genome.fa.s154.2.7.7.80.10.50.1000.5.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: Scaffold154
Parameters: 2 7 7 80 10 50 1000
Length:  1945843

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1433 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)
554601--554652	19	2.5	22	78	18	74	36	1	40	21	1.64
554611--554664	19	2.9	19	86	5	76	31	1	35	31	1.69
555209--555235	13	2.1	13	100	0	54	29	14	14	40	1.86
555305--555361	22	2.7	21	86	7	89	45	10	15	28	1.79
556131--556175	16	2.8	17	83	10	58	46	0	0	53	1.00
556468--556514	15	3.1	15	79	11	51	53	0	0	46	1.00
556451--556517	34	1.9	34	82	14	84	55	0	0	44	0.99
556688--556713	13	2.0	13	100	0	52	61	0	0	38	0.96
556714--556765	20	2.7	20	81	3	61	50	0	0	50	1.00
564138--564197	27	2.3	26	81	18	88	38	5	8	48	1.55
564979--565031	27	2.0	28	81	7	65	54	0	13	32	1.39
565060--565145	37	2.4	35	78	20	88	58	3	0	38	1.15
565309--565395	30	2.9	29	81	6	93	39	2	12	45	1.55
566804--566845	16	2.8	15	82	17	52	52	0	0	47	1.00
566806--566853	22	2.1	23	84	7	62	54	0	0	45	0.99
569548--569632	42	2.0	44	82	13	106	51	0	0	48	1.00
569582--569623	19	2.1	19	86	13	57	54	0	0	45	0.99
569617--569679	16	3.8	17	81	10	76	44	0	0	55	0.99
569691--569728	16	2.3	17	86	4	51	47	0	2	50	1.15
573578--573603	2	13.0	2	100	0	52	50	0	0	50	1.00
573771--573814	22	2.0	22	82	8	54	38	2	2	56	1.24
578266--578328	31	2.1	30	84	3	81	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578248--578347	29	3.4	29	75	8	85	54	0	2	44	1.11
581418--581493	37	2.0	38	82	12	95	52	0	0	47	1.00
581464--581518	18	3.1	18	79	10	67	54	0	1	43	1.10
581439--581518	36	2.2	37	84	6	101	52	0	1	46	1.08
581828--581886	24	2.5	24	71	17	59	33	0	0	66	0.92
582034--582083	2	25.0	2	100	0	100	50	0	0	50	1.00
586554--586630	20	3.8	20	84	6	102	41	12	15	29	1.85
588560--588585	13	2.0	13	100	0	52	38	15	15	30	1.88
590814--590858	20	2.1	21	84	8	56	55	4	20	20	1.60
594757--594795	13	3.0	13	100	0	78	30	15	15	38	1.88
597326--597351	13	2.0	13	100	0	52	38	15	15	30	1.88
598585--598721	58	2.4	58	82	4	161	45	16	10	26	1.80
603931--603976	20	2.3	20	88	7	67	36	19	10	32	1.87
604005--604060	19	2.9	19	91	2	85	35	17	16	30	1.92
604045--604071	13	2.1	13	100	0	54	40	14	14	29	1.86
604026--604088	32	1.9	33	87	9	94	41	14	15	28	1.87
605263--605312	20	2.4	21	80	12	59	30	12	10	48	1.73
615885--615937	20	2.7	20	88	5	72	32	18	13	35	1.90
615967--616039	20	3.7	19	87	7	85	38	17	15	28	1.90
617211--617264	20	2.6	21	80	11	67	29	12	9	48	1.73
621507--621579	2	38.5	2	71	24	52	42	4	1	52	1.29
621507--621580	7	10.9	7	73	13	57	41	4	1	52	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621525--621579	12	4.6	11	78	22	58	43	3	1	50	1.30
621509--621573	19	3.5	19	87	6	89	41	4	1	52	1.31
622465--622527	19	3.6	19	68	24	66	38	15	15	30	1.89
622468--622560	32	2.9	32	93	1	150	39	16	13	30	1.87
623264--623316	19	2.8	19	91	0	88	13	39	0	47	1.43
626437--626918	109	4.5	108	76	7	376	31	16	17	34	1.92
627791--627870	25	3.0	25	85	8	90	17	15	28	38	1.90
627813--627878	25	2.6	26	85	4	89	15	15	31	37	1.88
627752--627967	28	7.9	28	80	7	106	20	17	26	34	1.95
627895--628432	28	19.6	28	73	9	236	23	17	28	30	1.97
627895--628432	56	9.8	56	69	9	277	23	17	28	30	1.97
627901--628370	84	5.7	84	71	10	335	22	17	28	31	1.97
628025--628067	22	2.0	22	90	0	68	23	18	27	30	1.98
628168--628452	108	2.6	107	74	10	249	23	18	28	30	1.97
639379--639422	21	2.1	21	83	8	54	25	31	4	38	1.76
641441--641472	8	4.0	8	100	0	64	62	25	0	12	1.30
643325--643355	15	2.1	15	93	0	53	12	22	16	48	1.80
645158--645202	21	2.1	21	84	8	56	22	20	4	53	1.63
645798--645829	8	4.0	8	100	0	64	62	25	0	12	1.30
647682--647712	15	2.1	15	93	0	53	12	22	16	48	1.80
649515--649559	21	2.1	21	84	8	56	22	20	4	53	1.63
650155--650186	8	4.0	8	100	0	64	62	25	0	12	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652039--652069	15	2.1	15	93	0	53	12	22	16	48	1.80
653871--653915	21	2.1	21	84	8	56	22	20	4	53	1.63
654509--654540	8	4.0	8	100	0	64	62	25	0	12	1.30
656393--656423	15	2.1	15	93	0	53	12	22	16	48	1.80
658225--658269	21	2.1	21	84	8	56	22	20	4	53	1.63
658865--658896	8	4.0	8	100	0	64	62	25	0	12	1.30
660749--660779	15	2.1	15	93	0	53	12	22	16	48	1.80
662582--662626	21	2.1	21	84	8	56	22	20	4	53	1.63
665479--665858	107	3.5	108	78	5	365	31	16	17	35	1.92
672976--673002	10	2.7	10	100	0	54	7	11	18	62	1.50
675175--675314	54	2.6	55	90	3	239	47	11	19	21	1.80
676280--676355	21	3.7	21	75	7	66	44	14	13	27	1.82
676975--677019	23	2.0	22	83	16	56	33	37	4	24	1.76
678864--679287	78	5.4	79	80	5	466	28	19	12	40	1.87
678893--679282	157	2.5	156	83	4	489	28	18	11	40	1.86
679217--679315	51	1.9	51	83	0	126	32	14	10	43	1.78
679539--679586	22	2.2	22	81	7	53	18	4	12	64	1.43
685386--686328	62	15.3	62	84	3	1141	24	21	19	34	1.97
685387--686328	185	5.1	184	84	3	1126	24	21	19	33	1.97
685386--686327	246	3.8	246	84	5	1141	24	21	19	34	1.97
686293--686366	38	1.9	38	94	0	130	27	21	16	35	1.94
693116--693530	79	5.3	78	77	5	372	27	19	11	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693116--693537	156	2.7	155	78	4	454	27	19	12	40	1.87
696094--696592	165	3.0	165	85	4	652	27	10	7	54	1.60
700655--701457	28	27.9	28	84	4	942	23	17	30	29	1.97
700650--701454	114	7.0	113	85	7	939	23	17	29	28	1.97
702669--702724	26	2.2	24	84	6	67	5	1	8	83	0.85
702680--702724	19	2.5	18	82	10	56	6	0	6	86	0.70
702680--702734	13	4.2	13	82	17	62	7	0	7	85	0.74
702680--702734	12	4.3	12	78	19	58	7	0	7	85	0.74
714815--714845	16	1.9	16	100	0	62	35	6	19	38	1.77
717206--717231	13	2.0	13	100	0	52	30	15	15	38	1.88
718158--718318	39	3.9	39	70	13	115	25	20	26	27	1.99
718197--718606	48	8.9	46	74	14	328	31	18	24	26	1.97
718110--718460	87	4.0	87	85	4	409	29	18	24	26	1.98
718284--718607	142	2.3	139	86	5	463	31	17	25	25	1.97
718284--718613	91	3.6	92	83	7	334	31	17	25	25	1.97
718670--718729	27	2.2	27	88	5	86	36	13	30	20	1.90
718704--720062	33	42.6	33	76	12	859	34	13	30	21	1.92
718891--718948	27	2.2	26	81	6	71	34	10	31	24	1.89
718597--719393	162	5.0	160	84	8	967	35	12	31	20	1.90
719113--719305	60	3.1	60	80	10	217	36	13	30	19	1.91
719313--719366	27	2.0	27	88	3	81	25	16	33	24	1.96
719369--720062	62	10.9	62	77	12	488	33	14	29	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719334--720070	95	7.7	95	75	13	541	33	13	29	22	1.93
719597--719649	27	2.0	27	92	0	88	32	13	30	24	1.93
719617--719776	32	4.8	33	79	11	150	36	14	28	20	1.92
718597--719743	127	9.1	124	73	15	662	34	13	31	21	1.91
719334--719932	317	1.9	316	87	4	895	33	14	30	22	1.93
719374--720062	317	2.2	317	84	5	890	33	14	29	23	1.94
721091--721115	13	1.9	13	100	0	50	0	0	16	84	0.63
721356--721398	12	3.3	14	81	15	56	0	0	18	81	0.69
721356--721407	17	2.9	17	78	13	52	0	0	19	80	0.71
721359--721407	8	6.6	8	81	13	61	0	0	20	79	0.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12