genome.fa.s7.2.7.7.80.10.50.1000.19.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  19  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)
3339142--3339427	79	3.6	78	90	2	437	25	27	16	30	1.96
3339380--3339455	28	2.8	28	89	2	118	21	31	19	27	1.97
3339301--3339501	106	1.9	106	88	2	305	26	27	14	30	1.95
3339439--3339600	50	3.3	51	77	12	169	32	26	9	31	1.89
3341728--3341779	13	4.2	12	79	15	54	19	0	3	76	0.93
3342087--3342142	27	2.1	27	93	0	94	39	17	7	35	1.78
3344783--3344830	26	1.9	24	83	8	60	47	0	0	52	1.00
3345984--3346024	7	6.1	7	80	11	50	56	0	0	43	0.99
3345976--3346031	24	2.3	25	82	14	64	58	0	1	39	1.08
3353065--3353120	26	2.2	26	93	6	96	39	26	3	30	1.73
3353360--3353682	153	2.1	154	80	3	373	37	20	17	24	1.94
3353966--3353994	10	2.7	11	94	5	51	34	0	0	65	0.93
3357038--3357191	52	2.9	53	80	6	161	34	10	25	29	1.89
3357221--3357291	26	2.7	25	82	10	88	21	19	35	23	1.96
3358875--3358927	19	2.7	20	91	2	81	39	13	15	32	1.85
3359013--3359077	19	3.7	19	73	23	70	38	15	12	33	1.85
3359005--3359075	32	2.2	32	94	0	124	36	16	12	33	1.87
3359032--3359056	13	1.9	13	100	0	50	32	16	16	36	1.90
3359773--3359854	26	2.9	29	66	23	84	19	20	30	29	1.97
3359529--3360414	170	5.1	171	86	5	1052	24	19	28	27	1.99
3359530--3360410	55	15.3	59	85	6	963	24	19	28	27	1.99
3361396--3361441	13	3.5	13	85	14	60	0	4	10	84	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3361405--3361444	11	3.5	11	89	6	53	0	2	12	85	0.71
3364577--3365116	165	3.3	165	79	6	448	49	9	8	32	1.66
3364849--3365147	156	1.9	156	85	5	408	49	10	8	32	1.67
3364684--3365233	156	3.5	156	77	10	399	50	8	9	32	1.64
3372535--3373346	165	4.9	166	84	6	984	28	10	9	51	1.68
3373742--3373782	17	2.5	17	84	4	57	78	0	21	0	0.76
3373746--3373781	11	3.4	11	96	3	65	77	0	22	0	0.76
3373742--3373782	11	3.7	11	83	9	57	78	0	21	0	0.76
3377941--3378270	52	6.3	51	68	18	178	30	12	26	29	1.93
3377877--3378270	212	1.9	211	86	5	564	31	13	26	28	1.94
3378150--3378270	51	2.3	53	82	4	147	31	12	25	30	1.92
3378210--3378393	79	2.3	79	96	0	332	31	15	26	26	1.96
3380740--3380765	13	2.0	13	100	0	52	38	15	15	30	1.88
3380719--3380785	33	2.0	33	88	0	98	43	16	14	25	1.86
3380805--3380872	19	3.9	18	73	23	74	38	14	10	36	1.81
3380808--3380870	32	2.0	32	93	0	108	36	15	11	36	1.84
3380928--3380984	21	2.7	21	97	0	105	36	19	10	33	1.86
3381718--3382354	55	11.3	55	86	6	734	22	20	29	27	1.99
3382219--3382304	27	3.1	27	62	15	68	23	18	30	27	1.98
3383338--3383397	17	3.6	16	78	10	57	1	8	5	85	0.81
3383322--3383398	11	6.6	11	71	19	50	1	11	3	83	0.85
3383321--3383398	34	2.3	35	82	8	97	1	11	3	83	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3389061--3389094	17	2.0	17	88	0	50	5	26	17	50	1.69
3395888--3395959	28	2.6	29	86	8	96	26	19	29	25	1.99
3395942--3396323	51	7.3	52	73	12	275	31	12	26	29	1.93
3396095--3396170	27	2.8	28	85	2	100	22	21	32	23	1.98
3395942--3396323	52	7.3	51	72	14	278	31	12	26	29	1.93
3395878--3396350	212	2.2	212	88	4	699	31	13	26	27	1.94
3398691--3398745	20	2.8	20	82	0	74	45	16	14	23	1.84
3398856--3398912	21	2.7	21	97	0	105	36	19	10	33	1.86
3403294--3403339	24	1.9	24	81	0	56	47	41	4	6	1.49
3410561--3411015	42	10.9	42	74	8	196	19	29	17	34	1.94
3410561--3411012	84	5.4	84	75	3	356	19	28	17	34	1.94
3410973--3411129	86	1.9	83	83	4	206	15	29	18	36	1.92
3411115--3411201	42	2.1	42	82	0	102	20	25	17	36	1.94
3413366--3414200	166	5.0	166	83	6	969	29	10	8	52	1.64
3414576--3414622	11	3.6	13	77	16	53	76	0	23	0	0.78
3418310--3418379	27	2.6	26	76	13	72	34	15	24	25	1.95
3420898--3420943	21	2.2	21	88	3	67	34	13	8	43	1.74
3420981--3421025	21	2.1	21	84	8	56	40	4	13	42	1.64
3425281--3425354	21	3.6	20	81	3	85	37	10	16	35	1.83
3425412--3425469	20	2.9	20	80	7	64	32	13	12	41	1.82
3426003--3426252	64	3.9	65	82	3	265	30	31	17	21	1.96
3426004--3426261	33	8.0	32	81	5	243	29	31	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3426001--3426244	97	2.5	96	82	3	303	30	31	16	21	1.95
3426325--3426524	52	3.8	52	76	2	229	22	25	16	36	1.94
3426315--3426514	106	1.9	107	85	1	276	23	24	16	36	1.94
3433854--3433977	29	4.2	29	84	8	144	22	23	14	39	1.91
3433928--3434195	27	9.2	27	67	16	97	23	27	12	36	1.90
3433867--3434318	61	7.5	59	74	12	271	23	25	12	38	1.90
3434017--3434397	92	4.2	93	77	9	345	24	26	11	38	1.89
3434111--3434379	27	9.1	27	71	16	121	22	25	12	39	1.90
3434287--3434435	60	2.5	61	82	7	178	23	27	12	36	1.90
3434498--3435004	31	16.0	31	78	5	471	31	29	16	21	1.95
3434504--3435034	64	8.4	63	78	7	466	32	29	16	20	1.95
3435034--3435299	52	4.9	53	73	8	180	24	25	13	35	1.93
3435093--3435287	106	1.8	105	81	3	239	23	24	14	37	1.92
3435948--3435998	20	2.5	20	87	3	57	35	5	21	37	1.78
3435987--3436204	111	2.0	112	89	2	341	39	13	15	32	1.86
3442688--3442734	21	2.2	21	85	7	60	46	23	23	6	1.75
3447754--3447792	1	39.0	1	84	0	51	92	2	5	0	0.46
3447755--3447789	18	1.9	18	94	0	61	91	2	5	0	0.50
3447754--3447790	19	1.9	19	89	10	58	91	2	5	0	0.48
3447754--3447793	21	2.0	21	90	5	64	90	2	7	0	0.55
3451519--3451640	52	2.3	52	95	0	217	28	18	18	35	1.94
3452573--3453070	49	10.5	49	81	10	567	31	17	25	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3452621--3453088	92	5.1	91	86	9	485	31	17	25	24	1.97
3452626--3453088	141	3.3	141	88	6	626	31	17	25	25	1.97
3453083--3453318	33	7.2	33	84	8	304	19	17	35	27	1.95
3453321--3453684	34	10.8	34	84	9	435	33	11	34	20	1.89
3453459--3453718	96	2.7	96	77	12	244	32	12	33	21	1.91
3453417--3453777	164	2.2	162	84	8	462	32	13	33	20	1.91
3453664--3453811	62	2.4	63	91	3	237	27	16	31	24	1.97
3453658--3453819	32	5.2	30	86	9	209	29	15	32	22	1.95
3455112--3455155	18	2.4	20	75	21	51	9	9	13	68	1.40
3458245--3458275	16	2.0	15	93	6	53	19	22	12	45	1.84
3458327--3458366	13	3.1	13	92	0	62	32	20	12	35	1.90
3458752--3458818	37	1.9	35	88	11	102	32	11	25	29	1.92
3463141--3463260	52	2.3	52	97	0	222	29	17	18	35	1.94
3463141--3463280	52	2.7	51	90	4	210	30	17	18	33	1.94
3463269--3463293	13	1.9	13	100	0	50	36	16	16	32	1.90
3465706--3465748	21	2.0	21	95	0	77	27	13	34	23	1.93
3465955--3465982	13	2.2	13	100	0	56	32	14	14	39	1.86
3465936--3466000	32	2.0	33	93	3	114	36	12	12	38	1.80
3466043--3466067	13	1.9	13	100	0	50	32	16	16	36	1.90
3466078--3466204	52	2.4	52	96	0	236	36	17	17	29	1.93
3475813--3475885	20	3.6	20	81	3	101	35	13	19	31	1.91
3475831--3475906	21	3.7	21	80	3	100	42	11	17	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3475813--3475906	41	2.3	41	98	0	179	39	12	18	29	1.88
3475945--3475970	13	2.0	13	100	0	52	38	15	15	30	1.88
3480032--3480062	15	2.1	15	93	0	53	48	16	22	12	1.80
3482077--3482154	20	3.6	21	73	15	70	25	12	16	44	1.83
3482141--3482179	13	3.0	13	96	0	69	30	17	15	35	1.91
3484622--3484694	20	3.6	20	81	3	101	35	13	19	31	1.91
3484640--3484715	21	3.7	21	80	3	100	42	11	17	28	1.84
3484622--3484715	41	2.3	41	98	0	179	39	12	18	29	1.88
3484754--3484779	13	2.0	13	100	0	52	38	15	15	30	1.88
3488687--3488713	13	2.1	13	100	0	54	40	14	14	29	1.86

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