genome.fa.s51.2.7.7.80.10.50.1000.21.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: 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  21  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)
3338224--3338251	13	2.2	13	100	0	56	39	17	14	28	1.89
3338303--3338365	19	3.6	19	76	24	84	34	19	12	33	1.89
3338290--3338367	32	2.4	32	95	0	138	34	16	14	34	1.89
3338322--3338346	13	1.9	13	100	0	50	32	16	16	36	1.90
3338302--3338384	19	4.6	18	75	23	77	32	16	13	37	1.88
3349729--3349756	13	2.2	13	100	0	56	39	14	14	32	1.86
3349708--3349810	33	3.1	33	85	2	98	40	14	12	32	1.84
3349729--3349810	35	2.4	33	89	4	119	40	15	13	30	1.86
3349742--3349810	20	3.7	20	71	25	69	40	15	13	30	1.86
3349839--3349886	20	2.5	20	86	3	62	31	12	20	35	1.90
3353900--3353927	13	2.2	13	100	0	56	39	14	14	32	1.86
3353879--3353981	33	3.1	33	85	2	98	40	14	12	32	1.84
3353900--3353981	35	2.4	33	89	4	119	40	15	13	30	1.86
3353913--3353981	20	3.7	20	71	25	69	40	15	13	30	1.86
3354010--3354057	20	2.5	20	86	3	62	31	12	20	35	1.90
3363148--3363181	17	2.0	17	94	0	59	23	14	11	50	1.76
3365352--3365382	9	3.3	9	95	4	53	32	9	35	22	1.87
3365355--3365383	10	3.0	10	95	5	51	37	10	31	20	1.86
3365407--3365543	53	2.6	53	94	1	238	26	17	18	37	1.93
3365533--3365585	21	2.6	21	76	11	56	32	15	15	37	1.88
3365622--3365664	21	2.0	21	86	8	61	39	9	11	39	1.74
3369739--3369780	20	2.1	20	90	0	66	47	7	14	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373007--3373078	20	3.7	20	76	12	69	31	15	15	37	1.88
3374474--3374499	13	2.0	13	100	0	52	30	15	15	38	1.88
3375206--3375249	21	2.1	21	83	8	54	25	31	4	38	1.76
3377052--3377078	13	2.1	13	100	0	54	37	14	14	33	1.88
3379162--3379192	15	2.1	15	93	0	53	12	22	16	48	1.80
3380996--3381040	21	2.1	21	88	8	65	22	17	4	55	1.60
3383261--3383286	13	2.0	13	100	0	52	30	15	15	38	1.88
3385621--3385671	20	2.5	20	81	12	59	27	35	3	33	1.75
3387817--3387847	13	2.4	13	94	0	53	41	22	6	29	1.78
3389421--3389713	31	9.6	31	80	6	271	25	29	15	30	1.95
3389482--3389720	122	2.0	121	84	7	315	25	30	14	29	1.95
3389694--3389747	27	2.0	27	85	0	72	22	27	16	33	1.95
3389717--3389948	32	7.5	32	71	16	157	25	26	9	38	1.86
3389692--3389893	91	2.2	93	82	9	242	25	29	11	33	1.91
3389717--3390004	27	9.3	33	70	17	188	24	26	10	38	1.87
3389748--3389931	60	3.1	59	88	5	246	25	28	9	36	1.87
3389748--3389931	61	3.1	57	86	6	224	25	28	9	36	1.87
3389868--3390004	33	4.3	34	70	19	116	23	26	10	40	1.86
3389808--3389992	93	2.0	94	86	7	261	24	27	9	38	1.86
3389697--3390040	154	2.2	152	84	4	433	23	27	10	37	1.88
3389902--3390064	60	2.7	60	80	7	161	23	25	9	41	1.84
3390182--3390465	33	8.7	33	89	3	403	29	32	16	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3390175--3390465	65	4.4	64	85	7	361	29	32	16	21	1.95
3390182--3390467	98	2.9	98	89	3	443	29	32	16	21	1.95
3390543--3390643	53	1.9	52	84	8	132	24	22	12	39	1.89
3390732--3391464	107	6.9	107	85	1	911	26	22	15	36	1.93
3391285--3391491	53	3.9	53	86	4	258	25	24	14	35	1.93
3395788--3395816	12	2.5	12	94	5	51	27	0	17	55	1.42
3397544--3397671	29	4.4	28	72	15	109	40	0	0	59	0.97
3398579--3398609	7	4.4	7	100	0	62	25	0	0	74	0.82
3404803--3404849	23	2.0	23	91	0	76	38	14	14	31	1.87
3410257--3410636	31	12.3	31	73	4	228	18	24	27	29	1.98
3410257--3410574	93	3.4	93	79	0	341	20	24	26	28	1.99
3410650--3411011	31	11.6	31	73	5	219	19	22	28	29	1.98
3411097--3411176	34	2.3	35	80	6	90	37	11	28	22	1.89
3411194--3411674	81	5.8	82	74	8	300	42	12	24	20	1.86
3411231--3411547	40	7.8	40	69	6	161	40	13	24	20	1.89
3411158--3411505	40	8.4	40	69	10	166	43	12	24	19	1.85
3411393--3411545	41	3.8	40	74	2	117	37	15	25	20	1.92
3411447--3411750	167	1.8	166	82	3	396	43	10	24	21	1.85
3411775--3412121	42	8.4	41	68	13	203	39	12	27	19	1.89
3411704--3412126	42	10.5	39	67	14	130	40	12	27	19	1.88
3411858--3412122	79	3.2	82	80	7	220	40	12	28	18	1.88
3412190--3412257	31	2.2	30	87	5	100	38	10	29	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3412206--3412322	29	3.9	30	80	4	130	37	12	24	24	1.91
3418058--3418488	79	5.5	79	82	1	479	33	13	24	29	1.93
3424416--3424469	20	2.7	20	82	2	63	35	20	11	33	1.88
3426729--3426891	81	2.0	82	91	1	265	27	11	19	41	1.86
3427844--3427869	12	2.2	12	100	0	52	34	7	23	34	1.83
3428845--3428926	41	2.0	41	90	4	130	60	6	29	3	1.37
3430874--3430925	16	3.2	16	83	0	59	36	11	13	38	1.81
3431609--3431667	20	2.8	20	84	5	73	38	13	10	37	1.79
3435779--3435846	33	2.1	33	86	8	95	33	14	14	36	1.87
3435909--3435984	20	3.8	20	81	6	82	27	13	21	38	1.90
3437699--3437744	20	2.3	20	96	0	83	26	6	30	36	1.82
3437914--3437958	20	2.1	21	84	8	56	6	28	46	17	1.73
3444682--3444706	13	1.9	13	100	0	50	36	16	16	32	1.90
3449345--3450074	363	2.0	363	98	0	1406	40	11	21	26	1.87
3450980--3451034	20	2.8	20	88	0	83	40	10	16	32	1.83
3451094--3451144	20	2.5	21	87	3	77	33	15	9	41	1.80
3452153--3452259	46	2.3	46	79	6	119	36	15	10	37	1.82
3455520--3455579	3	20.0	3	100	0	120	33	0	0	66	0.92
3458864--3459177	86	3.6	87	80	4	339	36	12	17	32	1.88
3463714--3464117	165	2.4	164	83	6	503	33	10	4	51	1.56
3466350--3466706	155	2.3	156	81	2	414	24	17	19	38	1.93
3469237--3469290	20	2.7	20	88	11	83	38	11	20	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3469237--3469310	21	3.6	21	83	9	71	39	13	17	29	1.88
3476695--3476750	18	3.1	18	80	10	69	64	1	0	33	1.04
3477538--3477592	14	3.9	14	73	15	51	49	1	1	47	1.23
3477530--3477594	29	2.2	30	83	8	89	43	1	1	53	1.19
3480380--3480542	68	2.4	68	93	2	283	36	12	17	33	1.88
3480896--3480948	22	2.3	24	90	6	83	62	1	3	32	1.24
3482251--3482495	121	2.0	121	96	0	454	32	15	15	35	1.90
3486487--3486519	9	3.7	9	95	0	57	24	21	3	51	1.62
3489650--3490004	166	2.1	165	82	3	426	33	9	14	41	1.79
3490163--3490463	156	1.9	156	81	9	364	26	14	19	38	1.91
3490438--3490688	134	1.9	135	84	4	346	28	12	17	41	1.86
3497931--3497956	13	2.0	13	100	0	52	30	15	15	38	1.88
3497995--3498071	21	3.7	21	76	10	86	28	15	10	45	1.79
3498016--3498088	20	3.6	20	74	3	83	31	17	12	38	1.87
3497995--3498088	41	2.3	41	96	0	170	29	17	11	41	1.84
3499099--3499254	61	2.6	62	89	2	228	40	14	21	23	1.90
3499208--3500128	52	17.3	52	72	11	440	36	14	24	24	1.93
3499775--3499923	60	2.5	60	84	1	199	36	12	25	26	1.91
3499960--3500150	104	1.8	104	79	4	224	35	15	24	24	1.94
3500277--3500359	32	2.6	32	84	3	105	20	20	30	28	1.98
3500374--3500438	34	2.0	34	82	11	82	26	15	33	24	1.95
3500386--3500461	33	2.3	35	84	11	97	23	17	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3500304--3500494	99	1.9	99	83	2	249	26	15	31	26	1.96
3502055--3502140	11	7.6	11	73	24	56	5	1	9	83	0.85
3502054--3502140	8	10.9	8	74	18	65	5	1	9	83	0.84
3502066--3502132	20	3.4	18	78	15	71	5	0	10	83	0.80
3502054--3502141	40	2.2	40	82	11	101	6	1	9	82	0.88
3502054--3502137	28	2.9	27	77	19	73	5	1	9	83	0.86
3522149--3522320	75	2.3	75	78	1	182	26	16	13	43	1.86
3522825--3522991	40	4.2	40	80	3	149	18	19	11	50	1.77
3522928--3523017	40	2.3	39	84	3	117	14	25	15	44	1.84
3525840--3526199	165	2.2	166	84	3	447	35	9	13	41	1.77

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