genome.fa.s373.2.7.7.80.10.50.1000.3.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: Scaffold373
Parameters: 2 7 7 80 10 50 1000
Length:  3053563

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  3  of  20  ( 2389 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)
340719--340765	21	2.2	22	81	11	53	44	0	2	53	1.12
341683--341733	19	2.6	20	85	14	63	62	0	0	37	0.95
343532--343613	30	2.6	31	80	14	80	35	1	2	60	1.17
343540--343601	32	2.0	32	87	9	92	30	1	3	64	1.19
343543--343613	30	2.3	31	83	11	83	33	1	2	61	1.19
345750--345798	16	2.9	16	82	17	55	28	0	0	71	0.86
345748--345809	25	2.4	27	81	5	65	33	0	0	66	0.92
345977--346047	16	4.4	16	73	8	63	39	0	0	60	0.97
346017--346049	14	2.3	15	89	5	50	39	0	0	60	0.97
350367--350502	51	2.7	51	95	0	236	41	11	18	28	1.84
350415--350503	20	3.9	20	72	27	79	41	10	17	30	1.83
351065--351200	28	4.6	30	80	13	133	21	15	33	30	1.94
351097--351821	28	25.6	28	81	4	731	23	17	31	28	1.96
353062--353117	1	56.0	1	78	0	58	0	0	10	89	0.49
353039--353116	8	9.9	8	78	10	81	1	2	11	84	0.78
353063--353118	7	8.0	7	86	9	71	0	0	12	87	0.54
353039--353117	20	3.8	21	77	17	67	1	2	11	84	0.77
353039--353115	30	2.5	30	85	10	93	1	2	11	84	0.79
358490--358545	28	1.9	28	85	7	76	33	19	25	21	1.97
358638--359026	53	7.3	50	68	20	200	32	12	25	29	1.92
358533--359078	215	2.5	213	89	2	792	31	13	26	28	1.94
358888--359026	54	2.6	54	81	12	137	33	12	25	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359013--359111	27	3.7	27	82	10	123	22	17	32	28	1.96
361560--361624	33	2.0	33	87	0	94	43	13	15	27	1.85
361646--361713	19	3.9	18	76	23	83	38	14	11	35	1.83
361668--361692	13	1.9	13	100	0	50	32	16	16	36	1.90
361649--361711	32	2.0	32	96	0	117	36	15	12	34	1.86
361769--361825	21	2.7	21	97	0	105	36	19	10	33	1.86
362579--363254	55	12.3	55	91	3	1030	21	20	28	29	1.98
362624--362764	28	5.1	27	62	15	65	21	19	30	27	1.98
362954--363094	27	5.1	27	61	16	65	23	19	29	28	1.98
364238--364314	1	77.0	1	72	0	55	1	6	6	85	0.78
364248--364315	13	5.4	12	78	15	75	1	5	7	85	0.80
364239--364314	22	3.6	21	78	15	68	1	6	6	85	0.79
364223--364315	25	3.8	24	76	15	75	1	9	6	82	0.88
376788--376843	28	1.9	28	85	7	76	33	19	25	21	1.97
376937--377325	53	7.3	51	69	18	170	31	13	25	29	1.93
377094--377166	27	2.7	27	85	6	85	24	17	30	27	1.97
377039--377435	107	3.7	106	72	15	348	29	14	27	28	1.95
377144--377498	55	6.6	52	69	19	187	31	12	26	29	1.93
376869--377495	217	2.9	214	91	2	990	31	13	26	28	1.93
377311--377378	27	2.5	27	87	2	91	22	19	33	25	1.97
379854--379879	13	2.0	13	100	0	52	38	15	15	30	1.88
379833--379899	33	2.0	33	88	0	98	43	16	14	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379919--379990	19	4.2	18	77	22	84	37	13	11	37	1.81
379941--379965	13	1.9	13	100	0	50	32	16	16	36	1.90
379922--379984	32	2.0	32	96	0	117	36	15	12	34	1.86
380042--380098	21	2.7	21	97	0	105	36	19	10	33	1.86
387760--387885	52	2.4	52	91	0	216	26	17	18	37	1.93
387959--388025	19	3.8	19	77	22	92	35	17	11	34	1.87
387981--388005	13	1.9	13	100	0	50	32	16	16	36	1.90
387962--388024	32	2.0	32	100	0	126	34	19	12	33	1.89
388224--388560	170	2.0	170	95	0	602	30	26	13	29	1.94
394414--394448	17	2.0	18	88	5	54	40	2	0	57	1.14
394999--395036	20	1.9	20	88	0	58	63	2	0	34	1.09
395249--395321	35	1.9	38	81	13	89	47	0	1	50	1.09
395351--395406	20	2.7	20	83	5	58	39	0	1	58	1.08
395369--395416	25	1.9	25	83	8	62	33	0	2	64	1.05
395411--395443	11	3.0	11	83	16	50	51	0	0	48	1.00
396519--396576	16	3.0	21	66	26	54	29	12	3	55	1.53
396798--396834	2	19.5	2	83	10	51	51	0	2	45	1.15
405001--405035	15	2.3	15	90	9	54	42	0	2	54	1.15
405051--405114	23	2.8	22	77	15	58	43	1	3	51	1.26
405816--405851	16	2.2	16	90	0	54	44	2	0	52	1.15
409944--410120	91	2.0	90	93	1	300	25	10	23	40	1.86
412354--412392	4	10.2	4	83	10	55	0	25	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412354--412392	11	3.4	12	86	10	55	0	25	0	74	0.82
417751--417783	16	2.1	16	94	0	57	60	0	0	39	0.97
417853--417923	17	4.6	16	72	22	53	66	2	8	22	1.32
418908--418963	2	28.0	2	100	0	112	50	0	0	50	1.00
419784--419838	11	4.8	12	77	8	60	40	3	0	56	1.17
421128--421181	11	4.9	11	80	15	67	42	0	1	55	1.10
421128--421181	20	2.4	23	88	11	78	42	0	1	55	1.10
421136--421188	20	2.5	21	74	17	56	45	0	1	52	1.11
421834--422136	167	1.8	166	84	2	419	28	6	15	49	1.70
424309--424338	15	2.0	15	93	0	51	66	3	6	23	1.30
424495--424559	27	2.3	29	73	21	68	32	6	3	58	1.38
425120--425153	17	1.9	18	88	5	52	35	5	0	58	1.22
425820--425877	6	9.3	6	75	14	55	79	5	1	13	0.98
425822--425877	13	3.9	14	80	20	62	78	5	1	14	1.00
425820--425880	18	3.3	18	78	15	63	78	4	1	14	0.99
426835--426864	2	15.0	2	100	0	60	50	0	0	50	1.00
430110--430144	17	2.1	17	88	0	52	37	20	5	37	1.76
434436--434470	10	3.6	10	92	3	54	60	0	40	0	0.97
434652--434750	27	3.7	25	74	16	67	32	0	2	65	1.04
434710--434752	19	2.1	21	87	8	63	30	0	0	69	0.88
435017--435045	10	2.9	10	100	0	58	31	17	0	51	1.45
435764--435839	29	2.6	30	72	25	74	28	14	11	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435884--436021	58	2.4	57	80	9	145	28	14	13	43	1.83
435918--436077	58	2.8	56	78	11	144	28	15	11	44	1.82
437284--437335	26	2.0	27	88	7	81	36	9	7	46	1.66
439143--439173	14	2.1	15	94	5	55	80	0	16	3	0.83
441048--441160	57	2.0	57	92	0	190	35	8	15	39	1.79
443465--443507	15	2.9	14	77	16	50	62	0	6	30	1.21
445971--446021	18	2.9	17	75	18	50	54	1	0	43	1.11
446001--446035	11	2.9	12	91	8	54	45	8	0	45	1.34
446280--446407	17	7.6	17	67	25	60	53	0	1	44	1.09
446327--446380	8	6.9	8	76	19	60	51	0	0	48	1.00
446740--446773	15	2.4	14	90	5	50	58	0	0	41	0.98
446903--446935	17	1.9	17	100	0	66	66	9	12	12	1.44
447814--447971	77	2.0	78	86	3	221	42	12	8	37	1.72
452670--452822	77	2.0	77	83	2	191	40	14	8	36	1.76
453772--453804	3	11.0	3	93	0	57	30	0	3	66	1.06
454148--454209	22	2.8	22	87	7	81	41	0	0	58	0.98
454444--454498	24	2.2	25	78	15	60	41	0	5	52	1.24
454464--454507	21	2.3	18	84	11	52	40	0	4	54	1.21
454522--454592	22	3.3	21	83	12	74	39	0	0	60	0.97
454534--454593	22	2.7	22	85	12	86	36	0	0	63	0.95
454809--454876	34	2.1	34	86	5	95	36	2	0	60	1.12
454835--454889	22	2.5	23	82	11	62	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455467--455525	18	3.3	17	79	9	55	49	0	0	50	1.00
455525--455573	20	2.4	19	87	12	71	53	0	2	44	1.12
455466--455575	17	5.6	20	70	21	65	51	0	0	47	1.06
455441--455583	61	2.3	60	79	10	157	46	0	0	52	1.05
463113--463160	24	2.0	24	95	0	87	39	4	6	50	1.47
464556--464588	16	1.9	18	88	11	52	81	3	3	12	0.91
469753--469789	9	4.3	9	80	13	51	37	0	0	62	0.96
470726--470822	47	2.1	45	80	3	104	39	12	19	28	1.88
476011--476039	14	2.1	14	100	0	58	72	0	20	6	1.07
479099--479147	21	2.3	21	80	16	57	63	4	2	30	1.24

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20