genome.fa.s364.2.7.7.80.10.50.1000.5.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: Scaffold364
Parameters: 2 7 7 80 10 50 1000
Length:  2089110

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

This is table  5  of  10  ( 1160 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)
886536--886577	2	21.0	2	95	0	75	47	0	2	50	1.14
893083--893122	2	20.0	2	100	0	80	50	0	0	50	1.00
893341--893372	4	8.0	4	92	0	55	25	53	0	21	1.46
903327--903384	28	2.1	28	100	0	116	24	36	6	32	1.82
909646--909713	22	3.2	21	70	16	52	58	0	1	39	1.07
911519--911549	2	15.5	2	100	0	62	48	0	0	51	1.00
912160--912199	19	2.1	19	95	0	71	55	2	20	22	1.56
912752--912777	2	13.0	2	100	0	52	50	0	0	50	1.00
918145--918171	8	3.4	8	100	0	54	88	0	0	11	0.50
921032--921070	17	2.3	17	95	0	69	43	23	12	20	1.86
929286--929311	2	13.0	2	100	0	52	50	0	0	50	1.00
929315--929417	52	2.0	52	100	0	206	21	26	15	36	1.93
932908--932971	21	3.3	17	76	23	56	50	0	0	50	1.00
933462--933516	25	2.3	23	79	17	58	61	0	1	36	1.06
935809--935857	17	2.9	17	75	24	50	38	2	2	57	1.22
936052--936091	2	20.0	2	100	0	80	50	0	0	50	1.00
937131--937164	17	1.9	17	94	5	59	38	8	0	52	1.33
937471--937504	18	1.9	17	88	5	50	44	5	0	50	1.26
938048--938092	19	2.2	21	85	14	60	48	0	15	35	1.45
940357--940430	24	3.0	25	73	13	73	60	0	1	37	1.05
942748--942795	22	2.2	21	85	3	60	60	0	0	39	0.97
942815--942866	14	3.6	15	89	5	72	36	1	3	57	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943675--943707	7	4.9	7	96	3	59	42	0	0	57	0.98
944190--944230	21	2.0	21	85	9	57	9	9	51	29	1.67
944222--944255	3	11.3	3	87	0	50	5	0	67	26	1.13
947692--947717	2	13.0	2	100	0	52	50	0	0	50	1.00
954062--954152	41	2.2	41	79	14	100	56	0	0	43	0.99
964001--964065	20	3.3	20	84	2	69	58	3	1	36	1.23
964001--964079	10	8.3	10	77	12	60	62	2	1	34	1.17
964001--964065	30	2.2	29	83	8	78	58	3	1	36	1.23
965943--965968	13	2.0	13	100	0	52	15	7	0	76	0.99
979489--979537	24	2.0	24	100	0	98	46	20	8	24	1.77
980886--980923	16	2.3	17	86	13	53	26	0	0	73	0.83
980884--980920	11	3.5	11	82	17	51	27	0	0	72	0.84
980915--980973	30	2.0	28	81	12	66	49	0	5	45	1.24
981982--982017	2	18.5	2	91	5	56	52	2	0	44	1.15
982172--982221	6	8.3	6	97	0	91	82	0	18	0	0.68
989364--989401	19	2.1	18	85	14	51	26	5	7	60	1.46
989887--989918	15	2.1	15	94	0	55	68	3	0	28	1.04
993308--993333	13	2.0	13	100	0	52	38	0	23	38	1.55
993460--993485	12	2.2	12	100	0	52	46	0	15	38	1.46
1002893--1002934	3	14.0	3	100	0	84	66	0	33	0	0.92
1004136--1004188	21	2.5	20	87	9	70	69	3	0	26	1.05
1004166--1004240	27	2.9	25	77	15	73	61	2	5	30	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004233--1004396	18	9.8	17	70	18	80	64	3	1	30	1.19
1004316--1004385	27	2.6	27	86	6	79	65	2	1	30	1.15
1004239--1004365	9	14.8	9	68	18	74	63	3	1	30	1.21
1004391--1004593	28	7.4	27	69	20	120	32	0	3	63	1.17
1004391--1004485	19	5.2	18	75	14	88	32	1	2	64	1.12
1004391--1004637	10	27.2	9	64	24	62	31	1	2	63	1.16
1004496--1004610	52	2.2	52	86	6	162	29	0	3	66	1.08
1004529--1004612	25	3.3	25	70	14	73	27	0	2	70	1.00
1004529--1004620	14	6.9	14	71	20	56	28	1	2	68	1.08
1004496--1004637	52	2.7	52	82	11	143	30	0	2	65	1.12
1004548--1004648	19	4.8	20	68	17	64	31	0	0	66	1.05
1004961--1004985	1	25.0	1	100	0	50	0	100	0	0	0.00
1009361--1009420	26	2.4	24	78	10	66	61	1	0	36	1.06
1010243--1010286	14	3.1	14	80	3	52	65	0	0	34	0.93
1011490--1011520	3	10.3	3	92	0	53	32	0	64	3	1.09
1023453--1023488	2	18.0	2	88	0	54	50	2	2	44	1.31
1024270--1024332	25	2.5	25	84	0	81	57	1	4	36	1.30
1024689--1024759	36	2.0	36	86	8	101	49	0	0	50	1.00
1024900--1024956	27	2.1	28	83	3	71	38	5	0	56	1.22
1024951--1025000	17	2.9	18	79	5	50	48	0	0	52	1.00
1031822--1031850	2	15.0	2	92	7	51	51	0	0	48	1.00
1033313--1033346	4	8.0	4	87	12	50	47	0	5	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033313--1033346	9	4.0	8	92	7	50	47	0	5	47	1.26
1033313--1033346	13	2.6	13	90	9	52	47	0	5	47	1.26
1033440--1033487	23	2.1	23	84	7	62	41	0	0	58	0.98
1033440--1033486	22	2.1	23	88	4	69	40	0	0	59	0.97
1035767--1035819	15	3.6	15	80	14	74	37	1	0	60	1.08
1035759--1035827	29	2.3	29	78	11	95	34	2	0	62	1.10
1035858--1035916	20	3.0	20	75	12	59	57	1	1	38	1.19
1035862--1035924	23	2.7	23	79	16	67	55	1	1	41	1.19
1036300--1036355	19	2.9	19	82	10	69	53	0	0	46	1.00
1036281--1036331	26	2.0	25	81	11	59	52	0	0	47	1.00
1036331--1036383	26	2.1	24	83	13	63	43	1	1	52	1.23
1036728--1036775	26	2.0	23	88	12	69	54	4	8	33	1.50
1037541--1037642	42	2.4	42	98	0	195	45	8	19	26	1.80
1047880--1047935	22	2.4	24	80	14	64	58	0	0	41	0.98
1048294--1048334	17	2.5	16	85	14	57	41	0	0	58	0.98
1055096--1055135	17	2.4	17	83	4	55	60	2	2	35	1.24
1055110--1055195	20	4.2	20	74	14	59	66	3	1	29	1.16
1055093--1055303	117	1.8	117	80	10	261	59	3	1	35	1.24
1055222--1055273	26	2.1	23	83	16	61	61	1	1	34	1.18
1065733--1065766	12	2.8	12	86	0	50	32	2	17	47	1.63
1070553--1070579	2	13.5	2	100	0	54	48	0	0	51	1.00
1073066--1073119	21	2.6	21	82	8	65	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076091--1076133	18	2.3	19	92	4	70	32	0	0	67	0.91
1076337--1076385	23	2.3	21	86	10	64	36	0	4	59	1.17
1078687--1078764	38	2.0	41	82	7	99	55	0	2	42	1.13
1079285--1079356	8	9.3	7	74	17	54	66	0	1	31	1.00
1079287--1079420	18	8.1	16	68	19	71	61	0	0	36	1.06
1079297--1079338	10	3.6	11	79	20	50	69	0	2	28	1.01
1080174--1080268	26	3.6	27	72	17	92	52	0	1	46	1.07
1080157--1080281	52	2.5	48	78	14	137	55	0	0	44	1.05
1080230--1080281	20	2.6	20	85	11	63	55	0	0	44	0.99
1080905--1080973	21	3.3	21	74	8	61	43	0	0	56	0.99
1081513--1081554	21	2.0	22	86	9	61	42	0	0	57	0.99
1081507--1081561	19	2.9	19	80	15	60	41	0	0	58	0.98
1081542--1081570	14	2.0	15	93	6	51	44	0	0	55	0.99
1081590--1081623	16	2.2	15	89	5	50	58	0	0	41	0.98
1094592--1094655	19	3.4	19	67	26	55	43	1	28	26	1.64
1097923--1098028	50	2.1	50	83	0	131	30	16	17	34	1.93
1100734--1100762	3	9.7	3	100	0	58	31	0	0	68	0.89
1101523--1101635	32	3.5	32	97	2	210	32	13	15	38	1.87
1103370--1103406	18	2.1	18	90	10	58	83	0	8	8	0.80
1106331--1106383	17	3.1	18	86	7	67	56	0	0	43	0.99
1106349--1106394	17	2.8	17	78	15	60	58	0	0	41	0.98
1110218--1110280	25	2.6	24	79	16	69	60	4	1	33	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111692--1111719	3	9.3	3	100	0	56	0	35	0	64	0.94
1113697--1113748	26	2.0	26	92	0	86	28	28	15	26	1.96
1114465--1114500	14	2.6	14	90	0	54	41	0	8	50	1.33
1114465--1114496	10	3.2	10	95	0	55	43	0	6	50	1.27
1122974--1123000	3	9.0	3	100	0	54	66	0	0	33	0.92
1123373--1123428	19	3.6	15	76	21	53	42	0	0	57	0.99
1123354--1123428	32	2.3	34	84	9	93	45	0	1	53	1.08
1123348--1123388	19	2.2	19	86	4	57	53	0	2	43	1.13
1126986--1127019	17	2.1	17	94	5	61	47	0	2	50	1.16
1127040--1127124	12	7.1	12	74	13	59	60	1	1	37	1.12

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