genome.fa.s173.2.7.7.80.10.50.1000.3.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  3  of  16  ( 1814 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)
383955--383988	15	2.3	15	100	0	68	44	14	8	32	1.76
384869--384910	17	2.4	18	80	8	50	61	2	2	33	1.21
388196--388220	13	1.9	13	100	0	50	64	0	0	36	0.94
388500--388581	31	2.8	28	76	20	78	42	4	2	50	1.37
388792--388864	27	2.7	27	72	17	71	46	1	0	52	1.09
390081--390131	9	5.8	9	79	6	52	33	0	0	66	0.92
390093--390154	30	2.1	29	82	8	72	41	1	0	56	1.09
390349--390404	15	3.8	15	72	11	53	42	1	1	53	1.21
390651--390717	24	2.7	25	76	17	77	31	0	1	67	1.00
390652--390717	21	2.9	24	77	22	79	30	0	1	68	0.99
390651--390714	18	3.4	18	77	16	67	31	0	1	67	1.00
390662--390717	12	4.6	12	76	14	53	28	0	1	69	0.98
390978--391007	4	7.5	4	100	0	60	26	0	23	50	1.50
391464--391507	24	2.0	21	82	13	52	40	6	6	45	1.57
395212--395252	20	2.0	21	90	9	66	56	0	2	41	1.13
395311--395348	2	19.0	2	94	0	67	50	2	0	47	1.15
395623--395649	2	13.5	2	100	0	54	48	0	0	51	1.00
396525--396582	27	2.1	28	87	9	84	29	0	5	65	1.14
396606--396665	27	2.1	30	84	9	81	28	5	8	58	1.48
398814--398924	49	2.3	47	82	13	129	42	0	0	57	0.98
398884--398923	19	2.1	19	85	0	53	37	0	0	62	0.95
399862--399958	22	4.3	22	75	15	81	52	1	0	46	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399862--399983	16	7.3	16	77	14	113	52	0	0	46	1.06
399894--399982	38	2.4	38	84	7	119	51	0	0	48	1.00
399831--399983	11	13.9	12	66	24	63	50	1	1	45	1.24
399900--399991	27	3.5	26	73	22	77	52	0	0	47	1.00
400560--400591	12	2.4	14	90	10	50	25	0	0	75	0.81
407045--407110	25	2.6	26	84	13	84	51	0	1	46	1.10
407106--407161	23	2.4	24	80	16	57	53	0	1	44	1.11
407161--407215	18	2.9	18	84	10	67	27	0	0	72	0.85
407150--407216	22	3.0	23	82	8	75	29	0	0	70	0.88
407163--407216	12	4.8	12	76	15	53	25	0	0	74	0.83
407274--407356	28	2.8	29	83	10	98	63	0	1	34	1.02
407302--407402	10	10.2	10	70	20	61	62	0	0	37	0.96
407302--407397	28	3.6	27	79	10	117	63	0	0	36	0.95
407303--407409	26	4.0	27	77	13	107	61	0	0	38	0.96
407273--407429	52	3.1	50	75	14	119	60	1	0	36	1.12
408258--408304	23	2.1	21	84	7	58	68	2	0	29	1.02
408419--408462	19	2.2	21	84	8	56	52	2	0	45	1.13
408508--408561	14	4.2	13	73	21	51	59	1	0	38	1.08
408506--408549	14	3.1	15	77	12	56	56	2	0	40	1.11
408756--408808	14	3.7	15	74	20	51	58	0	0	41	0.98
408751--408799	18	2.7	18	76	17	57	55	0	0	44	0.99
408762--408787	9	2.9	9	100	0	52	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409063--409112	26	2.0	25	88	11	75	36	2	0	62	1.07
409077--409228	32	4.4	33	70	22	98	40	3	0	55	1.16
409076--409125	26	1.9	26	84	8	66	40	2	0	58	1.10
409138--409192	21	2.8	19	76	12	58	40	3	0	56	1.17
409736--409801	14	4.6	15	75	21	61	62	1	0	36	1.05
409747--409801	15	3.8	15	73	24	55	63	1	0	34	1.05
409752--409802	18	2.8	17	75	21	50	64	1	0	33	1.05
409805--409852	16	3.0	16	75	19	55	54	2	0	43	1.12
409806--409861	17	3.4	16	76	9	60	57	1	0	41	1.09
411861--411914	28	1.9	28	82	14	67	51	3	1	42	1.30
412008--412066	31	1.9	31	89	6	93	27	11	6	54	1.62
412761--412800	22	1.9	20	90	10	62	37	0	0	62	0.95
413274--413322	22	2.2	22	89	7	73	61	2	0	36	1.08
413520--413555	18	2.1	17	90	10	56	41	0	0	58	0.98
413555--413594	21	1.9	22	90	10	66	40	0	0	60	0.97
414644--414700	21	2.8	21	76	5	64	42	12	12	33	1.80
422028--422078	26	1.9	27	84	4	68	68	11	15	3	1.34
422304--422347	18	2.3	20	88	11	67	77	13	9	0	0.99
422304--422352	20	2.5	20	87	9	66	77	12	10	0	0.99
423532--423831	31	9.6	32	75	5	236	30	30	16	23	1.96
423532--423812	126	2.2	124	86	1	373	30	30	15	22	1.95
423489--423835	31	11.1	31	74	7	209	31	30	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423474--423831	63	5.7	63	80	3	312	30	30	15	23	1.95
423887--424581	52	13.4	53	74	7	226	24	22	14	39	1.91
423889--424581	104	6.7	103	81	4	646	24	22	14	38	1.91
423944--424581	208	3.1	208	82	4	768	24	22	14	38	1.92
424491--424665	91	1.9	91	83	0	224	25	23	14	37	1.92
424582--424960	52	7.4	52	73	12	268	23	24	14	37	1.92
424376--424822	243	1.8	244	86	3	650	23	22	14	39	1.91
424607--424947	102	3.4	100	77	9	318	23	23	14	37	1.92
424852--424960	50	2.1	50	85	6	139	22	25	14	36	1.93
425087--425235	63	2.4	62	80	5	167	22	18	16	42	1.88
426225--426300	20	3.7	21	77	13	86	30	18	11	39	1.87
428903--428940	14	2.6	15	87	4	51	28	0	13	57	1.36
429800--429840	7	6.0	7	88	5	57	48	0	0	51	1.00
429808--429852	20	2.2	20	92	7	74	55	2	0	42	1.12
430504--430554	22	2.1	25	86	13	72	33	1	0	64	1.05
430475--430537	17	3.6	17	73	12	56	28	0	1	69	0.97
430492--430535	11	4.1	10	82	11	52	31	0	0	68	0.90
430950--430993	2	24.0	2	78	17	51	52	0	0	47	1.00
432489--432605	32	3.7	32	85	3	146	49	7	4	38	1.51
432910--432995	30	2.9	30	85	0	109	44	3	2	50	1.32
433004--433038	17	2.1	17	88	0	52	48	0	2	48	1.16
435074--435107	10	3.5	10	88	4	52	0	8	23	67	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435211--435241	10	2.9	11	95	4	55	0	9	12	77	0.99
436786--436963	79	2.3	78	84	4	232	32	14	27	25	1.94
436905--437049	51	2.8	50	78	4	137	36	12	22	28	1.90
439377--439424	24	2.0	24	100	0	96	33	12	20	33	1.90
439401--439512	50	2.2	50	87	0	161	39	13	19	27	1.89
440705--441521	42	19.5	42	74	4	320	33	19	29	17	1.95
440699--441573	84	10.4	84	76	5	563	34	18	29	17	1.94
441708--441851	44	3.4	44	73	14	124	42	13	22	20	1.88
448762--448824	19	3.6	19	76	24	84	33	12	19	34	1.89
448781--448805	13	1.9	13	100	0	50	36	16	16	32	1.90
448760--448831	32	2.2	32	100	0	144	34	12	18	34	1.88
453952--454007	17	3.3	17	79	0	67	1	17	0	80	0.80
453972--454009	20	1.9	20	94	0	67	5	21	0	73	1.02
455245--455811	32	17.8	32	90	2	876	16	17	34	31	1.93
455794--457287	55	27.5	54	87	4	2069	28	14	33	23	1.94
455794--457287	27	55.0	27	87	4	2069	28	14	33	23	1.94
455794--457287	82	18.3	81	87	4	2069	28	14	33	23	1.94
456590--456632	21	2.0	21	90	0	68	25	18	27	27	1.98
458304--458337	11	3.0	11	86	4	50	0	0	14	85	0.60
458305--458340	16	2.3	15	90	4	54	0	0	11	88	0.50
458603--458666	31	2.1	30	85	8	85	7	12	9	70	1.34
458603--458666	29	2.1	32	83	13	82	7	12	9	70	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465019--465067	17	2.9	17	84	3	55	2	20	0	77	0.87
478701--478832	48	2.8	48	86	0	183	36	15	25	21	1.94
478980--479103	28	4.3	29	82	9	164	22	15	29	32	1.95
478980--479103	59	2.2	56	87	10	171	22	15	29	32	1.95
479119--479246	27	4.7	27	83	8	161	29	14	30	25	1.94
479111--479246	55	2.5	54	78	12	161	29	14	30	25	1.95
484645--484678	9	3.8	9	100	0	68	20	0	8	70	1.13
484898--484922	13	1.9	13	100	0	50	36	16	16	32	1.90
484878--484943	32	2.0	33	97	2	125	34	12	18	34	1.88
485017--485145	52	2.5	52	92	0	213	35	16	17	30	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16