genome.fa.s74.2.7.7.80.10.50.1000.1.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  1  of  24  ( 2862 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)
9--1686	7	224.0	7	76	17	1307	40	41	12	4	1.63
21--1677	29	55.5	31	73	19	445	41	41	12	4	1.63
1065--1114	25	1.9	27	88	8	77	44	40	16	0	1.47
1561--3926	7	327.9	7	81	13	2331	41	44	0	13	1.48
3932--4035	7	14.7	7	96	2	154	19	57	23	0	1.40
4140--4194	21	2.7	21	80	2	58	41	29	1	27	1.66
4140--4184	14	3.2	14	77	0	54	44	22	0	33	1.53
4433--4489	19	2.8	21	82	10	73	40	24	5	29	1.77
4411--4489	7	11.4	7	71	12	56	41	26	3	27	1.73
8591--8626	13	2.6	14	91	8	56	55	0	0	44	0.99
8930--8988	6	9.7	6	77	17	59	64	0	0	35	0.94
8971--9047	32	2.4	32	75	14	79	55	0	1	42	1.07
10120--10153	16	2.1	16	100	0	68	23	29	23	23	1.99
19408--19754	172	2.0	172	96	0	640	38	10	17	33	1.85
21896--21956	21	2.8	22	90	9	90	14	13	6	65	1.45
23704--23750	16	2.9	17	78	9	53	46	23	12	17	1.82
23711--23781	16	4.4	16	80	0	61	45	25	14	15	1.84
23711--23803	32	2.9	32	73	9	91	43	25	15	16	1.86
24574--24613	16	2.5	16	87	0	62	37	27	15	20	1.92
26002--26416	91	4.7	91	78	9	385	34	14	11	39	1.82
26030--26350	174	1.8	174	83	7	425	32	14	11	41	1.81
26028--26397	174	2.1	174	80	7	410	33	15	11	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26758--26791	11	3.2	11	87	8	52	76	8	0	14	1.01
26758--26814	10	5.0	12	76	21	52	75	5	3	15	1.12
26786--26871	23	3.8	23	79	11	81	67	4	11	16	1.38
26835--26882	19	2.5	20	96	3	89	60	10	10	18	1.57
26893--26927	17	2.0	18	88	5	54	40	2	0	57	1.14
29872--29899	2	14.0	2	100	0	56	50	0	0	50	1.00
32988--33097	39	2.8	39	86	5	150	30	26	12	30	1.93
38764--39142	193	2.0	192	85	4	514	27	13	13	45	1.81
40787--40825	2	19.5	2	94	0	69	46	0	2	51	1.14
42426--42501	29	2.6	29	80	14	93	48	1	1	48	1.18
42426--42500	28	2.6	28	81	12	89	49	1	1	48	1.18
42687--42737	3	17.0	3	100	0	102	33	0	0	66	0.92
42757--42812	26	2.2	26	80	6	60	26	1	12	58	1.44
42820--42865	19	2.5	19	89	3	67	58	0	0	41	0.98
42823--42867	22	2.2	19	84	11	54	60	0	0	40	0.97
42820--42908	19	4.4	19	70	20	65	50	0	2	47	1.13
42983--43073	39	2.4	37	83	3	119	36	2	6	54	1.39
43038--43176	53	2.5	55	74	13	133	36	5	10	46	1.63
43179--43213	16	2.1	16	94	5	61	40	0	0	60	0.97
46318--46356	12	3.1	12	88	7	51	46	5	0	48	1.24
46815--46893	29	2.7	29	80	3	88	44	2	5	48	1.38
47327--47396	31	2.3	31	94	0	122	34	10	20	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47361--47470	38	2.9	38	86	0	157	26	9	30	33	1.87
51725--51832	38	2.8	38	85	0	135	30	9	28	31	1.88
59316--59364	21	2.3	21	96	0	89	26	18	22	32	1.97
60961--60988	2	14.0	2	100	0	56	50	0	0	50	1.00
62471--62690	119	1.8	119	93	1	379	30	22	18	28	1.97
66778--66816	4	10.2	4	83	10	55	71	0	28	0	0.86
68048--68082	2	17.5	2	100	0	70	0	48	0	51	1.00
68082--68120	2	19.5	2	100	0	78	48	0	0	51	1.00
69208--69262	20	2.8	19	88	5	74	41	16	12	29	1.85
69322--69347	13	2.0	13	100	0	52	38	15	15	30	1.88
69304--69367	32	2.0	33	87	3	94	40	17	14	28	1.88
73062--73087	13	2.0	13	100	0	52	30	15	15	38	1.88
78775--78804	16	1.9	15	93	6	51	43	3	0	53	1.17
79562--79590	15	1.9	15	100	0	58	24	27	6	41	1.80
83213--83242	10	3.1	10	95	4	53	0	6	0	93	0.35
86206--86233	4	7.0	4	100	0	56	0	0	25	75	0.81
89288--89318	2	15.5	2	100	0	62	51	0	48	0	1.00
93950--93982	2	17.0	2	93	6	59	51	0	48	0	1.00
102300--102324	2	12.5	2	100	0	50	0	52	0	48	1.00
102348--102390	2	21.5	2	95	0	77	53	0	0	46	1.00
102918--102947	12	2.6	12	94	5	53	50	6	0	43	1.28
105167--105193	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
107761--107795	2	17.5	2	100	0	70	51	0	0	48	1.00
108397--108895	249	2.0	248	94	0	881	31	18	23	26	1.97
110045--110094	23	2.1	25	85	7	68	48	0	0	52	1.00
110534--110582	9	5.1	10	82	12	59	53	0	0	46	1.00
110549--110586	20	2.0	18	90	10	58	50	0	0	50	1.00
112572--112607	2	18.0	2	100	0	72	50	0	0	50	1.00
113310--113355	22	2.0	23	91	4	76	52	0	4	43	1.21
113310--113359	20	2.3	21	86	10	66	52	0	4	44	1.20
113332--113391	27	2.2	27	81	0	66	46	3	6	43	1.46
113642--113782	73	1.9	73	92	0	237	37	5	3	53	1.42
113812--113892	36	2.2	36	85	8	103	51	1	0	46	1.08
113820--113879	16	3.4	17	75	20	52	51	1	0	46	1.10
113859--113906	22	2.2	23	88	7	73	47	0	0	52	1.00
113932--113967	2	18.0	2	100	0	72	50	0	0	50	1.00
115711--115736	2	13.0	2	100	0	52	50	0	0	50	1.00
115924--115956	6	5.5	6	100	0	66	33	0	15	51	1.43
116545--116577	2	16.5	2	100	0	66	0	51	0	48	1.00
119067--119091	2	12.5	2	100	0	50	48	0	0	52	1.00
120126--120171	2	23.5	2	95	4	85	47	0	0	52	1.00
121384--121427	7	6.4	7	85	15	56	75	0	15	9	1.05
123130--123164	3	11.7	3	100	0	70	34	0	0	65	0.93
123343--123408	27	2.4	27	89	5	96	51	1	7	39	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
123435--123830	204	2.0	202	93	1	684	43	9	19	27	1.81
123962--124088	44	2.9	44	90	5	211	24	17	14	43	1.87
128949--128986	2	19.0	2	100	0	76	50	0	0	50	1.00
128966--129042	39	2.0	39	100	0	154	54	9	7	28	1.59
129362--129386	2	12.5	2	100	0	50	52	0	0	48	1.00
130701--130736	3	12.0	3	100	0	72	66	0	0	33	0.92
131221--131262	2	21.5	2	95	4	77	50	0	0	50	1.00
131540--131579	2	20.0	2	100	0	80	50	0	0	50	1.00
132639--132846	104	2.0	104	97	0	389	36	21	19	22	1.95
134806--134846	2	20.5	2	100	0	82	0	48	0	51	1.00
136076--136109	3	11.3	3	100	0	68	67	0	0	32	0.91
136723--136752	3	10.0	3	92	0	51	0	33	3	63	1.11
141427--141470	3	14.7	3	95	0	79	34	0	2	63	1.07
141583--141608	1	26.0	1	100	0	52	0	0	100	0	0.00
143457--143482	3	8.7	3	100	0	52	30	0	0	69	0.89
143620--143659	2	20.0	2	94	0	71	47	0	2	50	1.14
145804--145836	2	16.5	2	100	0	66	51	0	48	0	1.00
148127--148160	12	2.8	12	90	0	50	47	8	0	44	1.34
150784--150887	55	1.9	55	89	0	163	37	13	18	30	1.89
154676--154881	50	4.1	50	87	2	272	35	18	15	30	1.92
159237--159335	50	2.0	50	86	4	137	37	20	13	29	1.90
163471--163495	4	6.2	4	100	0	50	24	24	0	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
166662--166716	20	2.7	20	80	11	58	29	9	1	60	1.38
177333--177363	2	15.5	2	100	0	62	0	0	48	51	1.00
177774--177799	4	6.5	4	100	0	52	23	0	0	76	0.78
180789--180822	2	17.0	2	100	0	68	50	50	0	0	1.00
183788--183816	2	14.5	2	100	0	58	51	48	0	0	1.00
185414--185448	16	2.2	16	90	5	54	54	2	8	34	1.46
186086--186149	3	20.3	3	90	9	101	67	0	32	0	0.91
197707--197761	3	18.3	3	100	0	110	67	0	0	32	0.91
198666--198700	6	5.7	6	96	3	61	0	31	0	68	0.90
198666--198706	18	2.2	19	86	4	57	4	26	0	68	1.10

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