genome.fa.s228.2.7.7.80.10.50.1000.21.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: 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  21  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)
3112376--3112406	16	2.0	15	93	6	53	38	0	12	48	1.42
3112654--3112703	20	2.5	20	81	15	50	26	4	8	62	1.41
3115923--3115947	12	2.1	12	100	0	50	28	0	0	72	0.86
3116441--3116483	14	3.1	14	80	6	52	48	0	0	51	1.00
3117217--3117243	14	1.9	14	100	0	54	14	11	0	74	1.08
3117937--3117961	10	2.5	10	100	0	50	84	0	16	0	0.63
3118102--3118151	21	2.4	22	75	18	54	68	0	30	2	1.01
3118120--3118175	14	3.9	14	71	13	51	69	0	25	5	1.09
3118102--3118171	29	2.3	29	82	4	86	68	0	28	2	1.04
3118286--3118369	32	2.6	32	75	12	82	67	0	26	5	1.13
3118847--3118896	24	2.1	24	100	0	100	40	16	8	36	1.77
3118850--3118907	24	2.4	24	91	0	89	37	13	5	43	1.67
3120687--3120723	18	2.1	18	100	0	74	21	21	0	56	1.42
3122355--3122398	22	2.0	22	82	8	54	31	4	2	61	1.28
3124663--3124731	30	2.3	29	77	2	75	28	8	4	57	1.48
3125223--3125284	28	2.2	27	78	18	65	38	1	4	54	1.31
3125224--3125283	29	2.1	28	82	14	70	36	1	5	56	1.31
3127267--3127601	157	2.1	157	82	2	413	29	11	15	42	1.83
3127297--3127643	157	2.2	156	78	5	360	30	12	16	40	1.85
3130913--3130987	20	3.8	18	81	10	78	42	12	12	33	1.79
3131594--3132835	28	43.5	29	84	7	1353	23	18	30	28	1.97
3134046--3134105	22	2.7	22	77	12	68	3	8	6	81	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3141856--3141930	20	3.8	20	78	0	87	34	13	12	40	1.81
3141856--3141933	40	2.0	39	87	2	111	34	12	12	39	1.82
3149023--3149074	23	2.3	23	86	6	70	76	5	11	5	1.13
3148985--3149072	39	2.2	40	84	10	108	73	7	12	5	1.22
3149319--3149352	11	3.0	11	91	8	59	88	11	0	0	0.52
3150402--3151277	27	32.0	27	94	1	1455	22	35	14	27	1.93
3150402--3151277	82	10.7	81	93	2	1464	22	35	14	27	1.93
3151260--3151829	32	17.8	32	95	0	980	31	34	18	16	1.93
3152357--3152431	20	3.8	20	78	0	87	34	13	12	40	1.81
3152357--3152434	40	2.0	39	87	2	111	34	12	12	39	1.82
3162226--3162265	19	2.1	19	85	0	53	70	7	10	12	1.35
3166510--3166584	20	3.8	18	81	10	78	42	12	12	33	1.79
3168149--3168189	3	13.7	3	100	0	82	65	0	0	34	0.93
3168290--3168414	39	3.2	39	87	1	169	32	4	18	45	1.68
3168290--3168451	40	4.1	39	82	2	162	32	3	17	46	1.66
3175672--3175731	31	1.9	32	83	10	79	41	0	0	58	0.98
3175692--3175748	20	2.8	21	80	17	59	38	0	1	59	1.08
3175756--3175812	24	2.4	23	75	18	62	35	0	0	64	0.93
3177911--3177935	12	2.1	12	100	0	50	56	0	0	44	0.99
3178602--3178637	2	18.0	2	94	0	63	47	0	2	50	1.15
3183223--3183265	21	2.0	21	82	8	52	39	2	0	58	1.11
3184020--3184064	3	15.0	3	100	0	90	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187386--3187459	20	3.7	19	80	7	85	43	12	12	32	1.79
3187877--3188043	45	3.6	45	80	8	185	36	17	22	22	1.95
3187837--3188013	47	3.8	47	81	7	198	37	18	23	21	1.94
3187837--3188043	92	2.2	94	86	1	283	36	18	22	22	1.95
3188145--3188466	28	11.4	29	81	4	279	27	17	27	27	1.97
3188145--3188466	56	5.7	56	79	2	308	27	17	27	27	1.97
3188375--3188440	27	2.4	28	84	5	89	36	13	25	24	1.92
3195577--3195654	27	2.7	30	84	9	108	24	3	6	65	1.33
3195568--3195670	31	3.5	31	78	10	124	25	5	5	63	1.40
3195613--3195677	31	2.1	31	88	0	94	27	6	3	63	1.33
3195694--3195722	14	2.0	15	93	6	51	41	6	6	44	1.58
3198974--3199027	25	2.2	25	86	6	74	53	0	1	44	1.11
3206160--3206345	98	1.9	98	89	0	291	41	6	12	38	1.71
3207263--3207441	67	2.7	67	85	6	213	43	11	21	23	1.86
3210943--3210998	20	2.8	19	89	5	76	39	14	16	30	1.88
3211068--3211093	13	2.0	13	100	0	52	38	15	15	30	1.88
3211050--3211114	32	2.0	34	90	6	107	44	15	12	27	1.82
3215160--3215190	15	2.1	15	93	0	53	48	16	22	12	1.80
3217271--3217321	13	3.9	13	94	0	84	37	17	13	31	1.89
3217433--3217478	21	2.2	20	81	11	58	32	19	4	43	1.71
3219693--3219748	20	2.8	19	89	5	76	39	14	16	30	1.88
3219818--3219843	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)
3219800--3219864	34	2.0	33	90	6	105	46	15	12	26	1.81
3221865--3222386	80	6.6	77	73	10	310	26	26	11	34	1.91
3222111--3222374	81	3.3	80	76	9	198	26	27	11	34	1.91
3228273--3228319	24	2.0	24	87	8	69	21	12	23	42	1.87
3231718--3231748	15	2.1	15	93	0	53	54	0	3	41	1.16
3232574--3233162	293	2.0	295	91	2	952	40	14	12	31	1.84
3238225--3238280	20	2.8	20	76	15	53	33	0	7	58	1.25
3238046--3238410	74	5.0	74	80	7	388	31	2	12	53	1.51
3238558--3238802	121	2.0	121	87	0	348	35	2	18	43	1.62
3242083--3242274	104	1.9	102	82	8	246	32	11	28	27	1.91
3242095--3242335	103	2.3	105	78	10	255	33	12	26	27	1.93
3244814--3244868	20	2.7	20	88	2	74	36	16	7	40	1.76
3245614--3245736	41	3.2	40	65	28	106	56	10	0	33	1.34
3245608--3245888	72	3.9	71	80	9	320	54	11	0	32	1.42
3245609--3245876	142	1.9	146	82	7	352	55	11	0	32	1.40
3246049--3246232	70	2.6	70	84	6	208	52	10	1	35	1.45
3246016--3246248	70	3.4	67	79	10	190	54	10	1	33	1.45
3246551--3246583	17	2.1	17	88	11	52	39	3	0	57	1.14
3246662--3246695	18	1.9	17	88	5	50	35	0	2	61	1.11
3246845--3246896	27	1.9	27	84	0	68	57	1	3	36	1.28
3247443--3247504	2	31.0	2	93	0	97	45	0	4	50	1.23
3250282--3250317	2	18.0	2	100	0	72	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3251621--3251654	17	2.0	18	88	11	54	50	0	0	50	1.00
3254075--3254110	17	2.1	18	89	5	56	61	0	2	36	1.11
3254471--3254518	23	2.1	23	84	0	60	27	18	4	50	1.65
3256261--3256315	2	29.0	2	80	10	62	47	3	1	47	1.30
3258030--3258062	2	16.5	2	100	0	66	48	0	0	51	1.00
3259515--3259546	2	16.0	2	100	0	64	50	0	0	50	1.00
3262063--3262102	3	13.3	3	100	0	80	65	0	0	35	0.93
3262189--3262228	19	2.2	19	86	4	55	40	0	5	55	1.22
3264414--3264439	13	2.0	13	100	0	52	30	38	7	23	1.83
3266320--3266377	28	2.0	30	93	6	102	36	17	24	22	1.95
3266411--3266487	28	2.8	28	83	0	82	24	20	31	23	1.98
3266475--3266856	51	7.3	51	71	15	251	32	11	24	30	1.91
3266675--3266750	27	2.8	28	86	6	102	22	19	32	25	1.97
3267769--3267860	46	2.0	46	100	0	184	41	6	19	32	1.77
3269332--3269356	13	1.9	13	100	0	50	32	16	16	36	1.90
3271138--3271188	17	3.0	17	97	0	93	43	23	15	17	1.88
3277021--3277718	32	21.8	32	93	0	1128	17	18	33	30	1.94
3277701--3278575	164	5.3	162	91	1	1345	27	13	34	24	1.93
3277701--3278575	27	32.0	27	90	2	1345	27	13	34	24	1.93
3285801--3285850	22	2.2	23	82	3	57	54	6	2	38	1.37
3293087--3293127	21	2.0	21	85	9	57	43	17	19	19	1.88
3294064--3294137	20	3.7	20	69	7	60	40	12	14	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3296665--3296834	69	2.5	68	79	5	173	36	22	10	31	1.87
3300268--3300308	18	2.3	18	86	0	55	51	24	14	9	1.72
3301416--3301451	2	18.0	2	100	0	72	50	0	0	50	1.00
3306050--3306087	2	19.0	2	100	0	76	50	0	0	50	1.00
3308756--3308800	21	2.1	21	83	0	54	35	11	6	46	1.66
3310183--3310748	79	7.2	78	81	4	573	34	13	24	27	1.93
3310172--3310748	158	3.7	158	83	3	687	35	12	23	28	1.92
3310203--3310748	237	2.3	236	84	0	707	34	13	23	28	1.93
3313107--3313178	30	2.4	30	90	0	108	45	15	13	25	1.83
3313486--3313915	44	10.2	43	70	15	220	43	12	24	18	1.85

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