genome.fa.s7.2.7.7.80.10.50.1000.21.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   28   29   30   31   32   
          33   34   35   36   37   

This is table  21  of  37  ( 4421 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)
3660833--3660900	33	2.1	32	91	2	109	32	13	19	35	1.90
3660932--3660986	20	2.7	21	85	2	76	27	16	14	41	1.87
3670939--3671029	20	4.6	19	80	5	92	35	14	18	31	1.91
3677421--3677480	20	2.9	21	85	12	79	36	13	11	38	1.81
3682274--3682325	20	2.7	19	85	5	68	34	11	15	38	1.83
3692617--3692751	49	2.8	49	93	0	216	32	20	28	19	1.96
3692905--3693520	28	21.9	28	84	5	749	23	17	29	29	1.97
3694720--3694786	34	2.0	33	88	2	98	26	16	11	44	1.82
3695299--3695327	10	3.0	10	95	5	51	79	20	0	0	0.74
3697766--3697804	20	2.0	20	100	0	78	23	25	15	35	1.94
3706554--3706608	20	2.8	20	81	13	60	34	18	9	38	1.82
3707162--3707200	12	3.5	11	83	16	53	71	0	28	0	0.86
3707162--3707199	13	3.0	13	88	3	51	71	0	28	0	0.87
3707974--3708409	161	2.7	161	83	4	477	32	9	13	44	1.76
3715543--3715924	78	4.9	78	81	6	380	29	29	14	27	1.95
3715542--3715925	156	2.5	154	83	6	427	29	28	14	27	1.95
3716375--3716442	19	3.9	19	78	21	85	35	11	14	38	1.83
3716396--3716420	13	1.9	13	100	0	50	36	16	16	32	1.90
3716377--3716439	32	2.0	32	96	0	117	34	12	15	36	1.86
3716462--3716528	33	2.0	33	82	0	80	28	14	14	41	1.86
3718905--3719124	52	4.3	51	79	5	208	30	24	11	33	1.91
3719114--3719185	28	2.6	28	84	0	81	22	34	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3719139--3719360	78	2.8	79	81	6	272	25	28	15	30	1.96
3732147--3733623	55	26.3	55	87	5	1909	28	29	20	21	1.98
3732147--3733574	674	2.1	675	98	0	2725	28	29	20	21	1.98
3734276--3734343	19	3.9	19	78	21	85	35	11	14	38	1.83
3734297--3734321	13	1.9	13	100	0	50	36	16	16	32	1.90
3734278--3734340	32	2.0	32	96	0	117	34	12	15	36	1.86
3734383--3734408	13	2.0	13	100	0	52	30	15	15	38	1.88
3734363--3734429	33	2.0	33	88	0	98	25	14	16	43	1.86
3736810--3736997	52	3.6	51	83	2	223	28	25	12	33	1.92
3737021--3737089	28	2.5	27	83	9	77	26	36	14	23	1.93
3737044--3737254	78	2.7	80	81	5	243	26	28	14	29	1.95
3738581--3739356	43	18.2	43	75	9	367	21	28	15	34	1.93
3738811--3739356	129	4.2	130	75	6	407	21	28	14	35	1.93
3739327--3739480	42	3.7	41	77	6	150	20	30	12	35	1.91
3739379--3739480	41	2.5	42	85	1	134	22	32	13	31	1.93
3739327--3739480	83	1.9	83	83	2	202	20	30	12	35	1.91
3740628--3740681	22	2.5	21	77	11	56	33	5	12	48	1.65
3742074--3742151	21	3.7	21	86	3	104	38	12	15	33	1.85
3742262--3742287	13	2.0	13	100	0	52	30	15	15	38	1.88
3742242--3742308	34	2.0	33	91	2	107	25	16	13	44	1.84
3745196--3745316	52	2.3	52	87	2	181	31	15	19	33	1.93
3745305--3745329	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3745376--3745438	33	1.9	33	86	0	90	42	14	9	33	1.78
3746305--3746418	52	2.1	52	83	4	138	38	14	24	22	1.91
3746372--3746865	43	11.0	43	78	14	482	30	18	25	25	1.98
3746332--3746781	92	4.9	92	96	0	792	31	17	25	25	1.97
3749927--3750075	52	2.9	51	89	4	235	30	17	18	32	1.94
3750064--3750088	13	1.9	13	100	0	50	36	16	16	32	1.90
3750129--3750195	33	2.0	33	88	0	98	40	14	11	32	1.83
3750151--3750175	13	1.9	13	100	0	50	32	16	16	36	1.90
3750911--3751094	52	3.7	50	76	13	211	32	20	25	22	1.98
3750909--3751093	95	1.9	95	92	2	309	31	20	25	23	1.98
3751116--3751387	56	4.7	58	84	8	315	23	15	27	33	1.95
3751116--3751668	89	6.2	89	76	12	415	25	15	29	29	1.96
3751361--3751451	35	2.6	34	79	5	94	37	12	29	20	1.89
3751162--3751661	59	8.3	59	77	10	406	25	16	29	28	1.97
3751162--3751666	30	16.8	30	77	9	385	25	16	29	28	1.97
3753107--3753170	19	3.4	19	87	6	78	0	1	12	85	0.66
3753107--3753170	10	6.6	10	76	7	69	0	1	12	85	0.66
3767014--3767039	13	2.0	13	100	0	52	38	15	15	30	1.88
3767080--3767146	33	2.0	33	88	0	98	40	14	11	32	1.83
3767102--3767126	13	1.9	13	100	0	50	32	16	16	36	1.90
3767438--3767542	51	2.1	51	98	0	201	29	20	24	25	1.99
3767488--3767575	43	2.0	44	86	2	124	28	19	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767570--3767691	33	3.7	32	92	4	190	21	18	33	26	1.96
3767633--3767866	63	3.7	61	81	12	215	30	14	33	21	1.93
3767730--3768157	34	13.5	34	75	16	304	29	13	35	21	1.92
3767709--3768075	90	3.9	91	80	15	314	28	13	36	21	1.91
3767657--3768072	124	3.3	123	79	13	449	29	13	35	21	1.92
3767944--3768157	31	6.5	34	81	8	171	28	14	35	20	1.93
3767854--3768172	63	5.0	63	77	12	217	29	14	34	21	1.93
3776349--3776469	52	2.3	52	92	0	206	28	17	17	36	1.93
3776349--3776489	52	2.7	51	86	4	194	30	17	17	34	1.93
3776478--3776502	13	1.9	13	100	0	50	36	16	16	32	1.90
3776567--3776591	13	1.9	13	100	0	50	32	16	16	36	1.90
3776549--3776611	33	1.9	33	86	0	90	41	14	11	33	1.81
3779050--3779222	51	3.4	50	82	12	178	29	24	12	33	1.92
3779155--3779519	187	2.0	187	86	3	511	26	27	14	31	1.95
3779312--3779491	79	2.3	79	81	1	200	24	29	16	30	1.96
3780975--3781008	3	11.3	3	87	0	50	32	0	38	29	1.58
3785200--3785331	51	2.7	47	80	6	140	43	8	16	31	1.77
3785297--3785371	20	3.8	20	78	7	89	37	10	16	36	1.83
3786142--3786391	48	5.3	48	85	3	278	37	17	25	20	1.94
3786142--3786357	96	2.3	94	87	4	308	37	17	25	19	1.93
3786505--3786917	28	14.5	28	86	5	499	22	17	30	30	1.96
3788169--3788214	8	5.9	8	84	5	67	0	0	15	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3788169--3788212	15	2.9	15	93	3	70	0	0	15	84	0.63
3788170--3788214	23	2.0	23	90	0	72	0	0	15	84	0.62
3788172--3788240	27	2.5	28	80	15	74	1	2	14	81	0.88
3788176--3788239	23	2.8	21	83	11	65	1	3	15	79	0.93
3800739--3801247	260	2.0	259	95	0	912	33	17	21	28	1.96
3802470--3802547	20	3.9	20	85	6	104	41	11	15	32	1.83
3802373--3802507	51	2.7	51	80	5	141	41	11	17	30	1.84
3807169--3807305	52	2.6	52	87	2	195	32	16	17	33	1.92
3807294--3807318	13	1.9	13	100	0	50	36	16	16	32	1.90
3807359--3807425	33	2.0	33	85	0	89	40	13	11	34	1.81
3807381--3807405	13	1.9	13	100	0	50	32	16	16	36	1.90
3809540--3809570	13	2.4	13	94	0	53	35	16	12	35	1.87
3815745--3815773	13	2.2	13	100	0	58	27	13	17	41	1.87
3817640--3817704	19	3.2	20	85	6	78	38	0	30	30	1.58
3817649--3817716	19	3.5	19	86	9	84	36	0	38	25	1.56
3818233--3818259	13	2.1	13	100	0	54	29	14	14	40	1.86
3818214--3818278	33	2.0	32	87	3	94	27	16	13	41	1.87
3818244--3818300	19	2.8	20	89	5	89	29	15	14	40	1.87
3820861--3820921	19	3.2	19	83	2	86	39	14	16	29	1.88
3824225--3824572	171	2.0	175	86	8	494	27	17	10	44	1.80
3825743--3826325	165	3.5	164	79	8	512	30	9	7	52	1.62
3826731--3826759	11	2.6	11	100	0	58	20	27	0	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3827351--3827398	20	2.4	20	89	6	71	39	14	14	31	1.86
3833116--3833156	22	2.0	21	85	9	57	46	7	4	41	1.53
3833228--3833266	20	1.9	20	89	5	60	38	23	15	23	1.92
3833256--3833306	19	2.6	20	84	3	68	27	13	19	39	1.90
3833368--3833439	24	3.0	24	85	0	99	23	26	9	40	1.85
3834600--3834635	7	5.1	7	86	0	54	25	0	0	75	0.81
3837879--3838079	72	2.8	73	87	5	264	33	1	7	56	1.38
3837879--3838083	73	2.8	73	86	6	274	34	1	7	56	1.40
3837901--3838083	72	2.5	74	86	7	268	33	2	7	56	1.38
3846664--3846741	38	2.0	38	85	7	104	38	16	14	30	1.88

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   28   29   30   31   32   
          33   34   35   36   37