genome.fa.s1422.2.7.7.80.10.50.1000.1.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: Scaffold1422
Parameters: 2 7 7 80 10 50 1000
Length:  293460

Tables:   1   2   3   

This is table  1  of  3  ( 276 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)
640--668	14	2.1	14	93	6	51	48	0	0	51	1.00
670--721	22	2.4	21	81	15	61	25	3	0	71	1.03
685--723	17	2.2	18	86	4	53	23	5	0	71	1.05
671--763	12	7.9	11	71	20	64	22	4	1	72	1.09
670--764	10	8.2	12	70	24	55	24	4	1	70	1.11
4516--4550	12	2.9	12	91	0	61	68	0	0	31	0.90
6749--6779	14	2.1	15	94	5	55	74	0	19	6	1.03
6959--7012	21	2.5	22	77	17	60	57	1	0	40	1.09
7235--7274	18	2.2	18	86	0	53	57	0	0	42	0.98
8519--8558	17	2.2	17	86	8	53	37	0	0	62	0.95
8528--8571	9	4.6	9	86	11	52	38	0	0	61	0.96
8532--8570	19	2.1	19	90	0	60	38	0	0	61	0.96
9300--9342	21	2.0	21	86	9	59	37	0	9	53	1.33
9885--9913	3	9.7	3	100	0	58	68	0	0	31	0.89
13861--13917	30	1.9	30	85	0	78	24	8	7	59	1.52
16145--16238	27	3.6	25	71	16	66	64	1	1	32	1.07
16144--16250	39	2.8	38	75	16	89	63	1	0	33	1.11
16155--16222	14	5.1	14	73	22	58	64	1	0	33	1.02
16211--16272	18	4.0	16	76	15	51	56	1	1	40	1.19
17394--17460	29	2.3	29	78	19	77	62	1	4	31	1.24
17499--17536	15	2.6	15	88	12	53	60	0	0	39	0.97
17917--17981	24	2.9	22	82	13	78	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18351--18390	19	2.1	19	86	9	55	50	0	0	50	1.00
18350--18410	26	2.4	25	86	5	77	54	0	0	45	1.00
18587--18656	28	2.6	27	82	8	88	30	0	0	70	0.88
18593--18656	14	4.6	14	77	22	73	29	0	0	70	0.88
18587--18656	27	2.6	28	86	6	92	30	0	0	70	0.88
22647--22679	2	16.5	2	100	0	66	51	0	0	48	1.00
22998--23031	16	2.2	15	94	5	59	50	0	5	44	1.26
23036--23060	11	2.3	11	100	0	50	68	0	0	32	0.90
23684--23735	22	2.4	22	83	0	59	30	3	26	38	1.74
28281--28345	25	2.8	24	79	6	80	30	0	24	44	1.54
28569--28602	17	1.9	18	88	5	52	47	0	5	47	1.26
29038--29080	19	2.3	18	80	11	50	53	0	2	44	1.13
29619--29701	31	2.7	31	80	9	91	57	0	1	40	1.06
29613--29704	14	6.4	14	71	15	55	56	0	1	42	1.06
29628--29704	39	1.9	40	87	10	113	58	0	0	41	0.98
29672--29723	21	2.5	21	81	3	61	59	0	0	40	0.97
34154--34198	21	2.3	19	84	7	54	64	0	4	31	1.13
34154--34198	10	4.5	10	83	8	56	64	0	4	31	1.13
39769--39801	2	16.5	2	93	0	57	51	3	0	45	1.16
39801--39826	2	13.0	2	100	0	52	50	0	50	0	1.00
39902--39978	28	2.7	29	78	10	77	51	0	1	46	1.09
40030--40089	19	3.3	19	77	11	56	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40451--40507	30	1.9	30	82	7	71	36	5	7	50	1.52
40769--40960	96	2.0	97	87	3	280	32	5	22	38	1.78
43725--43864	66	2.1	65	94	2	244	47	8	8	35	1.65
44193--44229	17	2.2	18	85	9	51	35	5	0	59	1.20
45993--46063	29	2.6	28	84	13	94	35	7	0	57	1.26
46094--46249	83	1.8	86	87	6	239	35	15	3	45	1.64
46369--46430	32	1.9	32	83	3	79	66	4	0	29	1.12
46451--46480	15	1.9	16	93	6	53	70	0	0	30	0.88
46580--46631	27	1.9	28	84	7	72	51	3	0	44	1.19
46930--46954	6	4.2	6	100	0	50	16	0	0	84	0.63
47109--47135	7	3.9	7	100	0	54	44	0	55	0	0.99
47996--48028	3	11.0	3	100	0	66	66	0	0	33	0.92
48270--48317	9	5.4	9	85	5	53	68	0	0	31	0.90
48279--48317	3	13.3	3	94	5	71	69	0	0	30	0.89
48736--48766	10	3.0	10	95	4	53	41	0	0	58	0.98
48987--49074	16	5.2	16	74	18	65	60	1	0	38	1.04
48978--49062	25	3.2	26	79	12	84	58	1	0	40	1.05
49596--49657	17	3.7	17	77	14	58	43	0	0	56	0.99
49596--49653	29	2.0	30	83	16	77	43	0	0	56	0.99
50952--50997	18	2.6	18	82	3	58	78	2	0	19	0.86
51379--51426	18	2.7	18	78	15	64	47	0	2	50	1.12
52739--52787	19	2.8	18	84	9	66	36	6	0	57	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52721--52799	29	2.7	29	76	11	72	37	3	3	54	1.37
52918--52983	14	4.4	14	74	20	62	56	3	0	40	1.15
53413--53449	13	2.9	13	81	18	51	62	0	2	35	1.10
53561--53599	20	2.0	20	100	0	78	56	0	7	35	1.28
59170--59203	17	2.0	17	100	0	68	29	11	17	41	1.85
60492--60551	29	2.1	30	84	6	79	25	0	6	68	1.14
62063--62119	21	2.7	21	100	0	114	38	3	17	40	1.67
66587--66626	21	1.9	21	84	0	53	40	0	20	40	1.52
69882--69948	31	2.2	31	88	0	98	43	19	8	28	1.81
72094--72133	21	2.0	21	85	5	55	60	0	2	37	1.11
72946--73014	20	3.2	20	75	19	52	49	2	0	47	1.16
73240--73287	2	24.0	2	87	8	62	45	0	2	52	1.12
73392--73444	20	2.6	22	74	17	60	62	0	0	37	0.96
73638--73668	2	15.5	2	93	0	53	45	0	0	54	0.99
77206--77364	77	2.1	78	97	1	302	55	3	2	37	1.31
77635--77688	6	9.0	6	91	0	90	81	3	0	14	0.82
77806--77847	21	2.0	21	86	13	61	40	0	0	59	0.97
78034--78067	17	2.0	17	94	0	59	32	0	0	67	0.91
78225--78264	19	2.1	19	86	9	55	57	0	0	42	0.98
78199--78271	24	3.0	24	81	2	74	53	1	0	45	1.09
80611--80654	21	2.1	22	87	8	65	43	0	2	54	1.12
84745--84780	18	2.0	18	94	0	63	41	8	5	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86489--86523	18	2.0	17	88	5	52	60	5	0	34	1.21
86617--86663	11	4.4	11	75	5	51	61	2	0	36	1.08
94264--94294	16	1.9	16	93	0	53	9	6	12	70	1.31
100884--100908	13	1.9	13	100	0	50	36	16	16	32	1.90
100864--100929	32	2.0	33	88	2	98	33	12	15	39	1.84
104193--104225	16	2.1	16	100	0	66	42	21	6	30	1.77
112324--112357	18	1.9	17	88	5	50	41	14	5	38	1.70
112858--112928	28	2.5	28	81	0	88	28	16	12	42	1.85
117828--117890	19	3.7	18	72	24	64	36	19	12	31	1.89
117815--117890	32	2.4	32	93	0	125	35	18	14	31	1.91
118652--119832	49	24.8	48	78	10	1061	32	17	24	24	1.97
119097--119174	39	2.0	39	89	0	120	24	17	25	32	1.97
119044--119832	43	17.1	43	76	15	591	31	18	24	25	1.97
118951--119501	178	2.9	185	85	8	674	31	17	25	25	1.97
118696--119839	91	12.1	92	82	10	873	32	17	24	24	1.97
119834--119988	34	4.6	34	79	10	158	33	13	33	19	1.91
119830--119988	68	2.4	66	82	6	178	35	13	32	18	1.90
119962--120143	31	5.9	30	82	10	190	28	15	30	25	1.96
119899--120142	61	3.9	60	77	9	175	30	15	31	23	1.95
119937--120149	92	2.3	93	83	5	263	30	15	29	24	1.96
119969--120143	61	2.8	62	82	9	182	26	16	30	26	1.97
122003--122084	21	3.8	21	68	17	60	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128938--128973	15	2.5	15	90	4	56	63	2	0	33	1.08
130226--130300	20	3.8	20	78	0	87	34	13	12	40	1.81
130226--130303	40	2.0	39	87	2	111	34	12	12	39	1.82
131213--131290	22	3.5	22	98	1	147	17	10	8	62	1.52
143827--143887	10	5.6	10	78	21	61	86	8	3	1	0.73
143826--143887	11	5.5	11	81	11	72	87	8	3	1	0.72
143824--143887	23	2.9	22	86	9	85	85	9	3	1	0.76
143825--143877	1	53.0	1	80	0	61	90	7	1	0	0.52
145065--145981	28	31.9	29	88	3	1265	28	31	17	22	1.96
145067--145993	201	4.6	199	87	4	1276	28	31	17	22	1.96

Tables:   1   2   3