genome.fa.s228.2.7.7.80.10.50.1000.3.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   25   26   27   

This is table  3  of  27  ( 3133 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)
362732--363001	92	2.9	92	96	1	477	32	18	24	25	1.97
362466--363899	358	4.0	358	89	7	2342	33	16	25	24	1.96
363090--363727	92	6.9	92	98	0	1204	31	18	25	24	1.97
363752--363893	55	2.6	55	80	3	164	33	16	23	26	1.95
363966--364409	34	12.9	35	85	9	571	33	11	33	20	1.89
363953--364409	71	6.6	70	85	7	568	32	11	34	21	1.89
365454--365495	16	2.6	16	84	0	57	0	7	9	83	0.81
372673--372793	52	2.3	52	97	0	224	28	18	18	34	1.94
372673--372813	52	2.7	51	90	4	212	30	17	18	33	1.94
372802--372826	13	1.9	13	100	0	50	36	16	16	32	1.90
372868--372925	20	3.0	20	84	2	73	46	12	10	31	1.74
374612--374653	21	2.0	20	86	4	57	16	19	7	57	1.62
385569--385642	13	5.6	13	74	15	55	32	14	17	35	1.91
385569--385642	26	2.8	26	73	20	82	32	14	17	35	1.91
385649--387791	29	74.7	29	80	6	2116	27	28	17	25	1.98
385652--387791	57	37.3	56	80	6	2056	27	28	17	25	1.98
385652--387791	86	24.9	85	81	6	2053	27	28	17	25	1.98
394936--394974	10	4.1	9	84	12	51	5	20	0	74	1.01
394935--394974	20	2.0	20	90	4	64	5	20	0	75	0.99
395652--395700	18	2.7	18	90	6	73	55	0	2	42	1.11
397511--397557	22	2.2	22	85	7	62	51	0	4	44	1.21
398784--398809	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401028--401072	21	2.1	21	84	8	56	53	4	20	22	1.63
402876--402906	15	2.1	15	93	0	53	48	16	22	12	1.80
405980--406018	13	3.0	13	100	0	78	30	15	15	38	1.88
406139--406185	21	2.3	21	79	20	55	34	19	4	42	1.70
406141--406183	20	2.2	19	84	16	52	32	18	4	44	1.71
408572--408597	13	2.0	13	100	0	52	38	15	15	30	1.88
409626--409673	18	2.7	18	80	3	53	62	0	2	35	1.07
409880--409940	14	4.5	13	76	13	52	62	0	0	37	0.96
410504--410528	11	2.3	11	100	0	50	72	0	0	28	0.86
415962--416142	85	2.1	85	80	6	215	44	20	23	11	1.84
416129--416286	42	3.7	41	78	6	136	37	18	27	15	1.91
417158--417225	19	3.9	19	78	21	85	35	11	14	38	1.83
417160--417222	32	2.0	32	96	0	117	34	12	15	36	1.86
417179--417203	13	1.9	13	100	0	50	36	16	16	32	1.90
417265--417323	13	5.0	13	73	23	67	28	15	16	38	1.89
417245--417344	33	3.0	33	94	0	164	26	15	17	42	1.88
417277--417343	20	3.7	20	74	25	85	26	14	17	40	1.89
421500--421556	15	3.9	14	84	11	71	84	7	8	0	0.79
421503--421577	26	3.0	26	74	18	77	81	5	13	0	0.86
421500--421574	15	5.1	14	81	3	69	82	5	12	0	0.82
421499--421568	36	1.9	36	83	11	90	81	7	11	0	0.87
422544--423317	55	13.3	59	83	8	840	25	29	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422544--423318	176	4.4	178	79	13	808	25	29	20	24	1.99
424206--424281	27	2.8	27	90	6	109	23	32	21	22	1.98
424097--424486	51	7.4	50	70	16	218	30	25	12	31	1.92
424474--424545	28	2.6	28	86	8	94	23	34	18	23	1.96
424095--424596	264	1.9	263	88	2	758	29	26	13	31	1.93
426194--426268	28	2.7	26	84	10	87	24	18	33	24	1.97
426253--426420	52	3.3	51	82	2	201	31	10	27	30	1.90
426354--426533	80	2.3	80	85	6	233	28	15	29	26	1.96
426486--426563	27	2.9	27	86	5	104	24	17	33	24	1.97
426544--426662	51	2.4	50	85	12	149	33	12	22	31	1.91
429024--429049	13	2.0	13	100	0	52	38	15	15	30	1.88
429003--429069	34	2.0	33	91	2	107	44	13	16	25	1.84
429092--429116	13	1.9	13	100	0	50	32	16	16	36	1.90
432074--432118	21	2.1	21	84	8	56	51	6	20	22	1.70
433922--433952	15	2.1	15	93	0	53	48	16	22	12	1.80
436034--436058	13	1.9	13	100	0	50	32	16	16	36	1.90
438615--438640	13	2.0	13	100	0	52	38	15	15	30	1.88
439401--440319	43	21.6	43	75	7	383	37	18	26	17	1.93
439399--440319	85	10.8	84	76	7	565	37	18	26	17	1.93
439452--440353	128	7.1	128	79	4	650	38	18	26	17	1.92
439403--440353	340	2.8	341	84	3	1148	37	18	26	17	1.93
442723--443145	210	2.0	210	98	0	819	24	21	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444216--444272	21	2.7	21	97	0	105	33	10	19	36	1.86
444328--444382	19	2.9	19	97	0	101	34	10	14	40	1.81
444422--444447	13	2.0	13	100	0	52	30	15	15	38	1.88
444402--444468	33	2.0	33	85	0	89	26	16	14	41	1.87
446817--447095	51	5.3	52	80	6	296	30	21	11	36	1.89
447079--447154	28	2.7	28	85	0	89	25	34	17	23	1.96
447109--447340	78	2.9	77	77	6	232	25	28	15	30	1.95
459718--459758	12	3.5	11	84	15	55	85	12	2	0	0.70
459719--459783	13	4.8	13	82	16	55	81	7	10	0	0.87
460745--460971	55	4.0	59	84	9	276	26	28	19	25	1.99
461705--461761	21	2.7	21	97	0	105	33	10	19	36	1.86
461817--461884	19	3.9	19	78	21	85	35	11	14	38	1.83
461838--461862	13	1.9	13	100	0	50	36	16	16	32	1.90
461819--461881	32	2.0	32	96	0	117	34	12	15	36	1.86
461924--461949	13	2.0	13	100	0	52	30	15	15	38	1.88
461904--461970	33	2.0	33	88	0	98	25	14	16	43	1.86
464319--464597	51	5.3	52	81	6	305	30	22	11	35	1.90
464581--464657	28	2.8	28	87	0	100	23	33	19	23	1.97
464611--464815	79	2.6	79	83	1	241	23	30	16	29	1.96
475842--475893	28	1.9	28	84	7	72	1	15	1	80	0.88
477625--477680	25	2.2	26	90	3	87	19	3	0	76	0.93
477635--477682	17	2.8	17	84	12	55	22	0	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478364--478404	2	20.5	2	100	0	82	48	0	0	51	1.00
478287--478506	117	1.9	117	97	0	413	32	12	10	45	1.76
478479--478506	2	14.0	2	100	0	56	50	0	0	50	1.00
483315--483365	16	3.3	15	79	17	59	13	17	1	66	1.34
483316--483367	14	3.4	14	75	17	50	15	17	1	65	1.36
484029--484066	19	2.0	20	84	5	51	39	0	10	50	1.37
485680--485745	17	3.9	17	75	11	73	71	0	0	28	0.87
485681--485754	13	5.4	14	69	18	57	68	0	1	29	0.97
485682--485808	28	5.0	25	74	19	88	65	0	1	33	1.02
485702--485803	11	9.3	11	69	23	72	62	0	1	35	1.06
485682--485801	16	7.3	17	69	15	83	65	0	1	32	1.02
485739--485784	20	2.4	19	82	10	58	54	0	4	41	1.20
485682--485799	52	2.3	50	78	13	125	66	0	1	32	1.02
485687--485808	8	15.5	8	67	24	57	64	0	1	33	1.03
486481--486527	18	2.6	18	82	3	58	48	0	2	48	1.13
486720--486774	21	2.6	21	85	0	65	45	1	12	40	1.53
486888--487063	31	5.7	31	71	15	127	51	2	2	43	1.29
486888--487073	30	6.2	30	71	18	136	52	2	2	43	1.27
487061--487109	13	3.7	13	84	10	64	75	2	2	20	1.00
492738--492852	40	2.8	41	90	1	187	30	21	13	33	1.93
494658--494708	13	4.1	13	82	5	61	41	3	1	52	1.31
494653--494706	19	2.8	19	80	5	56	40	3	1	53	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494764--494796	17	2.0	17	88	5	50	33	3	0	63	1.10
503401--503628	10	20.9	10	67	24	92	48	0	1	49	1.17
503401--503631	12	20.8	12	67	23	107	48	0	1	49	1.17
503402--503628	22	10.4	21	69	18	110	48	0	1	48	1.17
503474--503632	74	2.1	77	85	8	211	49	0	1	49	1.13
507973--508011	20	2.0	20	84	0	51	35	15	7	41	1.76
515149--515346	43	4.7	43	73	10	158	39	11	11	38	1.76
518963--519039	21	3.7	21	86	10	104	36	12	15	35	1.86
519075--519142	19	3.9	19	78	21	85	35	11	14	38	1.83
519077--519139	32	2.0	32	96	0	117	34	12	15	36	1.86

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   25   26   27