genome.fa.s128.2.7.7.80.10.50.1000.3.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: Scaffold128
Parameters: 2 7 7 80 10 50 1000
Length:  1835488

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

This is table  3  of  11  ( 1217 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)
470921--470979	21	2.8	21	89	5	84	64	0	22	13	1.28
470921--470976	26	2.2	26	86	0	76	66	0	21	12	1.25
474332--474384	10	4.9	10	76	17	52	26	22	9	41	1.84
475154--475207	19	2.7	19	82	5	63	33	18	14	33	1.92
479483--479621	51	2.7	51	87	1	179	40	12	15	30	1.85
486302--486916	28	21.7	28	80	8	586	23	17	30	28	1.97
487831--487896	1	66.0	1	75	0	60	1	1	9	87	0.66
487831--487897	9	6.9	9	80	15	80	1	1	10	86	0.70
487831--487896	10	6.6	10	82	6	89	1	1	9	87	0.66
501895--501969	20	3.8	20	74	0	78	36	12	18	33	1.88
502471--502544	27	2.7	27	87	2	103	28	33	12	25	1.92
502511--502795	28	10.2	29	82	4	302	28	29	16	25	1.97
502522--502813	113	2.6	112	81	4	322	28	27	16	27	1.97
502521--502785	141	1.9	140	85	0	368	27	28	17	26	1.98
502918--503133	48	4.5	48	87	1	292	20	27	16	35	1.94
506615--506735	62	2.0	62	96	0	224	31	21	12	34	1.90
507616--507800	83	2.2	82	77	6	183	43	12	24	19	1.86
507671--507834	83	2.0	83	81	2	195	42	12	23	20	1.87
508170--508511	44	7.8	43	73	10	212	40	15	22	21	1.90
508162--508511	132	2.6	131	84	6	465	40	15	22	21	1.91
508894--508921	13	2.2	13	100	0	56	28	14	17	39	1.89
522302--522382	1	81.0	1	72	0	63	86	11	2	0	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522303--522420	27	4.4	25	79	17	114	83	13	2	0	0.81
522300--522421	15	7.5	15	73	15	93	82	13	2	0	0.81
522302--522421	42	2.8	43	80	15	135	83	13	2	0	0.80
522300--522411	4	29.0	4	77	18	71	83	13	2	0	0.81
522300--522420	11	10.6	11	72	21	81	82	14	2	0	0.81
524346--524380	15	2.3	15	95	0	61	42	0	28	28	1.56
535074--535198	63	2.0	63	100	0	250	28	16	14	40	1.87
536063--536105	3	14.3	3	95	0	77	65	2	0	32	1.06
537279--537381	32	3.4	30	77	19	106	55	0	1	42	1.11
537287--537380	16	6.1	15	74	22	70	55	0	2	42	1.12
537334--537416	18	4.9	17	72	20	59	57	1	0	40	1.06
537344--537442	29	3.5	30	76	16	86	59	1	0	39	1.04
537400--537442	23	2.0	21	81	9	50	62	0	0	37	0.95
537399--537452	16	3.0	18	84	10	58	61	1	0	37	1.07
538389--538438	18	2.8	17	87	6	64	48	4	2	46	1.32
538427--538451	13	1.9	13	100	0	50	40	4	0	56	1.18
538968--539032	25	2.7	25	80	17	75	49	6	0	44	1.27
542325--542374	19	2.6	19	96	0	91	38	18	12	32	1.87
542363--542387	13	1.9	13	100	0	50	32	16	16	36	1.90
543388--543420	17	2.1	16	88	11	50	60	6	0	33	1.21
545390--545436	23	2.1	23	88	11	71	53	0	0	46	1.00
545974--546018	22	2.0	22	83	8	56	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546954--546984	15	2.0	16	93	6	55	45	3	0	51	1.17
549345--549412	33	2.1	32	86	2	91	33	14	16	35	1.89
549445--549495	20	2.5	20	87	6	68	31	17	13	37	1.89
549483--549508	13	2.0	13	100	0	52	38	15	15	30	1.88
550063--550102	21	1.9	21	84	0	53	30	30	2	37	1.71
550142--550189	19	2.5	19	96	0	87	25	31	0	43	1.55
551821--551861	22	2.0	21	86	13	59	39	4	21	34	1.75
552206--552231	8	3.2	8	100	0	52	61	23	0	15	1.33
556556--556589	3	11.3	3	87	0	50	26	35	0	38	1.57
556556--556589	9	3.8	9	96	0	59	26	35	0	38	1.57
558177--558201	13	1.9	13	100	0	50	36	16	16	32	1.90
558154--558221	33	2.1	33	88	2	102	32	14	17	35	1.91
558254--558304	20	2.5	20	90	0	75	31	15	13	39	1.87
558292--558316	13	1.9	13	100	0	50	36	16	16	32	1.90
559594--559633	21	1.9	21	84	0	53	22	7	12	57	1.60
560380--561161	156	5.0	157	77	6	701	25	16	19	38	1.92
560391--561161	314	2.5	312	83	3	940	25	16	20	37	1.93
560375--561252	156	5.6	156	75	6	668	25	16	19	38	1.92
565229--565254	13	2.0	13	100	0	52	30	15	15	38	1.88
565314--565385	20	3.6	20	80	0	99	31	16	13	37	1.88
565293--565385	40	2.3	41	96	1	170	30	17	12	39	1.87
565293--565405	40	2.8	40	89	6	149	29	15	14	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565935--566030	48	2.0	48	100	0	192	25	29	8	37	1.85
567868--567906	13	3.0	13	96	0	69	35	15	17	30	1.91
569985--570015	15	2.1	15	93	0	53	12	22	16	48	1.80
574081--574106	13	2.0	13	100	0	52	30	15	15	38	1.88
574145--574221	21	3.8	19	73	13	73	28	15	11	44	1.82
574166--574238	20	3.6	20	77	3	92	31	16	13	38	1.88
574145--574238	41	2.3	41	96	0	170	29	17	12	40	1.86
583067--583124	19	3.0	18	80	12	62	41	18	13	25	1.88
585322--585366	21	2.1	21	84	8	56	53	4	20	22	1.63
587169--587199	15	2.1	15	93	0	53	48	16	22	12	1.80
589278--589303	13	2.0	13	100	0	52	30	15	15	38	1.88
589424--589469	21	2.2	20	81	11	58	32	19	4	43	1.71
591848--591873	13	2.0	13	100	0	52	38	15	15	30	1.88
593232--593268	3	12.3	3	88	0	56	29	29	0	40	1.57
594331--594398	19	3.9	19	78	21	85	35	11	14	38	1.83
594352--594376	13	1.9	13	100	0	50	36	16	16	32	1.90
594333--594395	32	2.0	32	96	0	117	34	12	15	36	1.86
594438--594463	13	2.0	13	100	0	52	30	15	15	38	1.88
594418--594484	33	2.0	33	88	0	98	25	14	16	43	1.86
596737--596766	13	2.3	13	100	0	60	36	13	16	33	1.88
596811--596884	20	3.8	19	87	8	96	37	16	16	29	1.90
597210--597309	28	3.4	28	80	10	119	22	24	17	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597207--597331	60	2.1	60	85	5	166	20	25	16	36	1.94
597320--597643	27	10.5	31	71	20	209	22	29	12	35	1.91
597340--597579	61	4.0	60	77	14	230	24	31	12	32	1.92
597455--597624	59	2.8	59	84	8	198	24	31	11	33	1.90
597662--597740	33	2.5	31	82	8	104	27	35	16	20	1.94
597673--597736	33	1.9	33	93	0	110	29	34	17	18	1.94
597752--597843	39	2.4	39	86	0	130	31	28	16	23	1.96
597821--598526	52	14.8	51	74	11	422	26	25	16	31	1.97
598122--598316	39	4.7	39	80	12	201	28	27	19	24	1.99
598021--598316	127	2.3	130	86	4	391	27	26	18	27	1.98
598155--598367	88	2.4	90	85	2	286	28	26	17	27	1.98
597966--598367	218	1.8	220	89	2	628	28	26	17	28	1.97
597738--598423	373	1.9	365	83	6	873	27	26	16	29	1.97
597750--598521	373	2.1	365	80	6	854	26	25	16	30	1.97
604217--604275	20	3.0	20	85	11	77	79	5	13	1	0.97
604219--604275	19	2.9	18	85	15	69	80	3	14	1	0.92
604209--604281	10	7.1	10	76	4	65	80	4	12	2	0.95
608091--608157	37	1.9	35	88	11	102	29	25	11	32	1.92
608627--608665	13	3.0	13	88	0	60	35	17	17	28	1.94
608737--608792	21	2.6	22	88	5	96	35	10	26	26	1.89
608780--608810	10	3.1	10	90	0	53	41	6	29	22	1.78
608834--608970	53	2.6	53	91	1	229	27	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608958--609011	20	2.7	20	80	8	65	29	14	16	38	1.89
609050--609090	21	2.0	21	85	9	57	39	9	12	39	1.76
610733--610757	13	1.9	13	100	0	50	32	16	16	36	1.90
612964--613834	433	2.0	433	99	0	1715	23	22	21	32	1.98
614081--614147	37	1.9	35	88	11	102	28	25	13	32	1.93
614617--614655	13	3.0	13	88	0	60	35	17	17	28	1.94
614719--614759	21	2.0	21	95	0	73	36	9	26	26	1.88
614755--614785	10	3.1	10	95	0	53	41	3	29	25	1.71
614809--614945	53	2.6	53	91	1	229	27	18	18	36	1.94
614933--614986	20	2.7	20	80	8	65	29	14	16	38	1.89

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