genome.fa.s100.2.7.7.80.10.50.1000.1.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: Scaffold100
Parameters: 2 7 7 80 10 50 1000
Length:  904619

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 870 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)
4137--4171	2	17.5	2	100	0	70	51	0	0	48	1.00
4672--4700	3	9.7	3	100	0	58	31	0	0	68	0.89
8428--8470	22	2.0	21	86	4	59	44	0	0	55	0.99
8422--8480	30	1.9	32	89	6	95	45	1	0	52	1.10
8588--8625	15	2.6	15	79	4	51	52	0	2	44	1.14
8616--8651	16	2.3	15	86	9	54	52	5	5	36	1.48
8614--8674	15	3.9	15	77	10	54	54	4	4	36	1.44
8766--8805	18	2.3	18	91	4	64	57	0	0	42	0.98
8813--8872	5	11.4	5	75	10	57	60	1	1	36	1.17
8766--8909	43	3.3	47	77	17	123	58	0	1	39	1.12
8813--8873	28	2.3	26	78	13	70	60	1	1	36	1.16
17191--17257	26	2.6	25	84	9	91	34	4	16	44	1.68
17833--17909	35	2.2	35	95	2	138	51	15	9	23	1.71
19893--19923	6	5.0	6	92	7	53	32	0	3	64	1.09
19893--19923	13	2.5	12	90	10	53	32	0	3	64	1.09
23954--24002	18	2.9	18	75	24	54	55	2	0	42	1.11
24270--24312	3	15.0	3	87	4	54	74	0	0	25	0.82
28033--28093	15	4.0	15	70	4	59	39	13	14	32	1.85
28078--28149	20	3.6	20	81	3	74	40	11	13	34	1.81
30630--30659	2	15.0	2	92	0	51	46	3	0	50	1.18
31069--31122	23	2.2	25	78	12	60	59	0	5	35	1.21
34516--34549	16	2.1	16	94	5	59	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)
34517--34549	11	3.1	11	95	4	59	63	0	0	36	0.95
35558--35593	17	2.0	19	89	10	58	38	0	0	61	0.96
35858--35967	25	4.4	24	70	23	68	41	0	0	57	1.05
37051--37086	10	3.6	10	88	0	54	47	5	0	47	1.25
37415--37449	14	2.4	14	85	4	52	37	0	0	62	0.95
39319--39434	21	5.4	21	70	13	76	56	3	0	39	1.22
39334--39460	66	1.9	66	96	0	236	59	5	0	35	1.21
40490--40561	36	2.0	37	89	8	112	47	0	0	52	1.00
41194--41222	13	2.1	14	93	6	51	48	0	0	51	1.00
41562--41590	14	2.1	14	93	6	51	58	0	0	41	0.98
43042--43112	28	2.6	26	86	6	88	22	7	23	46	1.76
43042--43112	27	2.6	27	88	6	99	22	7	23	46	1.76
47286--47388	40	2.5	42	83	12	135	54	8	8	28	1.61
47285--47370	39	2.1	42	85	10	124	56	8	10	24	1.59
47824--47862	20	2.0	20	84	0	51	58	0	5	35	1.20
47968--48019	21	2.5	22	81	9	63	32	1	3	61	1.25
48238--48274	3	12.3	3	100	0	74	67	0	0	32	0.91
49553--49583	2	15.5	2	100	0	62	51	0	0	48	1.00
50008--50033	2	13.0	2	100	0	52	50	0	0	50	1.00
55937--56026	33	2.7	33	79	8	94	57	2	3	36	1.27
56010--56086	17	4.0	19	74	19	63	42	3	0	53	1.19
56383--56485	48	2.2	47	80	11	122	42	0	0	56	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57338--57891	285	2.0	280	79	9	615	46	10	7	35	1.66
58670--58751	25	3.8	20	74	24	60	56	0	1	42	1.07
58707--58752	19	2.4	20	89	7	69	56	0	0	43	0.99
58997--59036	19	2.2	18	90	4	62	57	0	2	40	1.12
59274--59321	20	2.4	20	82	6	53	56	0	0	43	0.99
60162--60202	19	2.1	20	95	4	75	65	0	0	34	0.93
61375--61409	14	2.6	13	86	8	52	57	0	0	42	0.99
61769--61843	20	3.8	20	78	0	87	36	13	10	40	1.79
61769--61846	40	2.0	39	87	2	111	35	12	11	39	1.80
69460--69484	13	1.9	13	100	0	50	32	0	0	68	0.90
70773--70816	21	2.0	22	87	12	65	61	0	0	38	0.96
70773--70825	19	2.6	21	80	11	58	56	0	0	43	0.99
71106--71144	2	19.5	2	94	0	69	48	0	2	48	1.15
74396--74427	2	16.0	2	93	0	55	50	3	0	46	1.17
78509--78560	14	3.6	14	85	10	68	50	1	7	40	1.42
78509--78560	6	8.7	6	82	0	59	50	1	7	40	1.42
78509--78553	8	5.6	8	91	0	63	51	2	6	40	1.41
81056--81118	17	3.8	17	76	16	53	49	1	0	49	1.10
81670--81704	10	3.5	10	88	0	52	20	5	0	74	1.02
82281--82345	27	2.5	25	77	20	62	41	1	1	55	1.18
82421--82462	19	2.2	19	100	0	84	33	9	21	35	1.86
83306--83355	23	2.2	23	96	0	91	50	4	6	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
84314--84483	86	2.0	86	95	0	304	48	11	7	32	1.66
85274--85315	20	2.1	20	91	8	68	61	0	0	38	0.96
85388--85413	4	6.5	4	100	0	52	76	0	0	23	0.78
85535--85577	2	22.0	2	95	4	79	51	0	0	48	1.00
85837--85879	18	2.3	19	80	4	52	62	0	4	32	1.15
86086--86131	13	3.3	13	80	14	56	34	0	2	63	1.07
86652--86731	31	2.6	31	86	7	101	57	0	0	42	0.98
87542--87570	13	2.1	14	93	6	51	51	0	0	48	1.00
91392--91436	3	15.0	3	90	9	74	66	0	2	31	1.04
92039--92113	20	3.8	19	82	3	87	34	12	12	41	1.79
92039--92116	40	2.0	39	85	7	104	34	11	12	41	1.80
100050--100076	12	2.2	12	100	0	54	55	14	0	29	1.40
100202--100364	50	3.3	50	91	1	274	42	14	26	15	1.86
100853--100947	47	2.1	43	80	7	100	38	37	15	7	1.76
101910--102035	53	2.4	50	81	12	139	28	26	14	30	1.95
101963--102262	79	3.8	79	89	2	433	27	24	15	33	1.95
101968--102262	157	1.9	158	90	0	475	26	24	15	33	1.95
108414--109206	60	13.4	59	80	9	809	26	28	19	25	1.99
108414--109211	351	2.3	351	93	3	1354	26	28	19	25	1.99
109125--109398	103	2.8	99	86	8	362	24	28	17	29	1.98
109331--109520	57	3.3	59	79	10	214	26	26	20	26	1.99
109503--109640	42	3.3	40	78	13	136	21	26	13	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
110150--110176	12	2.2	12	100	0	54	55	14	0	29	1.40
110299--110461	50	3.3	50	89	1	265	42	14	26	15	1.85
112008--112133	53	2.4	50	81	12	139	28	26	14	30	1.95
112061--112360	79	3.8	79	89	2	433	27	25	15	32	1.95
118507--119299	60	13.4	59	81	9	836	27	28	19	24	1.99
118507--119304	351	2.3	351	93	3	1363	26	28	19	25	1.99
119216--119491	103	2.8	98	86	8	364	24	27	18	29	1.98
119423--119613	57	3.3	59	79	10	216	26	26	20	26	1.99
119596--119733	42	3.3	40	78	13	136	21	26	13	39	1.89
120243--120269	12	2.2	12	100	0	54	55	14	0	29	1.40
120392--120554	50	3.3	50	91	1	274	42	14	26	15	1.86
121043--121137	47	2.1	43	80	7	100	38	37	15	7	1.76
122101--122226	53	2.4	50	81	12	139	28	26	14	30	1.95
122154--122453	79	3.8	79	91	0	458	27	24	15	32	1.95
129673--129743	22	3.2	21	81	15	65	85	8	2	2	0.78
129672--129743	10	6.7	10	77	17	65	84	9	2	2	0.82
129674--129733	31	2.0	30	87	9	86	88	8	1	1	0.65
129673--129733	1	61.0	1	76	0	59	88	8	1	1	0.65
130968--132797	29	63.9	29	88	2	2500	28	31	17	22	1.96
130968--132797	115	16.0	114	88	3	2466	28	31	17	22	1.96
131031--132782	601	2.9	598	92	2	2759	28	31	17	22	1.96
133323--133397	20	3.8	19	82	3	87	34	12	12	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
133323--133400	40	2.0	39	85	7	104	34	11	12	41	1.80
137388--137422	2	17.5	2	93	0	61	48	0	0	51	1.00
138296--138338	2	21.5	2	100	0	86	51	0	0	48	1.00
139934--139975	10	4.2	10	87	0	57	35	7	7	50	1.57
145041--145104	27	2.4	27	80	15	71	53	0	3	43	1.16
145946--146003	6	9.7	6	72	20	50	41	0	0	58	0.98
145950--146003	17	3.1	19	84	10	71	40	0	0	59	0.98
148657--148738	24	3.8	19	75	22	58	54	0	1	43	1.07
148691--148736	20	2.2	20	81	14	58	54	0	0	45	0.99
148690--148738	19	2.4	21	83	10	66	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8