genome.fa.s55.2.7.7.80.10.50.1000.16.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  16  of  21  ( 2443 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)
3387341--3387365	13	1.9	13	100	0	50	72	8	0	20	1.10
3387339--3387442	45	2.3	43	77	16	113	71	8	0	19	1.18
3387287--3387450	70	2.4	67	78	17	169	72	8	1	17	1.16
3387329--3387450	23	5.3	23	70	20	87	72	8	0	18	1.13
3388842--3388911	29	2.4	29	83	4	79	48	17	22	11	1.79
3390391--3390699	155	2.0	155	85	3	417	23	17	20	37	1.93
3392588--3392640	20	2.6	21	82	8	65	37	15	16	30	1.90
3392682--3392733	20	2.7	20	90	3	79	38	21	11	28	1.88
3399310--3399348	20	1.9	21	84	5	53	23	43	23	10	1.84
3400733--3400776	22	2.0	22	91	4	72	31	0	29	38	1.58
3401321--3401372	21	2.5	21	81	9	63	38	15	17	28	1.90
3401433--3401458	13	2.0	13	100	0	52	30	15	15	38	1.88
3401413--3401480	33	2.1	33	88	2	102	35	17	13	33	1.89
3403338--3403455	9	13.8	8	68	15	51	15	0	8	75	1.08
3403338--3403532	17	11.4	17	65	25	58	16	2	8	72	1.18
3403394--3403527	9	14.8	9	70	13	87	14	2	9	73	1.21
3403337--3403492	7	20.9	7	68	20	59	16	1	8	73	1.15
3403801--3410078	476	13.3	476	84	3	7511	35	13	18	31	1.90
3414608--3419113	475	9.5	474	81	4	4910	35	13	19	31	1.91
3414608--3419113	951	4.7	948	81	3	5079	35	13	19	31	1.91
3419647--3419696	20	2.5	20	96	0	91	34	0	22	44	1.53
3419667--3422752	478	6.5	475	81	5	3157	36	12	18	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3425512--3425641	51	2.6	50	87	3	179	46	11	14	26	1.79
3426564--3426651	33	2.8	32	77	10	90	29	17	23	29	1.97
3426668--3427137	28	16.7	28	83	4	455	23	17	28	29	1.97
3426668--3427267	56	10.9	56	83	6	435	23	18	29	28	1.98
3427140--3427277	28	4.9	28	87	7	208	23	18	31	26	1.98
3427068--3427211	74	1.9	74	90	0	225	21	18	29	30	1.97
3427040--3427239	102	2.0	102	88	4	296	21	17	30	30	1.96
3427010--3427267	130	2.0	130	89	0	390	23	17	29	29	1.97
3428569--3429579	506	2.0	505	97	0	1916	22	20	21	34	1.97
3432684--3432756	20	3.7	20	81	0	83	31	12	9	46	1.74
3438315--3438905	28	20.9	28	86	2	770	22	17	30	29	1.97
3438246--3438905	170	3.8	168	85	4	849	23	17	29	29	1.97
3440148--3440219	1	72.0	1	77	0	54	0	1	12	86	0.65
3440126--3440220	8	11.9	8	81	11	99	1	2	13	83	0.80
3440148--3440216	9	7.7	9	85	4	86	0	1	13	85	0.66
3442508--3442579	28	2.6	28	84	0	90	23	30	20	25	1.99
3442615--3442673	28	2.0	30	90	9	95	27	25	16	30	1.97
3442535--3442955	159	2.7	157	84	2	502	28	23	14	33	1.94
3442535--3442992	79	5.8	79	79	3	465	28	24	13	33	1.94
3450872--3460237	476	19.7	477	83	3	10571	35	13	18	31	1.91
3459981--3460492	255	2.0	255	94	1	902	33	14	19	32	1.92
3459507--3460937	730	2.0	728	85	3	1948	34	14	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3460236--3464023	477	8.0	474	84	3	4635	35	13	18	31	1.91
3467235--3467259	13	1.9	13	100	0	50	36	16	16	32	1.90
3467298--3467355	13	4.0	13	74	23	53	34	15	15	34	1.89
3467312--3467375	19	3.7	18	76	23	75	37	17	12	32	1.87
3467299--3467374	32	2.4	32	95	0	134	35	17	14	32	1.90
3467712--3467818	56	1.9	56	92	0	178	37	22	12	28	1.90
3467772--3474386	476	13.9	477	82	4	7503	35	14	18	31	1.91
3474078--3474741	353	1.9	353	92	0	1123	37	14	16	31	1.89
3477061--3477136	12	6.9	11	75	15	52	39	2	48	9	1.49
3477060--3477145	24	3.8	24	72	17	85	41	2	45	10	1.51
3477051--3477169	42	2.8	42	92	0	193	42	2	46	8	1.47
3482158--3484050	476	4.0	474	82	5	2328	35	13	18	32	1.90
3483965--3484137	84	2.1	84	92	2	285	31	12	21	34	1.90
3483507--3485172	559	3.0	559	90	1	2577	35	13	19	31	1.91
3489380--3489458	33	2.4	33	83	8	99	44	0	44	11	1.40
3494528--3496132	159	10.2	155	65	15	402	37	13	18	30	1.90
3494329--3500216	474	12.4	475	83	3	6694	36	14	17	30	1.90
3500553--3500578	13	2.0	13	100	0	52	30	15	15	38	1.88
3500616--3500690	20	3.8	19	82	7	96	30	14	13	41	1.84
3509125--3509243	42	2.8	42	89	0	184	8	45	2	43	1.47
3512684--3512729	18	2.5	19	79	13	51	13	45	0	41	1.43
3512715--3512775	9	7.1	9	70	10	56	14	44	0	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512720--3512796	12	5.9	12	73	26	68	14	46	0	38	1.44
3512690--3512796	42	2.5	42	93	0	178	14	45	0	39	1.46
3514660--3515847	159	7.5	158	66	14	398	34	14	18	31	1.91
3514422--3518395	476	8.4	475	87	2	5480	35	14	18	31	1.91
3514431--3518395	950	4.2	948	91	2	5617	35	14	18	31	1.91
3518222--3518561	181	1.9	181	92	1	574	39	11	18	30	1.86
3518759--3518794	18	2.0	18	100	0	72	33	16	16	33	1.92
3518795--3519665	452	1.9	452	84	2	1160	34	14	20	30	1.92
3519712--3521353	476	3.5	475	84	2	2116	35	14	18	31	1.91
3521259--3521457	104	1.9	104	79	2	220	35	14	22	28	1.93
3520652--3522089	738	2.0	736	90	1	2279	35	14	18	31	1.91
3521388--3523043	476	3.5	475	84	3	2103	35	14	18	31	1.91
3522349--3523781	738	1.9	738	90	0	2287	35	15	18	31	1.91
3523087--3524733	476	3.5	476	84	2	2185	35	14	18	31	1.91
3524515--3524996	262	1.8	262	84	2	653	34	15	18	30	1.93
3524039--3525467	738	1.9	738	88	1	2128	34	15	18	31	1.92
3524777--3527605	474	6.0	476	86	4	3417	34	14	18	31	1.92
3526275--3526966	158	4.4	158	67	13	395	34	16	18	30	1.93
3526383--3527057	159	4.3	158	67	13	461	34	15	18	31	1.93
3524777--3527605	939	3.0	939	82	5	3465	34	14	18	31	1.92
3527607--3530241	475	5.5	472	83	5	3091	35	15	18	31	1.91
3531209--3531346	71	1.9	71	94	0	240	18	27	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3535429--3535546	12	10.9	11	75	16	72	39	2	47	10	1.51
3535449--3535551	9	12.1	9	69	12	65	41	2	44	10	1.54
3535452--3535564	18	5.6	18	68	22	64	42	2	44	10	1.53
3535419--3535579	42	3.8	42	94	0	268	42	2	45	9	1.49
3543923--3544041	42	2.8	42	92	0	193	8	46	2	42	1.47
3543956--3544031	12	6.9	11	75	15	52	9	48	2	39	1.49
3543947--3544032	24	3.8	24	72	17	85	10	45	2	41	1.51
3543938--3544008	18	3.6	18	69	20	52	9	43	2	43	1.52
3545756--3545820	12	6.0	11	81	15	66	13	47	0	38	1.43
3545769--3545800	9	3.6	9	91	0	55	12	43	0	43	1.42
3547614--3549044	738	1.9	734	84	3	1901	35	13	19	31	1.91
3548350--3553669	476	11.2	476	85	2	6581	35	14	18	31	1.91
3549432--3553421	159	25.2	158	64	13	877	36	14	18	30	1.91
3557719--3557743	13	1.9	13	100	0	50	36	16	16	32	1.90
3557732--3557784	20	2.7	19	71	5	52	30	15	15	39	1.87
3557813--3557875	33	1.9	33	87	6	92	33	11	22	33	1.89
3558800--3559512	159	4.5	157	68	11	409	37	14	18	29	1.90
3558604--3559753	476	2.4	475	87	0	1703	35	14	18	31	1.91
3559755--3562558	476	5.9	476	85	3	3488	35	14	18	31	1.91
3562636--3563275	158	4.0	159	67	14	377	37	12	18	31	1.88
3562555--3572386	476	20.6	476	84	2	11661	35	14	19	31	1.91
3566206--3566240	17	2.1	17	94	0	61	25	11	28	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3568597--3568631	17	2.1	17	94	0	61	25	11	28	34	1.91
3572393--3575879	158	22.0	158	65	13	956	35	13	19	31	1.90
3572393--3576641	475	9.0	474	90	2	5572	36	13	18	31	1.90
3572621--3574684	159	13.0	159	66	12	751	36	13	19	31	1.90
3576251--3577064	405	2.0	409	84	4	1067	35	14	18	31	1.91
3576660--3583681	475	14.7	475	82	4	7514	35	14	18	31	1.91
3579606--3579649	23	1.9	23	100	0	88	38	31	6	22	1.81
3580830--3583422	159	16.4	158	65	13	548	35	13	18	32	1.90
3583268--3584092	411	2.0	411	84	2	1077	36	13	18	31	1.89
3583677--3594655	476	23.1	475	84	3	13114	36	13	18	31	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21