genome.fa.s77.2.7.7.80.10.50.1000.8.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: Scaffold77
Parameters: 2 7 7 80 10 50 1000
Length:  1374688

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1055 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)
979952--979981	6	5.0	6	91	0	51	36	0	0	63	0.95
979949--980000	22	2.3	21	81	12	59	42	0	0	57	0.98
981749--981782	2	17.0	2	100	0	68	50	0	50	0	1.00
982972--982997	9	2.9	9	100	0	52	92	0	7	0	0.39
983856--983898	2	21.5	2	95	0	77	48	2	0	48	1.14
986765--986844	42	1.9	42	81	0	97	42	3	5	48	1.42
988019--988072	28	2.0	27	85	10	74	68	0	9	22	1.17
1001373--1001416	23	1.9	22	82	17	54	4	6	11	77	1.11
1002306--1002344	20	1.9	21	94	5	71	20	17	20	41	1.91
1003267--1003302	16	2.2	16	90	0	54	58	11	16	13	1.63
1014957--1014992	2	18.0	2	100	0	72	50	0	0	50	1.00
1015048--1015082	17	2.0	17	88	5	52	57	0	2	40	1.14
1018454--1018535	28	2.9	28	80	7	96	26	17	31	24	1.97
1018518--1018688	51	3.3	51	79	4	198	32	11	26	29	1.92
1018671--1018746	27	2.8	28	88	6	102	21	21	34	23	1.97
1021209--1021234	13	2.0	13	100	0	52	38	15	15	30	1.88
1021297--1021321	13	1.9	13	100	0	50	32	16	16	36	1.90
1021278--1021340	32	2.0	32	93	0	108	38	15	11	34	1.83
1021275--1021342	19	3.9	19	76	21	76	39	14	10	35	1.80
1021866--1023110	55	22.3	55	86	6	1595	22	20	28	27	1.99
1021912--1022001	26	3.3	26	66	19	67	20	18	33	27	1.96
1022974--1023063	26	3.3	26	67	19	76	20	17	33	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026248--1026316	32	2.1	33	89	2	104	34	8	17	39	1.80
1026387--1026512	52	2.4	52	94	0	225	36	18	18	26	1.94
1031987--1032036	21	2.4	21	89	0	73	32	14	6	48	1.67
1038640--1038672	2	16.5	2	100	0	66	48	0	0	51	1.00
1048114--1048183	28	2.5	28	86	4	88	22	18	35	22	1.95
1048171--1048394	52	4.3	51	81	9	236	32	12	25	30	1.92
1048171--1048394	106	2.1	103	82	4	270	32	12	25	30	1.92
1048061--1048563	265	1.9	263	88	3	760	31	13	26	29	1.94
1048377--1048451	27	2.7	27	87	2	96	22	21	33	22	1.97
1048434--1048561	51	2.5	50	82	7	148	31	10	24	33	1.90
1048172--1048558	52	7.3	52	71	12	191	32	12	24	30	1.92
1051827--1052326	55	9.0	55	86	6	603	23	20	29	27	1.99
1053818--1053843	13	2.0	13	100	0	52	38	15	15	30	1.88
1053797--1053863	33	2.0	33	85	0	89	43	14	14	26	1.85
1053883--1053937	19	2.9	19	97	0	101	40	14	10	34	1.81
1054460--1054513	28	1.9	28	92	0	90	11	25	33	29	1.91
1066229--1066263	17	2.0	17	88	5	52	57	0	2	40	1.14
1067045--1067087	16	2.8	16	80	16	54	55	0	0	44	0.99
1073829--1073865	2	18.5	2	100	0	74	48	0	0	51	1.00
1076032--1076064	2	16.5	2	100	0	66	51	0	0	48	1.00
1076133--1076158	13	2.0	13	100	0	52	61	15	15	7	1.55
1079053--1079098	19	2.4	19	92	0	74	10	15	6	67	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083636--1083670	17	2.0	17	88	5	52	57	0	2	40	1.14
1084453--1084495	16	2.8	16	80	16	54	55	0	0	44	0.99
1087717--1087820	16	6.5	16	75	8	95	39	21	16	23	1.92
1087717--1087820	48	2.2	48	84	3	129	39	21	16	23	1.92
1088883--1089005	16	7.8	16	72	8	90	41	30	16	12	1.84
1088908--1089014	48	2.2	47	75	4	115	44	29	14	10	1.79
1090892--1090934	21	2.0	21	86	0	59	53	2	4	39	1.34
1092502--1092531	2	15.0	2	100	0	60	0	50	0	50	1.00
1093898--1093933	2	18.5	2	94	5	65	47	0	0	52	1.00
1099171--1099209	19	2.1	19	90	0	60	0	10	5	84	0.76
1099831--1099857	2	13.5	2	100	0	54	0	51	0	48	1.00
1100588--1100642	25	2.2	26	83	3	67	43	1	5	49	1.36
1108533--1108561	2	14.5	2	100	0	58	0	48	0	51	1.00
1109881--1109914	16	2.1	16	89	10	52	17	20	23	38	1.93
1111927--1111957	2	15.5	2	93	0	53	0	3	51	45	1.17
1116204--1116229	2	13.0	2	100	0	52	50	0	0	50	1.00
1117954--1117978	3	8.3	3	100	0	50	0	32	0	68	0.90
1118815--1118841	2	13.5	2	100	0	54	48	0	0	51	1.00
1119353--1119388	2	18.0	2	88	0	54	50	5	0	44	1.25
1119676--1119701	4	6.5	4	100	0	52	53	0	0	46	1.00
1119898--1119932	17	2.1	17	94	0	61	0	14	0	85	0.59
1120349--1120386	5	7.6	5	100	0	76	18	0	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120840--1120875	16	2.3	16	90	4	56	2	11	2	83	0.86
1121100--1121179	11	7.5	11	69	16	60	36	1	1	61	1.12
1121092--1121178	16	5.4	17	68	24	62	35	1	1	62	1.11
1121083--1121178	31	3.0	31	83	4	120	36	2	1	60	1.15
1122012--1122045	17	1.9	18	94	5	61	44	0	0	55	0.99
1122906--1122939	17	1.9	18	88	5	52	35	0	5	58	1.22
1123850--1123934	20	4.2	20	71	11	55	50	1	2	45	1.22
1123810--1123898	32	2.8	31	72	12	83	51	2	1	44	1.21
1123868--1123930	14	4.5	14	72	21	60	50	1	1	46	1.20
1123953--1123985	2	16.5	2	93	0	57	48	0	3	48	1.17
1126371--1126409	6	6.5	6	93	0	69	17	17	33	30	1.94
1131387--1131421	2	17.5	2	87	0	52	45	0	2	51	1.16
1131619--1131716	42	2.3	42	91	0	151	57	0	0	42	0.99
1131620--1131741	17	6.8	18	68	18	67	58	0	0	41	0.98
1131662--1131726	32	2.0	33	87	3	96	55	0	0	44	0.99
1132415--1132445	4	8.0	4	92	7	55	51	0	0	48	1.00
1133361--1133386	2	13.0	2	100	0	52	50	0	0	50	1.00
1134390--1134433	17	2.4	18	85	11	54	65	0	0	34	0.93
1136287--1136321	15	2.4	15	90	4	54	51	0	0	48	1.00
1136313--1136358	14	3.2	14	81	6	56	43	4	4	47	1.42
1136561--1136614	15	3.3	15	74	20	54	50	0	1	48	1.11
1136643--1136709	27	2.5	26	80	11	73	52	1	1	44	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1136898--1136939	17	2.4	18	88	11	61	50	0	2	47	1.14
1136890--1137007	38	3.0	41	79	11	97	50	1	0	46	1.17
1137057--1137122	26	2.6	25	83	6	89	48	0	0	51	1.00
1137723--1137767	20	2.3	19	81	14	56	53	0	0	46	1.00
1137732--1137768	18	1.9	18	89	10	56	59	0	0	40	0.97
1138268--1138294	2	13.5	2	100	0	54	51	0	0	48	1.00
1138679--1138711	15	2.1	16	94	5	59	84	0	12	3	0.72
1139021--1139078	23	2.6	23	75	5	66	25	1	1	70	1.06
1139383--1139425	22	2.0	22	81	9	52	27	2	4	65	1.25
1139829--1139869	17	2.5	17	84	7	59	43	0	0	56	0.99
1140033--1140103	20	3.4	21	71	15	67	40	0	5	53	1.24
1140054--1140109	20	2.9	18	75	17	58	37	0	7	55	1.27
1140033--1140109	40	1.9	40	94	0	136	40	0	6	53	1.27
1140368--1140416	2	24.5	2	100	0	98	51	0	0	48	1.00
1140760--1140802	17	2.6	17	81	3	52	67	6	4	20	1.33
1146299--1146344	22	2.1	22	100	0	92	26	0	26	47	1.52
1147207--1147246	21	1.9	21	84	0	53	45	2	37	15	1.59
1147232--1147364	50	3.0	42	81	16	176	51	13	24	10	1.72
1147267--1147367	50	2.0	50	98	0	193	50	14	22	11	1.76
1150790--1151014	114	2.0	114	87	3	332	32	10	8	48	1.67
1156705--1156878	88	2.0	88	89	0	267	25	14	16	43	1.86
1161045--1161084	20	2.0	20	95	0	71	37	15	17	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166326--1166382	22	2.6	21	78	8	51	63	0	15	21	1.31
1177946--1177970	13	1.9	13	100	0	50	72	0	28	0	0.86
1184720--1184757	2	19.0	2	94	0	67	52	0	0	47	1.00
1192692--1192752	25	2.3	26	86	8	79	6	8	8	77	1.14
1192701--1192752	25	2.1	25	100	0	104	7	7	3	80	1.00
1198033--1198107	20	3.8	20	80	3	80	40	12	13	34	1.81
1198030--1198107	40	2.0	39	87	2	111	39	12	12	34	1.82
1198661--1199011	32	11.0	32	95	0	587	15	17	35	31	1.91
1198994--1199650	55	12.0	54	89	2	945	29	14	32	22	1.94
1198997--1199660	82	8.1	82	88	2	949	30	14	32	22	1.94

Tables:   1   2   3   4   5   6   7   8   9