genome.fa.s35.2.7.7.80.10.50.1000.22.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   

This is table  22  of  30  ( 3549 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)
3477359--3477388	13	2.3	13	94	0	51	66	0	3	30	1.07
3479142--3479243	43	2.3	44	79	1	116	39	18	20	21	1.93
3479279--3479466	45	4.4	44	72	20	155	44	14	22	18	1.86
3479272--3479423	80	1.9	81	90	4	245	44	13	22	19	1.85
3479280--3479506	125	1.8	125	83	5	307	43	13	23	19	1.87
3479480--3479574	36	2.7	35	88	9	140	45	7	23	24	1.78
3479555--3479665	46	2.4	46	86	5	154	42	9	25	22	1.84
3483185--3483212	13	2.2	13	100	0	56	39	17	14	28	1.89
3483167--3483232	33	2.0	33	88	5	98	40	13	15	30	1.85
3484343--3484383	22	1.9	22	85	5	57	17	19	12	51	1.76
3494522--3494572	20	2.5	20	83	3	66	41	5	17	35	1.74
3494522--3494595	21	3.6	21	74	3	60	40	8	14	36	1.76
3494954--3495027	20	3.7	20	81	3	103	35	13	20	31	1.91
3494972--3495047	21	3.7	21	82	3	109	40	11	18	28	1.86
3494954--3495047	41	2.3	41	100	0	188	38	12	19	29	1.89
3495086--3495111	13	2.0	13	100	0	52	38	15	15	30	1.88
3497325--3497369	21	2.1	21	84	8	56	53	4	20	22	1.63
3501217--3501296	20	3.8	20	75	15	79	26	15	15	43	1.85
3501282--3501320	13	3.0	13	96	0	69	30	17	15	35	1.91
3503770--3503842	20	3.6	20	81	3	101	35	13	19	31	1.91
3503788--3503863	21	3.7	21	80	3	100	42	11	17	28	1.84
3503770--3503863	41	2.3	41	98	0	179	39	12	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3503902--3503927	13	2.0	13	100	0	52	38	15	15	30	1.88
3506330--3506627	79	3.8	77	79	12	336	32	14	25	27	1.94
3506570--3506692	50	2.5	50	85	2	158	39	13	21	26	1.90
3513729--3513766	19	2.1	18	85	9	51	57	0	0	42	0.98
3519638--3519721	29	2.9	29	69	24	68	48	13	13	25	1.77
3519621--3519977	58	6.2	58	71	10	241	47	13	12	26	1.79
3519653--3519946	116	2.5	114	82	8	362	47	14	12	25	1.79
3520059--3520417	58	6.3	58	78	6	311	49	14	10	26	1.75
3520057--3520132	30	2.6	28	76	13	82	52	14	9	23	1.70
3520023--3520244	116	1.9	115	81	2	266	50	12	11	25	1.74
3520160--3520249	28	3.1	29	67	7	85	51	14	8	25	1.71
3519816--3520227	218	1.9	217	83	6	530	48	12	12	26	1.77
3520156--3520294	57	2.4	58	95	2	253	51	14	7	25	1.69
3520174--3520263	29	3.1	29	64	20	80	52	12	7	27	1.66
3520176--3520264	28	3.1	28	66	15	83	51	12	7	28	1.67
3520189--3520278	29	3.1	29	66	20	80	51	14	5	28	1.65
3520156--3520427	115	2.4	116	79	7	281	48	13	10	26	1.75
3520484--3520642	58	2.8	57	76	8	128	47	10	13	28	1.75
3522658--3522761	34	3.0	34	92	1	163	17	17	6	58	1.59
3525618--3525669	27	1.9	27	88	0	77	26	19	32	21	1.97
3527200--3527225	13	2.0	13	100	0	52	30	15	15	38	1.88
3529577--3529623	21	2.3	21	76	23	55	42	4	19	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529744--3529782	13	3.0	13	96	0	69	35	15	17	30	1.91
3529768--3529846	20	3.7	20	78	15	77	44	15	15	25	1.85
3531861--3531891	15	2.1	15	93	0	53	12	22	16	48	1.80
3533685--3533729	22	2.1	21	84	8	56	22	17	4	55	1.60
3535921--3535946	13	2.0	13	100	0	52	30	15	15	38	1.88
3538268--3538293	13	2.0	13	100	0	52	30	15	15	38	1.88
3540645--3540691	21	2.3	21	76	23	55	42	4	19	34	1.70
3540812--3540850	13	3.0	13	96	0	69	35	15	17	30	1.91
3542928--3542958	15	2.1	15	93	0	53	12	22	16	48	1.80
3544752--3544796	21	2.1	21	84	8	56	22	20	4	53	1.63
3547015--3547040	13	2.0	13	100	0	52	30	15	15	38	1.88
3547796--3547930	61	2.2	61	88	2	200	32	14	18	34	1.91
3548489--3548553	31	2.1	31	91	0	103	13	21	30	33	1.92
3549582--3549926	105	3.3	103	70	12	270	31	11	26	29	1.92
3549587--3549757	51	3.3	51	79	4	198	32	11	26	28	1.92
3549740--3549806	28	2.4	27	87	7	91	22	17	35	23	1.95
3549740--3549815	27	2.8	28	86	6	93	21	19	34	25	1.96
3552283--3552308	13	2.0	13	100	0	52	38	15	15	30	1.88
3552262--3552328	33	2.0	33	88	0	98	43	16	14	25	1.86
3552348--3552415	19	3.9	18	76	23	83	38	14	11	35	1.83
3552370--3552394	13	1.9	13	100	0	50	32	16	16	36	1.90
3552351--3552413	32	2.0	32	96	0	117	36	15	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3552471--3552527	21	2.7	21	97	0	105	36	19	10	33	1.86
3552531--3552562	1	32.0	1	93	0	55	3	0	0	96	0.20
3552526--3552561	16	2.2	17	95	5	65	8	0	0	91	0.41
3553158--3554055	55	16.3	55	92	3	1381	20	20	30	29	1.98
3555039--3555086	1	48.0	1	78	0	51	0	4	6	89	0.58
3555039--3555086	15	3.4	14	83	11	62	0	4	6	89	0.58
3567541--3567711	51	3.3	51	79	4	198	32	11	26	29	1.92
3567694--3567769	27	2.8	28	88	6	102	21	21	34	23	1.97
3570236--3570261	13	2.0	13	100	0	52	38	15	15	30	1.88
3570215--3570281	33	2.0	33	88	0	98	43	16	14	25	1.86
3570301--3570368	19	3.9	18	76	23	83	38	14	11	35	1.83
3570323--3570347	13	1.9	13	100	0	50	32	16	16	36	1.90
3570304--3570366	32	2.0	32	96	0	117	36	15	12	34	1.86
3570424--3570480	21	2.7	21	97	0	105	36	19	10	33	1.86
3570484--3570529	1	46.0	1	93	0	65	4	2	0	93	0.41
3570482--3570529	25	1.9	25	100	0	96	8	2	0	89	0.56
3570485--3570532	24	2.0	24	100	0	96	8	4	0	87	0.66
3571178--3571203	13	2.0	13	100	0	52	38	15	15	30	1.88
3574771--3574895	52	2.4	52	93	0	205	28	16	18	37	1.92
3574771--3574915	52	2.8	52	85	4	186	29	15	18	35	1.92
3574904--3574928	13	1.9	13	100	0	50	36	16	16	32	1.90
3574993--3575017	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)
3574971--3575037	33	2.0	33	85	0	89	41	13	10	34	1.79
3578254--3578278	13	1.9	13	100	0	50	36	16	16	32	1.90
3578234--3578298	33	2.0	33	84	0	85	36	12	15	35	1.85
3586165--3586252	30	3.0	30	90	3	144	40	7	22	28	1.82
3586642--3586692	22	2.4	21	83	9	59	35	7	13	43	1.73
3586831--3586887	19	3.0	20	84	7	82	33	15	17	33	1.92
3590502--3590622	52	2.3	52	95	0	215	28	19	18	34	1.95
3590502--3590642	52	2.7	51	89	4	203	29	18	18	33	1.95
3590631--3590655	13	1.9	13	100	0	50	36	16	16	32	1.90
3590720--3590744	13	1.9	13	100	0	50	32	16	16	36	1.90
3590698--3590764	33	2.0	33	88	0	98	40	13	11	34	1.81
3595143--3595209	33	2.0	33	88	0	98	34	11	13	40	1.81
3595163--3595187	13	1.9	13	100	0	50	36	16	16	32	1.90
3595252--3595276	13	1.9	13	100	0	50	32	16	16	36	1.90
3595285--3595405	52	2.3	52	97	0	224	34	18	18	28	1.94
3598537--3598563	13	2.1	13	100	0	54	29	14	14	40	1.86
3599406--3599817	167	2.5	165	82	9	480	51	10	9	28	1.68
3600879--3600972	42	2.2	43	77	3	102	36	15	29	18	1.92
3601112--3601671	265	2.1	266	83	3	716	39	15	23	21	1.91
3601114--3601959	177	4.8	176	75	5	692	40	15	23	20	1.91
3601376--3601946	222	2.6	218	85	6	738	39	15	24	19	1.91
3601112--3601961	44	19.2	44	71	10	440	40	15	23	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601114--3601961	88	9.6	88	77	6	569	40	15	23	20	1.91
3601938--3602053	48	2.4	48	80	0	133	40	18	23	18	1.91
3603856--3603885	16	1.9	16	93	6	53	0	10	3	86	0.67
3604178--3604231	27	2.0	27	82	10	65	3	14	3	77	1.04
3607909--3608145	20	10.8	20	69	18	105	30	14	12	42	1.83
3607898--3608034	71	1.9	71	92	0	229	30	15	12	41	1.84
3607909--3608195	91	3.2	91	86	0	376	29	14	12	43	1.82
3609906--3610052	73	2.0	73	100	0	294	21	25	19	32	1.97
3620415--3620439	13	1.9	13	100	0	50	36	16	16	32	1.90
3620395--3620461	33	2.0	33	88	0	98	32	11	14	40	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   25   26   27   28   29   30