genome.fa.s27.2.7.7.80.10.50.1000.3.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

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

This is table  3  of  16  ( 1898 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)
382572--382639	19	3.9	19	78	21	85	35	11	14	38	1.83
382593--382617	13	1.9	13	100	0	50	36	16	16	32	1.90
382574--382636	32	2.0	32	96	0	117	34	12	15	36	1.86
382679--382704	13	2.0	13	100	0	52	30	15	15	38	1.88
382659--382725	33	2.0	33	88	0	98	25	14	16	43	1.86
385187--385259	27	2.7	27	87	6	94	23	34	21	20	1.97
385242--385412	51	3.3	51	79	4	198	29	26	11	32	1.92
385395--385476	28	2.9	28	82	7	96	24	31	17	26	1.97
389070--389112	21	2.0	21	86	4	59	34	23	0	41	1.55
393784--393848	27	2.4	27	84	5	78	27	32	16	23	1.96
401916--401967	6	8.7	6	78	16	54	26	3	0	69	1.06
401916--401967	11	4.3	12	75	15	54	26	3	0	69	1.06
403195--403493	154	1.9	155	81	3	361	30	14	17	38	1.89
415807--415863	19	2.9	19	89	2	87	31	15	17	35	1.92
419356--419580	111	2.0	111	96	0	414	35	20	10	34	1.87
422575--422790	107	2.0	106	97	0	405	37	9	15	37	1.80
423114--423196	29	2.9	29	85	0	103	19	9	14	56	1.65
423698--423732	16	2.2	16	100	0	70	54	5	22	17	1.64
423819--423871	20	2.6	21	75	6	54	45	11	11	32	1.76
427819--428016	39	5.0	39	70	15	102	18	16	12	52	1.74
427876--428271	40	10.1	40	71	13	191	17	18	13	50	1.78
428057--428266	77	2.7	76	77	11	194	19	17	13	49	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427875--428271	117	3.3	118	74	9	317	18	18	13	50	1.78
428171--428342	78	2.2	79	83	6	206	20	18	12	48	1.80
428173--428345	40	4.4	38	79	5	150	21	17	12	47	1.81
428360--428646	143	2.0	143	80	4	319	21	24	13	40	1.89
432739--432806	29	2.4	28	80	7	82	14	11	10	63	1.53
440769--440888	45	2.8	41	79	11	143	48	3	10	37	1.55
443536--443561	2	13.0	2	100	0	52	50	0	0	50	1.00
443899--443928	14	2.1	14	93	0	51	3	13	0	83	0.77
447449--447513	33	2.0	33	87	0	94	32	15	12	40	1.84
447541--447597	20	2.9	20	76	5	62	33	15	14	36	1.88
448310--448386	32	2.4	32	97	0	145	23	22	0	54	1.45
462108--462320	97	2.2	97	83	0	264	32	13	25	28	1.93
463855--464107	88	2.9	88	96	0	461	41	11	19	26	1.86
464157--464228	16	4.8	16	73	13	62	20	0	6	72	1.08
464867--464990	61	2.0	60	86	4	169	37	11	25	25	1.89
465007--465437	52	8.5	52	73	5	249	34	16	23	24	1.96
465461--465631	32	5.3	32	82	8	222	21	16	30	30	1.96
465469--465638	64	2.6	65	91	2	272	22	16	30	30	1.96
465446--465625	96	1.9	95	86	5	256	22	18	29	29	1.98
465792--466849	32	32.8	33	72	10	550	36	12	29	22	1.90
465819--466619	99	8.3	99	78	7	675	36	12	30	21	1.90
465819--466055	98	2.4	98	88	2	334	39	12	28	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466284--466337	27	2.0	27	88	0	81	25	12	37	24	1.91
466019--466349	92	3.5	93	79	6	358	35	11	31	21	1.90
465770--466738	131	7.6	129	74	11	516	35	12	30	21	1.91
466683--466848	63	2.6	63	83	5	201	36	12	26	25	1.91
466400--466849	33	14.0	33	72	13	203	35	12	29	22	1.91
468129--468176	18	2.6	18	75	15	53	6	6	6	81	0.99
472840--473087	97	2.6	96	75	5	232	35	12	22	29	1.91
474625--474790	89	1.9	88	97	1	314	40	12	19	27	1.87
474815--474909	29	3.2	29	71	18	88	23	1	3	72	1.05
474823--474920	8	13.1	7	70	15	63	19	1	4	75	1.02
474827--474912	37	2.4	36	79	14	104	19	1	3	75	1.01
474825--474926	15	6.8	15	72	11	66	19	0	4	74	1.06
478676--478741	10	6.9	9	73	16	53	37	1	1	59	1.16
478699--478749	17	3.1	15	81	18	57	41	0	0	58	0.98
478692--478746	16	3.0	19	73	24	55	43	0	0	56	0.99
481951--482007	30	1.9	30	92	0	96	28	22	8	40	1.84
481998--482067	20	3.5	20	82	7	97	32	14	11	41	1.81
491246--491274	10	2.7	11	94	5	51	34	13	0	51	1.42
494677--494743	19	3.9	18	76	23	81	38	14	11	34	1.84
494698--494722	13	1.9	13	100	0	50	32	16	16	36	1.90
494679--494741	32	2.0	32	96	0	117	36	15	12	34	1.86
497155--497492	52	6.4	52	66	18	171	31	12	25	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497310--497382	27	2.6	28	89	6	105	23	20	31	24	1.98
497089--497494	213	1.9	213	87	5	606	31	13	26	29	1.93
499855--499913	13	5.0	13	70	29	60	42	15	15	27	1.86
499834--499933	33	3.0	33	94	0	164	44	16	15	25	1.85
499867--499933	20	3.7	20	74	25	85	46	14	14	23	1.83
500598--501397	59	13.8	59	90	3	924	25	21	28	25	1.99
500598--501397	118	6.9	118	91	3	1037	25	21	28	25	1.99
500598--501397	177	4.6	178	88	4	1025	25	21	28	25	1.99
501228--501368	27	5.1	27	61	16	65	22	19	29	29	1.98
502386--502452	1	67.0	1	72	0	53	1	1	10	86	0.70
502392--502452	24	2.5	24	83	5	77	1	0	11	86	0.63
502394--502437	22	2.0	22	86	4	61	2	0	11	86	0.66
502386--502452	13	5.3	12	84	8	80	1	1	10	86	0.70
519744--519796	19	2.8	19	97	0	97	37	16	11	33	1.85
522147--522219	29	2.6	28	84	6	85	24	19	32	23	1.97
522209--522545	104	3.2	103	69	14	256	31	11	25	31	1.91
522207--522377	52	3.3	50	74	9	157	30	11	26	30	1.91
522360--522435	27	2.8	28	88	6	102	22	19	32	25	1.97
522142--522547	213	1.9	213	87	4	604	31	12	26	29	1.93
524307--524332	13	2.0	13	100	0	52	38	15	15	30	1.88
524372--524439	19	3.9	18	76	23	83	38	14	11	35	1.83
524394--524418	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524375--524437	32	2.0	32	96	0	117	36	15	12	34	1.86
530165--530916	28	27.0	27	81	6	488	26	29	15	28	1.96
530164--530916	166	4.5	164	78	7	545	26	29	15	28	1.96
530555--531492	141	6.6	141	80	4	898	29	28	16	25	1.97
530541--531492	28	33.7	28	79	5	911	29	28	16	25	1.97
530262--531492	56	21.9	57	78	6	975	28	28	16	26	1.97
530307--531492	84	14.1	86	79	6	929	28	28	16	26	1.97
532295--532369	20	3.8	20	83	0	105	33	14	12	40	1.83
542711--542774	30	2.1	31	85	2	85	28	9	15	46	1.77
551039--551081	20	2.1	21	87	8	63	44	0	0	55	0.99
551521--551573	22	2.4	22	84	9	63	66	0	0	33	0.92
552088--552143	27	2.1	27	83	12	71	53	0	5	41	1.24
554253--554277	13	1.9	13	100	0	50	44	0	0	56	0.99
557551--557683	28	4.6	28	80	2	149	24	15	28	30	1.96
557674--557701	9	3.1	9	100	0	56	42	0	32	25	1.55
557695--557944	28	8.8	28	78	8	229	26	15	27	30	1.96
557589--557782	103	1.9	103	82	4	248	27	14	27	30	1.95
557701--557925	57	3.9	56	83	4	254	26	16	25	31	1.96
561033--561161	52	2.5	52	89	0	204	30	15	17	37	1.90
561033--561181	52	2.9	51	84	4	192	31	15	17	35	1.91
561170--561194	13	1.9	13	100	0	50	36	16	16	32	1.90
561233--561290	20	3.0	20	84	2	73	46	13	10	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561989--562159	49	3.5	49	96	0	308	32	17	26	22	1.96
562174--562465	43	6.0	52	78	12	200	34	16	23	25	1.95
562281--563096	43	18.1	43	74	15	593	31	17	25	25	1.97
562237--562468	43	4.9	49	79	14	274	32	17	24	25	1.97
562237--563102	92	9.5	92	79	11	856	32	17	25	25	1.97
562483--563099	49	13.0	52	79	12	420	31	17	26	25	1.97
563001--563227	116	2.0	111	80	11	251	37	14	24	23	1.92
563372--563426	28	2.0	28	96	0	101	34	16	21	27	1.95
564643--564673	13	2.5	12	90	10	53	58	0	3	38	1.15
565260--565290	13	2.5	12	90	10	53	38	3	0	58	1.15

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