genome.fa.s42.2.7.7.80.10.50.1000.3.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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   

This is table  3  of  24  ( 2843 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)
344178--344415	61	3.8	59	78	11	203	38	10	28	23	1.88
344323--344484	34	5.3	30	74	12	109	35	11	29	24	1.90
344436--344570	29	4.4	29	76	10	101	36	12	25	25	1.91
344474--344626	62	2.5	62	83	5	170	37	14	25	22	1.92
344468--344626	30	5.3	30	80	6	151	37	14	25	23	1.92
346024--346069	22	2.1	22	84	8	58	4	8	6	80	1.01
357917--357967	20	2.5	21	93	3	86	31	17	11	39	1.86
358402--358568	29	5.8	29	82	1	185	29	31	11	26	1.92
358772--359238	52	9.0	52	82	2	526	25	23	15	35	1.94
358770--359280	156	3.3	156	82	2	589	25	23	16	35	1.95
359959--360009	20	2.5	21	87	3	68	35	11	19	33	1.88
361132--361260	65	2.0	65	96	0	240	25	20	14	39	1.91
367473--367562	46	2.0	46	86	4	130	45	5	2	46	1.38
370818--370842	3	8.3	3	100	0	50	64	0	0	36	0.94
371153--371204	20	2.5	21	84	3	70	40	15	17	26	1.89
371265--371290	13	2.0	13	100	0	52	30	15	15	38	1.88
371245--371312	33	2.1	32	91	2	109	35	19	13	32	1.90
372578--372607	15	1.9	16	93	6	53	80	6	13	0	0.91
376124--376171	17	2.8	17	90	3	69	33	2	16	47	1.58
376735--376764	13	2.3	13	94	0	51	36	16	13	33	1.88
376720--376784	33	2.0	33	90	6	105	33	13	20	32	1.91
376810--376847	20	2.0	20	94	5	69	36	10	15	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380772--380865	16	5.9	16	76	0	80	18	11	25	44	1.83
380773--380865	48	1.9	48	84	0	123	17	11	25	45	1.82
380853--380885	17	2.0	17	88	5	50	9	6	33	51	1.58
382826--382866	17	2.4	17	87	0	64	58	9	12	19	1.61
382957--383046	40	2.3	40	84	1	119	44	13	23	18	1.85
383835--384011	76	2.3	75	81	4	205	50	12	11	24	1.75
387146--387195	27	1.9	25	84	8	64	34	28	8	30	1.86
394913--394953	21	2.0	21	90	0	64	29	4	29	36	1.78
399174--399240	33	2.1	32	83	8	82	65	1	0	32	1.02
402763--402821	29	2.0	29	81	12	68	77	0	16	5	0.93
403758--403888	58	2.3	58	81	5	140	26	12	13	47	1.78
403799--403921	58	2.1	58	85	5	160	24	14	14	46	1.82
403799--403948	58	2.6	58	80	9	148	25	14	12	48	1.78
405573--405600	9	3.1	9	100	0	56	10	10	32	46	1.73
407233--407703	241	2.0	241	96	0	879	38	8	14	38	1.76
412938--413000	22	2.9	22	75	15	69	41	0	0	58	0.98
412889--413011	37	3.2	38	74	11	99	47	0	0	52	1.00
412928--412995	20	3.5	20	71	18	63	42	0	0	57	0.98
416455--416509	16	3.4	16	82	5	67	25	10	16	47	1.79
416465--416526	16	3.9	16	82	4	72	25	8	16	50	1.72
416434--416526	32	2.9	32	78	9	91	27	8	12	50	1.70
416572--416613	5	8.4	5	85	15	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416570--416611	22	2.0	22	90	9	70	57	0	0	42	0.99
416937--416983	2	23.5	2	91	0	76	48	0	51	0	1.00
418348--418393	22	2.0	23	84	12	60	23	0	6	69	1.11
420914--420952	20	2.0	20	100	0	78	20	25	12	41	1.88
421232--421270	20	2.0	20	84	0	51	41	10	5	43	1.61
428360--428417	29	2.0	29	100	0	116	31	20	10	37	1.86
429194--429243	26	2.0	25	88	4	73	24	18	36	22	1.95
434329--434381	20	2.6	21	87	3	72	32	16	9	41	1.81
435052--435124	37	1.9	38	91	2	121	43	10	23	21	1.84
435206--435444	63	3.8	62	83	3	291	32	16	21	29	1.95
435416--435643	65	3.5	63	77	11	176	27	17	25	30	1.97
435422--436279	33	26.6	33	80	5	733	23	16	29	30	1.96
435646--435862	31	6.9	29	73	15	105	20	17	32	29	1.95
435484--436279	65	12.3	63	77	8	558	23	16	29	30	1.96
440260--440380	32	3.8	32	77	9	120	20	15	33	30	1.94
440262--440513	65	3.9	65	83	5	305	21	17	31	30	1.96
440182--440550	33	11.4	33	78	8	314	23	15	30	30	1.96
440182--440548	97	3.8	98	78	8	347	23	15	30	30	1.96
440304--440544	130	1.9	130	86	2	351	22	17	30	29	1.96
440551--440825	32	8.8	32	73	12	180	34	13	27	24	1.92
440575--440707	30	4.5	29	73	17	112	34	12	29	23	1.92
440551--440785	89	2.6	89	80	8	253	34	12	28	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440581--440695	59	2.0	57	83	6	142	31	12	31	25	1.92
440795--440955	60	2.7	59	87	4	216	32	18	27	21	1.96
440793--440955	90	1.8	89	86	4	238	33	17	27	21	1.96
440653--440955	30	9.8	30	73	14	160	33	14	27	24	1.94
445409--445460	20	2.7	20	84	3	70	36	17	7	38	1.78
446050--446326	37	7.9	37	79	6	203	15	22	30	31	1.95
446127--446225	31	3.2	31	83	0	117	10	22	37	30	1.87
446301--446481	31	5.8	31	75	8	129	16	23	30	29	1.96
446053--446412	169	2.1	167	83	2	452	15	23	31	30	1.95
446307--446479	93	1.9	93	82	4	224	15	21	31	31	1.95
446626--446686	31	2.0	31	86	0	86	19	27	26	26	1.99
446706--447132	31	13.1	31	69	11	180	16	23	29	29	1.97
446674--446774	37	2.7	38	90	1	150	15	19	30	33	1.94
446710--447036	129	2.5	129	86	3	435	17	24	29	28	1.97
447001--447073	37	2.0	37	88	0	110	17	23	26	32	1.97
446836--447132	165	1.8	164	85	0	423	17	22	30	29	1.97
447394--447493	34	2.9	34	83	1	137	38	15	25	22	1.92
455937--455975	2	19.5	2	100	0	78	48	0	0	51	1.00
459909--460033	52	2.4	52	94	0	214	28	17	17	36	1.93
459909--460053	52	2.8	51	88	4	202	29	17	17	35	1.93
460042--460066	13	1.9	13	100	0	50	36	16	16	32	1.90
460132--460156	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460110--460176	33	2.0	33	88	0	98	40	13	11	34	1.81
460971--461097	67	1.9	68	85	1	175	37	12	25	24	1.90
461044--461438	98	4.0	98	82	8	471	31	17	25	25	1.97
461110--461438	49	6.8	49	85	5	438	31	18	25	25	1.98
461608--461734	67	1.9	68	85	1	175	37	12	25	24	1.90
461302--461877	225	2.6	219	72	11	512	34	15	25	24	1.95
461747--462256	49	10.7	49	82	9	637	30	18	25	25	1.98
460759--462078	637	2.1	637	97	0	2514	33	15	26	24	1.95
462051--462118	22	3.1	22	62	26	54	30	20	25	23	1.98
461795--462261	92	5.0	92	88	6	624	29	18	26	25	1.98
462256--462376	33	3.7	33	93	4	210	19	19	34	27	1.95
462249--462376	65	2.0	63	93	6	222	17	18	35	28	1.94
462357--462768	68	6.5	67	79	13	292	30	14	33	20	1.93
462483--462765	34	8.8	32	78	12	244	31	13	33	21	1.92
462394--462561	89	1.9	89	85	4	232	25	16	38	20	1.93
462647--462792	61	2.4	61	96	0	265	27	15	35	21	1.93
471062--471186	52	2.4	52	91	0	205	28	18	16	36	1.93
471062--471206	52	2.8	51	86	4	193	29	17	17	35	1.93
471195--471219	13	1.9	13	100	0	50	36	16	16	32	1.90
471285--471309	13	1.9	13	100	0	50	32	16	16	36	1.90
471263--471329	33	2.0	33	88	0	98	40	13	11	34	1.81
472781--472895	53	2.2	53	98	0	221	26	9	31	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472979--473185	79	2.6	79	82	1	236	30	16	29	23	1.96
473137--473208	28	2.6	27	89	8	101	25	19	33	22	1.97
473217--473319	53	1.9	54	92	2	172	36	9	23	30	1.87
475677--475702	13	2.0	13	100	0	52	38	15	15	30	1.88
475656--475722	33	2.0	33	88	0	98	43	16	14	25	1.86
475742--475809	19	3.9	18	76	23	83	38	14	11	35	1.83
475764--475788	13	1.9	13	100	0	50	32	16	16	36	1.90
475745--475807	32	2.0	32	96	0	117	36	15	12	34	1.86
475865--475963	21	4.7	21	98	0	189	37	21	10	31	1.86
477260--477313	20	2.7	20	88	2	81	35	18	9	37	1.83

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