genome.fa.s243.2.7.7.80.10.50.1000.1.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: Scaffold243
Parameters: 2 7 7 80 10 50 1000
Length:  726772

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 482 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)
8--5647	15	377.2	14	72	21	2904	38	40	14	6	1.71
8--5647	37	150.9	35	71	21	2904	38	40	14	6	1.71
200--271	20	3.6	19	78	15	83	41	43	12	2	1.57
874--967	17	5.8	16	76	15	59	32	38	17	11	1.86
8--5647	7	754.4	7	72	21	2904	38	40	14	6	1.71
1877--2214	29	11.0	30	73	21	124	40	39	14	5	1.69
2304--2397	27	3.6	25	84	12	95	43	37	15	3	1.63
8--5647	23	251.8	21	72	20	2901	38	40	14	6	1.71
2288--2632	87	3.9	81	73	19	209	40	39	14	4	1.67
3523--3762	13	17.4	13	77	15	71	42	39	15	3	1.63
3770--3878	17	6.6	17	75	20	74	37	38	15	8	1.78
5459--5585	12	9.9	12	70	20	55	40	41	12	4	1.64
5615--6515	7	124.7	7	80	14	689	40	43	2	13	1.57
6448--7023	7	82.6	7	87	3	527	27	56	14	2	1.50
7756--7811	16	3.4	16	76	9	58	66	1	0	32	1.03
7754--7806	5	9.3	6	76	15	51	66	1	0	32	1.03
7746--7812	27	2.5	25	79	13	71	61	1	0	37	1.05
7767--7850	18	5.0	18	74	21	58	53	1	0	45	1.08
7796--7843	25	1.9	25	87	8	71	52	0	0	47	1.00
8291--8324	17	2.1	15	89	10	50	52	0	0	47	1.00
8494--8554	24	2.5	24	84	5	70	54	1	4	39	1.32
8779--8860	36	2.2	39	87	10	118	35	1	1	62	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10252--10294	2	21.5	2	100	0	86	48	0	51	0	1.00
11411--11440	15	1.9	16	93	6	53	60	3	0	36	1.14
11985--12026	20	2.0	21	86	4	59	59	0	0	40	0.97
12487--12528	17	2.5	17	78	17	52	73	0	4	21	1.01
17268--17310	19	2.3	19	88	4	61	60	0	0	39	0.97
18214--18289	39	2.0	38	85	10	102	51	21	2	25	1.61
30753--30798	23	2.0	22	83	4	56	36	6	4	52	1.47
31273--31316	18	2.5	18	77	3	54	20	6	9	63	1.46
32504--32568	17	3.8	16	72	23	51	60	0	0	40	0.97
32516--32560	20	2.2	20	80	7	56	60	0	0	40	0.97
33584--33629	21	2.2	21	81	14	51	56	0	0	43	0.99
33589--33629	20	2.0	20	86	9	57	56	0	0	43	0.99
33738--33848	58	1.9	58	90	3	179	47	8	7	36	1.61
35022--35089	17	4.2	17	73	17	54	16	2	2	77	1.00
37097--37131	12	2.9	12	91	0	52	17	34	40	8	1.80
38003--38038	2	18.0	2	100	0	72	50	0	0	50	1.00
38468--38504	2	18.5	2	94	0	65	48	0	2	48	1.15
41016--41046	12	2.6	12	94	0	53	25	9	19	45	1.81
50680--50774	29	3.3	29	80	5	95	29	22	21	27	1.99
50730--50856	14	8.8	14	71	10	85	32	19	18	29	1.96
50732--50856	29	4.3	29	76	7	110	31	20	19	29	1.97
51490--51525	18	2.0	18	100	0	72	44	11	11	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52382--52421	11	3.5	11	86	10	53	42	2	2	52	1.28
54827--54873	24	2.0	24	82	0	58	36	14	14	34	1.88
55857--56039	97	1.9	98	90	3	296	38	16	13	32	1.87
62344--62378	15	2.3	15	100	0	70	20	0	40	40	1.52
63407--63628	29	7.7	29	74	6	123	34	18	18	28	1.95
63568--63646	14	5.6	14	75	6	61	30	22	17	29	1.97
63407--63628	15	15.4	14	71	6	95	34	18	18	28	1.95
63568--63644	27	2.7	29	84	6	104	31	23	16	28	1.96
70847--70970	52	2.4	51	94	1	212	28	18	18	34	1.95
70979--71003	13	1.9	13	100	0	50	36	16	16	32	1.90
71069--71093	13	1.9	13	100	0	50	32	16	16	36	1.90
71047--71113	33	2.0	33	88	0	98	40	14	11	32	1.83
72905--73299	171	2.3	171	93	1	673	36	13	24	24	1.92
73209--73485	43	5.9	49	82	12	364	30	17	25	26	1.97
73209--73485	140	2.0	142	94	2	495	30	17	25	26	1.97
73488--73931	58	7.5	57	74	10	304	25	16	28	28	1.97
73493--73717	88	2.6	88	92	2	380	21	18	28	32	1.97
73816--73867	27	2.0	26	88	3	77	17	17	30	34	1.93
73523--73922	121	3.4	117	77	8	312	25	17	28	29	1.97
73487--73931	30	15.0	30	76	9	351	26	16	28	28	1.97
75301--75437	1	137.0	1	75	0	85	2	2	10	84	0.81
75309--75435	15	8.3	15	79	14	118	2	3	10	84	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75301--75438	20	6.7	20	74	22	108	2	2	10	84	0.83
75309--75434	55	2.3	54	77	11	141	2	3	10	84	0.83
75301--75438	16	8.5	16	79	4	134	2	2	10	84	0.83
89283--89406	52	2.4	51	94	1	212	28	18	18	34	1.95
89415--89439	13	1.9	13	100	0	50	36	16	16	32	1.90
91504--91545	21	2.0	22	85	4	59	54	0	4	40	1.21
92401--92568	38	4.4	37	79	9	133	28	13	19	38	1.89
92425--92568	38	3.8	37	80	8	139	27	15	18	37	1.92
94721--94755	2	17.5	2	93	0	61	48	0	2	48	1.16
96716--96787	2	37.0	2	80	5	85	44	0	6	48	1.29
99711--99748	9	4.2	9	96	0	58	5	10	63	21	1.46
101227--101257	2	15.5	2	100	0	62	48	0	51	0	1.00
101768--101795	2	14.0	2	100	0	56	50	0	50	0	1.00
103234--103273	2	20.0	2	94	0	71	52	0	0	47	1.00
104633--104703	22	3.3	22	80	5	65	40	9	1	47	1.45
104921--104995	4	19.2	4	75	17	52	78	0	21	0	0.75
104923--104996	9	8.3	9	78	11	64	79	0	20	0	0.73
104931--104982	10	5.2	10	86	6	70	86	0	13	0	0.57
104931--104978	25	1.9	25	91	0	78	87	0	12	0	0.54
104930--104983	15	3.7	15	87	5	83	83	0	16	0	0.65
104923--104996	19	3.9	18	78	7	67	79	0	20	0	0.73
105005--105036	12	2.4	14	85	15	50	18	0	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105065--105106	9	4.3	10	85	11	52	45	0	0	54	0.99
105099--105158	24	2.5	25	84	10	72	26	1	3	68	1.15
105241--105287	23	2.0	24	84	8	62	19	0	8	72	1.10
105313--105373	19	3.3	18	80	8	61	55	1	0	42	1.09
105913--105948	2	18.0	2	100	0	72	50	0	0	50	1.00
106521--106651	66	2.0	66	88	2	194	43	5	6	45	1.51
112950--112998	2	24.5	2	100	0	98	51	0	48	0	1.00
114822--114866	7	6.4	7	80	19	58	15	0	0	84	0.62
114822--114854	8	4.2	8	88	3	50	15	0	0	84	0.61
128452--128528	33	2.3	33	77	4	84	42	20	27	9	1.82
129502--129595	45	2.1	46	89	2	145	43	13	32	9	1.77
129642--129730	45	2.0	45	88	4	135	41	13	34	10	1.78
129523--129803	144	2.0	144	91	0	463	37	14	33	15	1.88
130134--130175	3	14.0	3	100	0	84	66	0	0	33	0.92
131089--131113	5	5.0	5	100	0	50	40	20	20	20	1.92
131272--131308	19	2.0	19	89	5	58	51	0	0	48	1.00
131265--131317	25	2.1	26	89	3	81	47	1	0	50	1.12
134677--134716	20	1.9	21	85	10	55	75	0	15	10	1.05
136353--136379	2	13.5	2	100	0	54	51	0	0	48	1.00
136784--136819	2	18.0	2	100	0	72	0	50	0	50	1.00
136819--136843	2	12.5	2	100	0	50	48	0	0	52	1.00
136919--136951	3	11.0	3	100	0	66	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137312--137345	2	17.0	2	93	0	59	50	0	2	47	1.16
139236--139280	2	22.5	2	95	0	81	51	0	0	48	1.00
140559--140605	2	23.5	2	91	0	76	46	48	4	0	1.21
141996--142043	25	1.9	25	83	8	62	47	0	0	52	1.00
143088--143117	2	15.0	2	100	0	60	50	0	0	50	1.00
146030--146064	3	11.7	3	100	0	70	65	0	0	34	0.93
146482--146516	4	8.8	4	100	0	70	51	22	0	25	1.48
146877--146915	2	19.5	2	100	0	78	0	51	0	48	1.00
152887--152933	15	3.2	15	78	3	60	27	0	2	70	0.99
157452--157485	6	5.7	6	100	0	68	0	32	17	50	1.47

Tables:   1   2   3   4   5