--1112238	15	2.9	15	82	3	52	52	2	2	43	1.26
1113771--1113993	112	2.0	114	86	2	315	41	5	6	46	1.53
1116411--1116439	6	5.0	6	95	4	51	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122931--1123008	2	39.0	2	86	0	111	46	2	0	51	1.14
1122933--1123011	20	4.0	20	93	0	131	45	2	0	51	1.14
1125958--1125992	18	1.9	18	94	0	61	77	2	20	0	0.90
1125969--1126013	20	2.2	20	84	7	56	80	2	17	0	0.82
1130386--1130433	25	1.9	25	91	0	78	31	8	10	50	1.66
1130547--1130649	54	1.9	54	82	4	127	32	11	14	41	1.82
1132641--1132671	2	15.5	2	100	0	62	48	0	0	51	1.00
1133163--1133268	16	6.4	16	75	8	88	37	3	0	57	1.23
1133163--1133242	33	2.4	34	85	2	108	40	1	1	57	1.15
1133301--1133356	16	3.6	15	72	9	58	39	3	5	51	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13