genome.fa.s18.2.7.7.80.10.50.1000.19.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: Scaffold18
Parameters: 2 7 7 80 10 50 1000
Length:  4432388

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  19  of  27  ( 3197 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)
3044293--3044349	16	3.4	17	88	11	82	85	12	1	0	0.66
3044291--3044378	13	6.5	14	73	17	62	84	10	4	1	0.82
3045449--3045648	55	3.5	54	82	9	247	25	29	21	24	1.99
3045452--3045699	55	4.3	59	77	15	243	25	27	21	25	1.99
3045744--3045975	61	3.8	61	85	4	292	25	28	19	26	1.99
3045351--3045975	275	2.3	270	85	6	832	24	28	20	27	1.99
3045725--3045975	122	2.1	115	86	6	342	26	27	20	25	1.99
3045995--3046099	42	2.5	42	82	4	122	17	24	14	43	1.86
3046928--3046953	13	2.0	13	100	0	52	30	15	15	38	1.88
3046992--3047046	20	2.8	20	91	5	85	25	16	16	41	1.88
3047029--3047058	13	2.3	13	100	0	60	30	16	13	40	1.87
3048388--3048768	79	4.9	80	78	6	336	26	25	13	33	1.93
3048436--3048727	79	3.7	79	83	2	356	27	25	13	33	1.93
3048436--3048768	79	4.2	79	81	3	352	26	25	13	33	1.94
3048436--3048768	157	2.1	158	79	5	354	26	25	13	33	1.94
3054462--3054873	28	14.4	28	79	7	389	30	29	16	23	1.96
3054462--3054855	114	3.4	113	85	7	503	30	29	17	22	1.97
3069960--3069998	11	3.7	10	90	10	60	87	7	2	2	0.73
3069960--3070001	21	2.0	21	95	4	75	85	7	4	2	0.80
3071287--3071848	28	19.8	28	81	6	587	31	28	16	22	1.96
3071287--3071803	111	4.6	112	82	5	569	31	29	16	23	1.96
3071790--3071899	32	3.4	32	77	6	123	30	30	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3071923--3072031	49	2.3	48	82	6	125	22	24	18	34	1.96
3073024--3073078	20	2.8	20	85	0	74	34	9	14	41	1.77
3086562--3086595	7	5.0	7	85	7	52	85	0	14	0	0.60
3086555--3086595	20	2.0	20	86	9	57	85	2	12	0	0.70
3087564--3088018	61	7.4	61	82	2	475	26	26	17	29	1.97
3087564--3088018	183	2.5	183	83	4	533	26	26	17	29	1.97
3087995--3088102	43	2.5	42	81	3	117	23	21	13	41	1.89
3088026--3088119	42	2.2	42	83	5	109	17	22	10	50	1.76
3088034--3088362	76	4.4	74	77	9	344	19	23	15	42	1.89
3088034--3088362	149	2.2	151	87	3	468	19	23	15	42	1.89
3088915--3089029	50	2.3	50	83	0	149	30	13	13	42	1.83
3091543--3091790	79	3.2	77	80	8	236	28	27	13	31	1.94
3091672--3091821	79	1.9	80	83	4	196	28	27	11	32	1.91
3095345--3095369	13	1.9	13	100	0	50	32	16	16	36	1.90
3095494--3095542	20	2.3	23	82	13	68	44	18	4	32	1.68
3095496--3095542	22	2.2	22	88	7	71	44	19	4	31	1.70
3097235--3097284	21	2.4	21	83	9	59	48	0	20	32	1.50
3097242--3097284	21	2.0	22	86	4	61	51	0	20	27	1.48
3103480--3103635	72	2.2	72	94	0	276	33	12	17	35	1.88
3103682--3103735	19	2.8	19	88	2	72	40	18	11	29	1.85
3103686--3103754	20	3.5	19	84	7	68	40	17	13	28	1.87
3104890--3104942	20	2.6	21	84	6	72	37	7	18	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104890--3104962	21	3.5	21	80	10	62	36	9	19	34	1.84
3110466--3110633	65	2.6	65	78	1	176	44	12	22	20	1.85
3111204--3111424	76	2.9	75	78	5	205	48	10	15	25	1.77
3127740--3128175	28	15.5	28	81	8	422	28	29	17	24	1.97
3133661--3133710	19	2.6	19	100	0	100	32	12	20	36	1.89
3133741--3133806	33	2.0	33	82	5	80	28	16	13	40	1.87
3138778--3138803	13	2.0	13	100	0	52	30	15	15	38	1.88
3141278--3141316	13	3.0	13	96	0	69	38	12	15	33	1.85
3143395--3143425	15	2.1	15	93	0	53	12	22	16	48	1.80
3145229--3145273	21	2.1	21	84	8	56	22	20	4	53	1.63
3147499--3147524	13	2.0	13	100	0	52	30	15	15	38	1.88
3161338--3161400	19	3.6	19	76	24	84	33	12	19	34	1.89
3161357--3161381	13	1.9	13	100	0	50	36	16	16	32	1.90
3161338--3161408	32	2.2	32	100	0	142	32	12	19	35	1.90
3161452--3161478	13	2.1	13	100	0	54	29	14	14	40	1.86
3165938--3166053	42	2.7	42	83	4	115	13	37	1	47	1.54
3169111--3169136	12	2.2	12	100	0	52	42	0	0	57	0.98
3169310--3169342	15	2.1	16	88	5	50	30	18	0	51	1.46
3170093--3170196	50	2.1	50	92	1	174	36	5	23	34	1.79
3176108--3176210	54	1.9	54	90	4	163	48	13	11	26	1.77
3176255--3176325	20	3.5	20	83	9	90	29	16	12	40	1.86
3176568--3176621	20	2.6	21	88	5	83	42	9	16	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3176710--3176764	20	2.8	20	94	0	92	34	21	9	34	1.85
3177355--3177398	21	2.1	21	95	0	79	27	31	4	36	1.77
3178729--3178754	13	2.0	13	100	0	52	30	15	15	38	1.88
3178709--3178772	33	2.0	32	90	3	101	28	12	20	39	1.89
3179431--3179475	22	2.0	22	83	8	56	33	26	0	40	1.57
3179422--3179600	75	2.4	75	91	2	292	32	25	1	40	1.63
3182841--3182960	52	2.3	52	95	0	213	28	17	19	35	1.94
3182841--3182980	52	2.7	52	86	4	185	29	17	20	33	1.95
3182969--3182993	13	1.9	13	100	0	50	36	16	16	32	1.90
3183034--3183100	33	2.0	33	88	0	98	40	13	11	34	1.81
3183056--3183080	13	1.9	13	100	0	50	32	16	16	36	1.90
3183997--3185447	49	29.7	49	84	3	1899	30	17	26	25	1.97
3184534--3184601	21	3.2	20	66	25	50	29	16	26	27	1.97
3185447--3185684	33	7.2	33	90	5	367	18	17	35	28	1.94
3185448--3185683	67	3.6	67	90	5	374	18	17	36	27	1.94
3185686--3186166	34	14.4	34	83	9	503	33	12	33	19	1.90
3185888--3186015	31	4.3	28	79	15	82	28	14	35	22	1.93
3185754--3186118	195	1.9	198	86	6	537	32	12	35	20	1.90
3185949--3186153	37	5.9	34	83	9	245	33	12	33	20	1.90
3186157--3186213	30	1.9	30	96	0	105	31	19	24	24	1.98
3187169--3187217	18	3.0	15	80	13	53	2	10	6	81	0.94
3188870--3188914	20	2.1	21	84	8	56	6	28	46	17	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3189319--3189354	13	2.8	13	95	0	63	33	16	16	33	1.92
3189559--3189584	8	3.2	8	100	0	52	61	23	0	15	1.33
3195515--3195540	13	2.0	13	100	0	52	30	15	15	38	1.88
3195495--3195558	33	2.0	32	90	3	101	28	12	20	39	1.89
3195600--3195652	20	2.6	21	82	8	65	30	16	15	37	1.90
3197822--3197869	20	2.4	20	92	0	78	18	31	16	33	1.94
3197822--3197875	20	2.7	20	88	0	63	18	29	14	37	1.91
3202564--3202680	51	2.3	51	83	0	144	29	27	11	32	1.91
3202480--3202758	130	2.2	130	87	4	404	27	25	13	32	1.94
3202612--3202988	79	4.8	79	78	6	354	27	25	14	32	1.94
3202611--3202988	157	2.4	158	79	4	406	27	25	14	32	1.94
3202612--3202988	158	2.4	157	79	4	420	27	25	14	32	1.94
3208551--3208625	19	3.9	19	87	1	96	33	17	13	36	1.88
3208675--3208699	13	1.9	13	100	0	50	36	16	16	32	1.90
3209724--3209755	15	2.1	15	94	0	55	84	0	15	0	0.63
3210819--3211349	27	19.6	27	81	5	570	25	29	13	30	1.94
3211170--3211574	28	14.4	29	81	6	274	27	28	15	28	1.96
3211370--3211575	29	7.1	30	83	6	237	29	28	15	27	1.96
3211557--3211696	33	4.3	33	79	3	140	28	20	22	28	1.98
3211573--3211711	66	2.1	66	86	5	194	30	20	18	29	1.97
3211573--3211711	33	4.3	33	78	6	140	30	20	18	29	1.97
3212724--3212826	52	2.0	50	85	9	138	28	15	9	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212813--3212927	30	3.9	30	93	1	187	28	15	8	46	1.75
3219779--3219876	46	2.1	46	96	0	178	33	24	7	34	1.83
3221110--3221566	27	16.7	26	78	7	374	26	30	12	29	1.93
3221110--3221567	54	8.4	53	81	6	445	26	30	12	30	1.93
3221110--3221567	55	8.4	54	80	4	420	26	30	12	30	1.93
3221597--3221862	57	4.6	57	80	10	263	29	28	16	25	1.96
3221597--3221862	118	2.3	113	83	7	331	29	28	16	25	1.96
3221368--3221862	28	17.8	29	77	10	299	29	28	14	27	1.95
3221885--3222060	97	1.8	97	87	2	264	31	25	18	25	1.97
3221763--3222082	33	10.2	32	78	10	197	29	26	17	27	1.97

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