genome.fa.s29.2.7.7.80.10.50.1000.21.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   28   29   30   31   32   
          33   34   

This is table  21  of  34  ( 4030 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)
3146408--3146534	48	2.6	48	91	6	204	22	23	15	38	1.92
3146554--3146979	46	9.3	46	73	12	254	24	25	8	41	1.83
3146589--3146933	91	3.8	89	77	10	308	24	25	8	41	1.83
3146599--3146943	137	2.5	138	79	6	364	24	25	8	41	1.83
3147170--3147477	42	7.3	42	68	14	150	19	21	12	46	1.82
3147670--3147819	43	3.5	44	72	10	139	16	22	12	50	1.77
3147036--3147812	85	9.2	85	77	8	600	17	21	12	47	1.82
3149401--3149449	17	2.7	18	84	6	64	77	6	2	14	1.05
3149409--3149449	9	4.6	9	82	11	57	78	7	2	12	1.06
3150428--3150531	55	1.9	54	82	2	127	11	20	15	52	1.73
3151609--3152046	97	4.5	97	88	1	612	28	25	13	33	1.93
3154256--3154603	150	2.4	144	82	6	396	41	9	8	40	1.68
3167704--3167789	32	2.7	32	87	0	118	24	17	27	30	1.97
3167692--3168083	28	13.4	28	79	8	365	23	15	30	29	1.96
3167747--3168083	111	2.9	114	86	4	419	22	15	31	30	1.95
3168597--3168721	20	5.8	20	79	17	133	43	8	16	31	1.79
3168637--3168731	50	1.9	50	100	0	190	44	8	16	30	1.78
3168547--3168721	90	1.9	91	89	3	273	42	9	18	30	1.81
3170528--3170614	44	2.0	44	100	0	174	29	12	20	36	1.90
3173004--3173044	17	2.4	17	83	0	55	4	19	0	75	0.98
3173004--3173044	11	3.6	11	86	3	55	4	19	0	75	0.98
3174432--3174533	12	8.2	13	71	14	72	59	0	4	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3174548--3174592	21	2.1	21	91	0	72	40	2	8	48	1.47
3174679--3174755	23	3.3	23	76	5	75	68	0	2	28	1.02
3174695--3174751	9	7.4	8	74	21	50	71	0	1	26	0.95
3174679--3174751	37	2.0	37	97	0	137	69	0	1	28	0.96
3174773--3174820	22	2.2	22	88	0	69	58	6	0	35	1.23
3174860--3174954	20	4.8	20	82	10	90	43	1	0	55	1.06
3176523--3176550	13	2.2	13	100	0	56	28	14	17	39	1.89
3181152--3181328	95	1.9	94	84	3	239	35	12	23	29	1.91
3184094--3184467	154	2.4	154	85	4	475	38	18	16	25	1.92
3185331--3185401	20	3.5	20	88	0	106	36	16	9	36	1.82
3185833--3185858	13	2.0	13	100	0	52	38	15	15	30	1.88
3186648--3186672	13	1.9	13	100	0	50	36	16	16	32	1.90
3186630--3186693	32	2.0	33	87	3	94	39	17	14	29	1.88
3188926--3189280	163	2.1	166	84	3	457	47	8	11	32	1.71
3198404--3198429	13	2.0	13	100	0	52	38	15	15	30	1.88
3198386--3198449	32	2.0	33	90	3	103	42	15	14	28	1.86
3206464--3206502	16	2.5	15	84	8	60	89	5	5	0	0.58
3207498--3207598	50	2.0	51	84	1	132	26	29	17	25	1.98
3207573--3207892	35	9.8	32	81	9	237	20	32	14	33	1.92
3207676--3207762	27	3.2	27	88	0	129	19	39	16	25	1.92
3207730--3207893	68	2.4	68	95	0	301	18	32	14	34	1.92
3207886--3207997	33	3.4	33	84	7	156	25	33	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207997--3208316	49	6.7	49	85	7	387	25	25	19	30	1.98
3208135--3208325	91	2.0	94	88	5	280	24	26	18	31	1.97
3208226--3208693	52	8.9	53	68	16	208	24	25	16	34	1.95
3208394--3208626	49	4.8	49	84	8	309	24	25	18	31	1.97
3208275--3208490	122	1.8	119	81	6	267	24	25	15	35	1.94
3208450--3208586	43	3.1	43	90	5	202	24	24	19	30	1.98
3208450--3208626	91	1.9	93	89	4	277	24	24	19	31	1.98
3208084--3208763	314	2.2	314	96	0	1245	24	25	16	33	1.96
3208643--3208769	67	1.9	68	86	1	184	25	25	11	37	1.90
3209491--3209557	33	2.0	33	85	0	89	32	11	13	41	1.81
3209598--3209625	13	2.2	13	100	0	56	28	14	17	39	1.89
3209631--3209706	32	2.4	32	100	0	152	31	21	21	26	1.98
3216140--3216164	12	2.1	12	100	0	50	44	8	8	40	1.63
3216765--3216819	20	2.7	21	85	2	76	38	12	18	30	1.88
3216867--3216892	13	2.0	13	100	0	52	38	15	15	30	1.88
3216849--3216912	32	2.0	33	87	3	94	42	14	14	29	1.84
3222628--3222677	20	2.5	20	80	0	64	78	0	20	2	0.86
3225437--3225544	54	2.0	54	94	3	191	37	10	23	28	1.87
3226439--3226751	169	1.8	170	79	9	363	47	7	13	31	1.69
3228107--3228153	24	2.0	24	95	0	85	19	19	12	48	1.80
3229119--3229144	13	2.0	13	100	0	52	30	15	15	38	1.88
3229204--3229274	20	3.6	20	80	3	99	32	16	14	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3229183--3229274	39	2.3	40	96	3	168	30	17	13	39	1.87
3229824--3229917	48	2.0	48	100	0	188	25	28	8	37	1.85
3231760--3231798	13	3.0	13	96	0	69	35	15	17	30	1.91
3233877--3233907	15	2.1	15	93	0	53	12	22	16	48	1.80
3237968--3237993	13	2.0	13	100	0	52	30	15	15	38	1.88
3238053--3238123	20	3.6	20	80	3	99	32	16	14	36	1.89
3238032--3238123	39	2.3	40	96	3	168	30	17	13	39	1.87
3240715--3240770	20	2.8	20	80	0	67	42	12	14	30	1.82
3241202--3241968	254	3.0	255	88	3	1090	28	13	20	36	1.91
3242561--3242852	52	5.5	52	72	13	191	33	16	25	23	1.95
3242652--3242825	61	3.0	60	74	16	179	36	14	25	23	1.93
3243803--3243841	21	1.9	20	94	5	69	35	15	12	35	1.86
3243941--3244001	13	5.2	13	70	22	62	29	13	14	42	1.84
3248295--3248577	149	1.9	149	84	2	379	39	15	10	33	1.82
3249213--3249257	23	2.0	23	95	0	81	28	17	11	42	1.84
3249974--3250308	167	2.0	167	80	4	381	46	11	12	29	1.77
3252111--3252528	175	2.4	175	81	1	460	40	16	23	19	1.91
3252021--3252701	44	15.5	44	69	9	293	40	15	23	20	1.91
3252055--3252646	307	1.9	305	80	5	674	41	15	22	20	1.90
3252464--3252701	130	1.8	131	83	0	316	39	16	24	20	1.92
3253941--3254003	9	6.9	9	77	16	67	11	3	1	84	0.81
3267734--3267758	13	1.9	13	100	0	50	32	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3267809--3267880	20	3.7	18	76	12	63	40	18	16	25	1.91
3275021--3275315	150	2.0	151	84	0	394	38	13	9	37	1.79
3276110--3276138	10	2.7	11	89	10	51	6	10	0	82	0.83
3278925--3279003	42	2.0	39	83	11	99	35	13	26	24	1.93
3278718--3279440	132	5.5	133	74	11	526	38	14	24	22	1.92
3278718--3279460	44	16.9	44	74	9	457	39	14	24	22	1.91
3280659--3280712	9	5.9	9	79	10	56	3	7	1	87	0.74
3280659--3280712	28	1.9	28	85	7	74	3	7	1	87	0.74
3283028--3283071	20	2.1	21	87	8	63	34	9	6	50	1.61
3290736--3291205	237	2.0	237	88	2	712	31	13	26	28	1.94
3290736--3291197	79	5.8	78	86	5	626	30	13	26	29	1.94
3293193--3293267	20	3.8	20	79	13	82	46	10	13	29	1.76
3295495--3295534	12	3.4	12	93	3	64	2	17	0	80	0.83
3295915--3296549	162	3.9	163	75	11	560	49	10	9	30	1.68
3301760--3301805	21	2.2	21	92	0	74	30	13	19	36	1.90
3302397--3302482	41	2.1	42	91	6	140	30	18	2	48	1.60
3305568--3305606	21	1.9	20	89	5	60	43	7	0	48	1.31
3306331--3306422	20	4.6	20	74	5	69	34	16	13	35	1.87
3306459--3306505	20	2.3	20	89	7	69	34	14	17	34	1.90
3310199--3310243	21	2.1	21	84	8	56	53	4	20	22	1.63
3312047--3312077	15	2.1	15	93	0	53	48	16	22	12	1.80
3314147--3314185	13	3.0	13	100	0	78	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315855--3315949	49	1.9	49	97	0	181	21	12	14	51	1.75
3316782--3316807	13	2.0	13	100	0	52	38	15	15	30	1.88
3317626--3317677	20	2.6	20	84	6	61	28	13	17	40	1.87
3319590--3319644	20	2.8	20	80	0	74	30	14	12	41	1.83
3319674--3319746	20	3.7	20	81	0	92	30	13	13	42	1.83
3319550--3319774	91	2.5	91	86	2	337	28	16	12	42	1.85
3322689--3322748	30	2.0	30	93	0	102	28	21	21	28	1.99
3333683--3333724	12	3.6	11	87	9	57	83	14	2	0	0.75
3333678--3333770	15	6.2	15	69	9	64	81	12	3	2	0.90
3333678--3333770	8	11.4	8	73	14	57	81	12	3	2	0.90

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   28   29   30   31   32   
          33   34