genome.fa.s51.2.7.7.80.10.50.1000.20.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: Scaffold51
Parameters: 2 7 7 80 10 50 1000
Length:  3712191

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  20  of  23  ( 2647 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)
3219492--3219620	52	2.5	52	98	0	249	28	19	17	34	1.95
3219696--3219767	19	3.7	19	75	15	76	38	16	13	30	1.88
3222233--3222307	20	3.7	20	75	7	69	42	10	13	33	1.78
3222335--3222417	13	6.0	13	72	22	62	33	13	15	37	1.86
3222332--3222436	32	3.5	32	77	17	116	34	13	15	37	1.86
3222406--3222495	19	4.6	19	86	5	135	36	15	12	35	1.85
3222444--3222516	21	3.6	21	79	7	96	30	15	12	42	1.83
3222425--3222518	40	2.3	40	98	0	179	34	14	11	39	1.83
3223744--3223799	21	2.8	21	78	5	71	39	12	14	33	1.83
3223787--3223876	13	6.0	13	69	26	54	32	14	18	34	1.91
3223766--3223870	32	3.3	32	94	0	183	32	12	19	36	1.89
3223768--3223861	19	5.6	19	70	27	77	30	12	19	37	1.89
3224809--3224865	29	2.0	29	93	6	98	22	19	17	40	1.91
3230575--3230632	21	2.8	21	85	14	77	41	13	13	31	1.84
3230576--3230633	20	2.8	22	87	12	79	41	12	13	32	1.82
3230655--3230719	13	4.5	13	72	20	58	33	16	12	36	1.87
3234506--3234534	3	9.7	3	100	0	58	65	0	0	34	0.93
3238356--3238425	36	2.0	35	86	8	99	40	11	18	30	1.86
3239472--3239534	19	3.6	19	76	24	84	39	15	15	28	1.89
3239490--3239547	13	4.0	13	76	23	62	39	15	15	29	1.88
3239472--3239567	32	3.0	32	95	1	165	41	15	14	28	1.86
3245747--3245792	21	2.2	20	81	11	58	32	19	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3246065--3246099	18	2.0	17	88	5	52	20	40	31	8	1.82
3248184--3248209	13	2.0	13	100	0	52	38	15	15	30	1.88
3248166--3248229	32	2.0	33	90	3	103	42	15	14	28	1.86
3250573--3250674	37	2.7	37	77	7	109	25	12	19	42	1.87
3254242--3254279	20	1.9	20	94	0	67	42	7	13	36	1.73
3255080--3255104	13	1.9	13	100	0	50	36	16	16	32	1.90
3255060--3255128	32	2.1	33	94	2	122	34	11	17	36	1.86
3255145--3255169	13	1.9	13	100	0	50	32	16	16	36	1.90
3255178--3255306	52	2.5	52	94	0	231	34	19	17	27	1.95
3258360--3258417	19	2.9	19	84	5	71	32	13	17	36	1.89
3266023--3266104	28	2.9	29	84	8	98	26	17	31	24	1.97
3266112--3266456	51	6.6	50	73	13	216	31	13	27	28	1.93
3266275--3266347	27	2.6	28	83	12	89	16	20	38	24	1.93
3268791--3268816	13	2.0	13	100	0	52	38	15	15	30	1.88
3268770--3268836	34	2.0	33	91	2	107	44	13	16	25	1.84
3268860--3268932	32	2.3	32	90	0	110	36	15	10	36	1.82
3268989--3269046	21	2.7	22	81	7	75	32	15	15	36	1.89
3269630--3269726	42	2.3	42	77	8	101	42	12	28	16	1.84
3269819--3270851	55	17.9	55	81	10	873	25	19	27	27	1.99
3269819--3270885	171	6.1	167	83	8	1073	26	19	27	27	1.99
3270227--3270344	35	3.3	35	98	1	227	35	20	22	21	1.96
3270421--3270502	26	2.9	29	66	23	84	19	20	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3270532--3270673	28	5.1	28	62	16	80	26	19	26	27	1.99
3270510--3270645	27	4.9	28	62	15	68	25	21	26	27	1.99
3271852--3271884	13	2.5	13	86	13	50	0	0	12	87	0.53
3284721--3284849	52	2.5	52	93	0	231	28	17	17	35	1.93
3284721--3284869	52	2.9	52	84	6	203	30	16	18	34	1.93
3284858--3284882	13	1.9	13	100	0	50	36	16	16	32	1.90
3284925--3285022	19	5.8	18	69	28	81	36	16	12	34	1.86
3284944--3285000	13	3.9	13	72	24	51	33	15	14	36	1.88
3284923--3285020	32	3.0	32	93	1	169	35	16	12	35	1.86
3285541--3286566	49	20.2	52	75	12	300	33	16	25	24	1.96
3285675--3285801	67	1.9	68	86	1	184	37	12	25	23	1.90
3285858--3286091	43	5.2	43	82	11	306	31	17	24	26	1.97
3285818--3286586	92	7.9	92	80	9	757	32	16	25	25	1.96
3285951--3286018	21	3.2	20	66	25	50	29	16	26	27	1.97
3285819--3286568	49	15.4	49	79	10	659	32	17	25	25	1.97
3286583--3286718	33	4.2	32	87	6	193	21	17	32	28	1.96
3286733--3287284	34	16.4	34	79	11	507	32	12	34	20	1.90
3286733--3287286	100	5.5	101	83	6	576	32	12	34	20	1.90
3286720--3287286	201	2.8	198	82	8	691	32	12	34	20	1.90
3286733--3287286	101	5.5	100	83	6	601	32	12	34	20	1.90
3287264--3287309	23	2.0	23	95	0	83	17	21	32	28	1.96
3287285--3287431	32	4.7	31	81	9	142	29	17	29	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3287286--3287463	31	5.7	30	82	12	193	29	17	28	24	1.97
3288423--3288463	14	3.1	14	83	13	52	0	12	4	82	0.81
3288426--3288477	17	3.4	17	79	12	51	0	9	7	82	0.84
3291823--3291895	20	3.6	20	81	3	101	35	13	19	31	1.91
3291841--3291916	21	3.7	21	77	7	84	39	13	17	30	1.87
3291823--3291916	41	2.3	41	94	3	163	37	13	18	30	1.90
3291955--3291980	13	2.0	13	100	0	52	38	15	15	30	1.88
3298064--3298141	20	3.7	20	74	15	75	26	15	15	42	1.87
3298130--3298167	13	2.9	13	96	0	67	34	18	15	31	1.92
3299955--3299996	21	2.0	21	100	0	84	23	4	19	52	1.65
3300631--3300703	20	3.6	20	81	3	101	35	15	17	31	1.91
3300648--3300724	21	3.8	20	77	8	84	41	12	15	29	1.85
3300631--3300724	41	2.3	41	94	0	161	38	13	17	30	1.88
3300763--3300788	13	2.0	13	100	0	52	38	15	15	30	1.88
3305518--3305646	52	2.5	52	90	0	213	28	17	17	37	1.92
3305518--3305666	52	2.9	52	82	6	185	30	16	17	36	1.92
3305655--3305679	13	1.9	13	100	0	50	36	16	16	32	1.90
3305741--3305765	13	1.9	13	100	0	50	32	16	16	36	1.90
3305720--3305784	32	2.0	32	96	0	121	36	16	12	33	1.87
3305722--3305805	19	4.7	19	80	18	108	36	17	11	33	1.87
3308171--3308243	28	2.6	27	81	10	76	28	10	34	26	1.90
3308259--3308388	51	2.5	50	85	3	152	36	10	24	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3308273--3308439	51	3.3	50	84	2	181	31	12	26	28	1.93
3308426--3308497	27	2.6	27	86	2	90	20	20	34	23	1.96
3308482--3308603	51	2.3	52	84	8	160	32	10	22	34	1.88
3310947--3311010	34	1.9	33	90	3	101	42	12	18	26	1.86
3311037--3311088	13	3.5	13	73	26	50	36	17	13	32	1.89
3311045--3311107	19	3.7	18	76	24	73	36	17	12	33	1.88
3311037--3311109	32	2.3	32	97	0	137	35	17	12	34	1.88
3313347--3313404	19	2.9	19	84	5	71	32	17	17	32	1.93
3313449--3313479	13	2.4	13	94	0	53	35	16	12	35	1.87
3313436--3313532	33	2.9	31	89	6	122	38	13	18	29	1.89
3314743--3314902	87	1.8	87	87	2	241	25	22	20	31	1.98
3314884--3314982	31	3.2	31	73	2	92	17	23	32	27	1.96
3314885--3315001	62	1.9	62	83	3	155	17	23	30	29	1.97
3314813--3315361	180	3.1	175	80	5	578	22	23	23	30	1.99
3315452--3315585	43	3.1	43	88	5	182	47	11	21	18	1.81
3315449--3315585	44	3.2	42	86	8	179	48	11	21	18	1.79
3315519--3315827	41	7.7	40	67	17	133	43	13	23	19	1.87
3316983--3317035	9	5.3	9	75	20	52	1	1	11	84	0.77
3316983--3317035	10	5.2	10	80	8	63	1	1	11	84	0.77
3316983--3317035	5	10.6	5	82	13	56	1	1	11	84	0.77
3321069--3321096	13	2.2	13	100	0	56	39	17	14	28	1.89
3321148--3321210	19	3.6	19	72	24	75	34	19	11	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321141--3321212	32	2.2	32	97	0	135	34	18	11	36	1.86
3321971--3322106	52	2.7	49	77	3	137	32	18	27	22	1.97
3321972--3322345	49	7.9	49	69	11	206	31	18	25	24	1.98
3322362--3322434	28	2.6	28	80	10	87	19	12	31	36	1.88
3322415--3322489	27	2.7	27	85	8	89	24	13	36	26	1.92
3322457--3322790	34	9.8	34	85	5	442	37	11	31	19	1.87
3322457--3322790	102	3.3	102	90	1	499	37	11	31	19	1.87
3324221--3324278	1	58.0	1	75	0	53	0	5	6	87	0.65
3324218--3324280	19	3.2	19	85	12	83	0	4	9	85	0.72
3324221--3324280	21	3.0	20	83	7	77	0	5	8	86	0.69

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23