genome.fa.s4079.2.7.7.80.10.50.1000.9.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: scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  4163231

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

This is table  9  of  11  ( 1218 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)
3374081--3374192	42	2.7	41	84	6	145	49	16	18	15	1.80
3374252--3374310	21	2.8	21	81	0	73	52	15	16	15	1.75
3374130--3374365	118	2.0	119	93	0	402	45	14	18	21	1.85
3377862--3377900	12	3.2	12	86	13	53	10	12	2	74	1.17
3377908--3377948	13	3.2	13	83	13	57	24	0	0	75	0.80
3377898--3377948	26	1.9	26	84	4	66	23	3	1	70	1.14
3378754--3378804	20	2.5	21	84	12	70	45	9	17	27	1.80
3381481--3381509	12	2.3	13	94	5	51	20	6	6	65	1.40
3402385--3402459	38	2.0	37	82	10	89	32	8	17	42	1.78
3403223--3403288	26	2.5	27	80	5	98	21	13	34	30	1.92
3404318--3404392	41	1.9	40	84	10	102	18	14	1	65	1.34
3406081--3406136	28	2.0	28	85	0	76	30	23	10	35	1.89
3406866--3406933	27	2.5	26	79	9	64	32	27	8	30	1.87
3412106--3412138	15	2.3	15	94	5	59	57	0	0	42	0.98
3412531--3412674	67	2.2	66	80	9	152	24	7	11	56	1.61
3420608--3420647	19	2.1	19	86	9	55	52	17	0	30	1.45
3420764--3420813	21	2.4	21	83	3	57	42	20	0	38	1.52
3430886--3430929	13	3.4	13	83	0	61	11	34	34	20	1.88
3430983--3431010	13	2.2	13	100	0	56	7	17	39	35	1.78
3434836--3434880	19	2.4	18	82	10	54	62	2	2	33	1.20
3435704--3435750	14	3.3	14	72	16	51	46	12	0	40	1.42
3439057--3439096	20	2.0	20	90	0	62	27	10	12	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3439206--3439233	14	2.0	14	100	0	56	42	0	0	57	0.99
3439838--3439870	15	2.1	16	94	5	59	60	6	18	15	1.54
3440459--3440490	2	16.0	2	100	0	64	50	50	0	0	1.00
3440840--3440889	23	2.2	23	82	7	57	38	0	18	44	1.50
3442744--3442810	25	2.6	25	86	11	82	40	8	25	25	1.84
3444149--3444177	2	14.5	2	100	0	58	48	0	0	51	1.00
3448883--3448982	19	5.2	19	65	11	51	60	3	1	36	1.19
3448866--3448920	19	2.8	20	81	10	60	63	5	0	30	1.17
3449050--3449192	43	3.3	43	75	14	130	30	2	5	62	1.30
3449112--3449156	24	1.9	23	86	4	63	31	0	6	62	1.21
3449137--3449213	41	1.9	41	84	7	104	32	2	3	61	1.28
3449990--3450052	11	5.8	11	77	9	58	61	4	11	22	1.47
3451912--3451953	20	2.0	21	86	4	59	33	16	28	21	1.95
3453704--3453812	23	4.9	23	76	8	127	21	27	6	44	1.76
3453691--3453774	42	2.0	42	95	0	150	23	22	9	44	1.82
3453794--3453956	81	2.0	81	100	0	326	28	20	8	42	1.81
3467357--3467406	25	2.0	25	84	11	66	36	22	0	42	1.54
3472679--3472732	21	2.8	18	76	17	54	11	9	1	77	1.06
3472690--3472742	27	1.9	27	85	11	72	15	11	1	71	1.22
3474386--3474428	23	1.9	23	90	4	70	74	0	18	6	1.04
3474484--3474633	68	2.2	69	87	2	212	55	6	5	32	1.49
3475124--3475152	3	9.7	3	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3476093--3476132	20	2.0	20	100	0	80	50	10	10	30	1.69
3480085--3480112	3	9.3	3	100	0	56	35	0	32	32	1.58
3481222--3481248	5	5.4	5	100	0	54	81	0	18	0	0.69
3482181--3482271	48	1.9	46	93	4	155	56	19	13	10	1.67
3488098--3488130	17	2.1	17	88	11	52	39	0	18	42	1.50
3489817--3489884	27	2.4	27	81	16	77	54	1	1	42	1.18
3496637--3496706	8	9.4	8	75	16	53	45	1	1	51	1.18
3496727--3496784	25	2.4	23	80	8	62	74	5	20	0	1.01
3497667--3497806	40	3.5	40	70	8	117	29	15	23	31	1.95
3499460--3499514	29	1.9	28	85	10	76	36	7	1	54	1.39
3499460--3499514	28	1.9	29	85	3	76	36	7	1	54	1.39
3499503--3499562	27	2.2	28	82	8	70	31	3	1	63	1.20
3500172--3500220	25	1.9	26	83	4	64	40	2	10	46	1.49
3500756--3500784	14	2.1	14	100	0	58	31	13	6	48	1.69
3501404--3501650	90	2.7	90	80	4	275	33	22	14	29	1.94
3516821--3516890	8	9.4	8	75	16	53	45	1	1	51	1.18
3516911--3516968	25	2.4	23	80	8	62	74	5	20	0	1.01
3517851--3517990	40	3.5	40	70	8	117	29	15	23	31	1.95
3524174--3524457	142	2.0	142	95	0	505	23	12	27	36	1.91
3525779--3526068	27	10.7	27	81	2	266	38	17	18	25	1.93
3525861--3526111	81	3.1	80	81	9	228	37	16	19	25	1.93
3525779--3526107	27	12.2	27	79	6	194	38	17	19	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3526091--3526143	26	2.0	27	85	3	72	24	18	22	33	1.97
3526130--3526214	24	3.5	24	90	0	107	23	4	22	49	1.68
3526303--3526360	26	2.2	26	84	0	80	18	20	25	34	1.96
3526314--3526368	26	2.1	26	89	0	83	14	21	30	32	1.93
3526358--3526465	32	3.4	32	81	1	128	17	22	23	37	1.94
3530122--3530309	27	7.0	27	73	3	119	37	18	19	24	1.94
3530559--3530683	32	3.9	32	83	0	160	20	20	20	37	1.94
3539522--3539621	27	3.7	26	69	12	76	23	23	15	39	1.92
3539694--3539862	45	3.8	44	80	5	178	21	23	14	40	1.90
3541323--3541367	22	2.0	22	87	8	65	31	2	26	40	1.68
3553932--3554142	32	6.6	32	78	6	178	19	24	21	34	1.96
3553925--3554148	64	3.5	64	80	3	236	20	25	20	34	1.96
3564693--3564984	50	5.7	50	81	4	266	28	21	27	22	1.99
3564693--3564933	50	4.7	50	85	3	284	26	21	29	22	1.99
3566459--3566625	27	6.2	27	73	6	124	41	19	17	20	1.91
3566459--3566612	81	1.9	81	81	5	186	41	20	16	21	1.90
3566462--3566629	54	3.1	54	80	0	185	41	20	17	20	1.91
3566646--3566743	24	4.0	25	85	7	96	23	7	22	46	1.76
3566648--3566744	48	2.0	48	82	7	117	23	7	21	47	1.75
3566675--3566757	24	3.5	24	86	0	112	25	7	19	48	1.74
3569760--3569802	17	2.4	18	80	11	52	13	18	44	23	1.86
3570132--3570282	27	5.6	27	76	3	160	37	19	19	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3570132--3570285	81	1.9	81	82	2	193	37	20	20	22	1.95
3570345--3570429	24	3.5	24	86	0	107	21	9	22	47	1.79
3579023--3579048	7	3.7	7	100	0	52	11	11	0	76	1.01
3584917--3585024	43	2.6	42	81	11	107	17	18	16	47	1.83
3588046--3588186	43	3.2	43	70	11	133	21	27	25	25	1.99
3588067--3588205	44	3.2	44	68	11	131	22	23	28	25	1.99
3587994--3588244	88	2.9	88	92	0	412	23	27	24	24	2.00
3588020--3588231	44	4.8	45	67	11	125	23	27	24	25	2.00
3588264--3588602	44	7.7	44	84	0	426	20	27	20	30	1.98
3588265--3588606	88	3.9	88	89	0	522	20	27	20	31	1.98
3588730--3588803	22	3.2	22	63	29	55	32	9	24	33	1.87
3588727--3588821	47	2.0	47	100	0	190	31	10	21	36	1.87
3603599--3603695	43	2.3	43	83	1	115	18	21	15	44	1.87
3607229--3607264	15	2.4	15	95	0	63	25	8	19	47	1.77
3609017--3609057	17	2.3	18	87	4	57	26	21	0	51	1.48
3611986--3612023	18	2.1	18	100	0	76	63	5	0	31	1.17
3634557--3634733	88	2.0	89	98	1	347	27	10	21	40	1.85
3635536--3635598	26	2.4	26	81	5	74	30	17	11	41	1.84
3639479--3639638	40	4.0	40	100	0	320	27	32	15	25	1.95
3642377--3642522	43	3.4	42	78	5	159	28	16	23	30	1.96
3657840--3657896	18	3.2	18	92	0	96	22	29	22	24	1.99
3663014--3663051	19	2.0	19	94	0	67	60	0	10	28	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3663286--3663384	3	33.7	3	75	8	87	65	2	3	29	1.18
3663342--3663391	12	4.2	12	89	5	66	62	0	2	36	1.07
3665484--3665525	20	2.0	21	86	13	61	30	2	2	64	1.19
3668907--3669006	20	5.1	19	70	11	76	40	18	29	13	1.87
3672215--3672274	23	2.6	23	75	2	57	46	16	16	20	1.84
3672226--3672270	23	2.0	23	86	4	65	44	17	20	17	1.87
3676243--3676274	17	1.9	17	93	6	57	15	6	3	75	1.14
3681793--3683827	858	2.4	858	91	1	3242	33	17	19	29	1.94
3683836--3683867	15	2.1	15	100	0	64	59	15	18	6	1.57
3684362--3684408	9	5.0	9	94	5	76	57	21	0	21	1.41

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