genome.fa.s407.2.7.7.80.10.50.1000.23.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  23  of  28  ( 3302 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)
3424553--3426169	476	3.4	475	85	3	2153	31	17	14	36	1.90
3426917--3447827	476	44.3	476	81	5	21931	30	18	13	36	1.90
3441269--3447812	475	13.8	474	82	4	6756	30	18	13	36	1.90
3447116--3448369	158	7.9	158	73	10	676	32	19	12	36	1.89
3447713--3450420	476	5.7	475	82	4	3008	31	18	14	36	1.90
3450420--3452789	475	5.0	474	83	4	2707	31	18	13	36	1.90
3452664--3452925	134	1.9	136	83	1	339	30	19	15	34	1.93
3453274--3453536	135	1.9	136	85	2	359	30	17	14	37	1.90
3453895--3454149	135	1.9	136	90	0	404	30	19	14	35	1.92
3452189--3455232	610	5.0	611	96	0	5603	30	19	13	36	1.90
3454632--3463459	476	18.6	475	83	3	9969	31	19	13	36	1.90
3454690--3462854	159	51.5	155	64	14	879	30	18	13	36	1.91
3454632--3463459	953	9.3	952	84	3	10318	31	19	13	36	1.90
3441269--3447827	951	6.9	947	81	5	6574	30	18	13	36	1.90
3463469--3468064	159	29.1	158	66	11	1210	30	18	13	36	1.90
3463469--3472184	476	18.1	475	73	11	5663	31	18	14	36	1.90
3468405--3472083	159	23.3	157	66	13	1142	31	18	14	35	1.90
3474970--3475088	42	2.8	42	90	0	184	42	2	45	9	1.49
3479567--3497554	476	37.5	476	79	6	15480	30	18	14	36	1.90
3481275--3486654	159	33.9	155	65	13	939	31	18	13	36	1.90
3487781--3497554	475	20.6	475	85	2	12649	30	18	14	36	1.91
3487786--3496893	159	57.5	157	65	15	867	30	18	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3497608--3506025	158	53.2	157	66	14	2334	30	19	14	36	1.91
3497563--3506402	475	18.6	474	87	3	11965	30	19	14	36	1.91
3497563--3531393	949	35.9	948	82	7	38454	30	19	14	36	1.91
3506413--3508983	158	16.3	156	67	12	818	30	19	13	36	1.91
3506400--3509202	475	5.9	475	90	2	4005	30	19	13	36	1.91
3509213--3511789	158	16.3	156	67	12	830	30	19	13	36	1.91
3509200--3511809	475	5.5	475	91	2	3952	30	19	13	36	1.91
3512716--3515292	158	16.3	156	67	12	846	30	19	13	36	1.91
3512703--3515509	475	5.9	475	90	2	4059	30	19	14	36	1.91
3515520--3518096	158	16.3	156	67	12	837	30	19	13	36	1.91
3515507--3518313	475	5.9	475	90	2	4050	30	19	14	36	1.91
3518324--3520900	158	16.3	156	67	12	837	30	19	13	36	1.91
3518311--3521117	475	5.9	475	90	2	4050	30	19	14	36	1.91
3521128--3523229	158	13.3	156	67	12	809	30	19	13	36	1.90
3521115--3523446	475	4.9	475	91	2	3608	30	19	13	36	1.91
3523457--3525558	158	13.3	157	67	12	652	31	19	13	36	1.90
3523444--3525779	475	4.9	475	89	2	3262	30	19	13	36	1.91
3525790--3527891	158	13.3	157	67	12	661	30	19	13	36	1.90
3525777--3528112	475	4.9	475	89	2	3271	30	19	13	36	1.91
3528123--3529729	158	10.2	156	67	13	629	30	19	13	35	1.91
3528110--3535338	474	15.0	474	79	9	6881	30	19	14	35	1.91
3531249--3531546	153	2.0	153	85	3	404	31	17	16	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531401--3535338	471	8.3	471	92	2	6533	30	19	14	35	1.91
3531404--3535338	945	4.2	945	99	0	7678	30	19	14	35	1.91
3540316--3540425	42	2.6	42	92	0	184	9	48	2	40	1.49
3542045--3543735	158	10.8	155	67	13	647	30	19	13	35	1.91
3542045--3543878	475	3.9	474	91	1	2874	30	19	13	35	1.91
3543876--3551602	471	16.3	471	91	2	11731	30	19	14	35	1.91
3543876--3551594	945	8.2	944	93	1	11783	30	19	14	35	1.91
3543877--3551319	158	47.2	156	65	13	2184	30	19	14	35	1.91
3556575--3556693	42	2.8	42	90	0	184	8	45	3	42	1.51
3556599--3556684	24	3.8	23	71	20	74	10	44	3	41	1.56
3556590--3556660	18	3.6	18	69	20	52	9	43	2	43	1.52
3558457--3559357	475	1.9	477	85	3	1262	29	18	15	36	1.91
3559015--3559703	347	2.0	344	87	2	979	30	17	15	36	1.91
3558536--3560177	822	2.0	821	87	2	2337	29	18	15	36	1.91
3559357--3562306	475	6.3	476	81	5	3356	30	18	14	36	1.91
3561979--3562576	312	1.9	316	84	3	796	28	17	15	38	1.91
3561503--3563092	788	2.0	789	85	3	2175	30	18	14	36	1.91
3562578--3568475	159	37.2	158	65	12	857	30	18	14	36	1.91
3562296--3568934	475	14.0	475	86	2	8608	30	18	14	36	1.91
3569626--3571101	474	3.1	472	87	1	2060	30	18	15	36	1.92
3569644--3570811	159	7.4	160	66	13	450	30	18	14	36	1.91
3577060--3577178	42	2.8	42	92	0	193	8	46	2	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3577093--3577168	12	6.9	11	75	15	52	9	48	2	39	1.49
3577084--3577169	24	3.8	24	72	17	85	10	45	2	41	1.51
3577075--3577145	18	3.6	18	69	20	52	9	43	2	43	1.52
3582947--3583065	42	2.8	42	92	0	193	8	46	2	42	1.47
3582980--3583055	12	6.9	11	75	15	52	9	48	2	39	1.49
3582971--3583056	24	3.8	24	72	17	85	10	45	2	41	1.51
3582962--3583032	18	3.6	18	69	20	52	9	43	2	43	1.52
3585177--3585294	12	10.9	11	75	16	72	39	2	47	10	1.51
3585197--3585299	9	12.1	9	69	12	65	41	2	44	10	1.54
3585200--3585312	18	5.6	18	68	22	64	42	2	44	10	1.53
3585167--3585327	42	3.8	42	94	0	268	42	2	45	9	1.49
3591117--3591756	312	2.0	316	83	5	796	28	16	16	38	1.91
3590771--3592422	785	2.1	781	80	6	1780	29	18	14	37	1.91
3591477--3593864	944	2.5	945	85	4	3195	30	18	14	36	1.91
3591434--3593869	473	5.1	475	84	3	2956	30	18	14	36	1.91
3594247--3594271	13	1.9	13	100	0	50	32	16	16	36	1.90
3597446--3598855	475	3.0	472	81	4	1599	30	19	14	35	1.91
3598852--3625889	476	56.3	476	76	8	15324	30	19	14	36	1.91
3598852--3603784	951	5.2	945	83	2	5843	30	18	14	36	1.91
3605129--3609596	474	9.4	475	84	2	5348	30	19	14	35	1.91
3617266--3617562	165	1.8	165	89	0	468	29	22	15	33	1.94
3614622--3625889	159	71.1	155	65	15	1464	30	18	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617434--3625889	475	17.8	473	86	3	11206	30	19	14	36	1.91
3617434--3625889	951	8.9	947	89	2	11566	30	19	14	36	1.91
3626740--3627569	158	5.3	156	67	11	399	30	18	14	36	1.90
3626585--3627644	472	2.2	474	94	1	1883	30	18	13	37	1.90
3629222--3634160	159	31.2	158	65	13	1325	30	19	14	35	1.91
3629115--3636197	475	15.0	472	85	3	8845	30	19	14	36	1.91
3629115--3637254	951	8.6	952	85	4	10246	30	18	14	36	1.91
3636207--3637253	475	2.2	474	86	2	1424	30	18	13	36	1.90
3643034--3644151	32	36.2	32	90	2	1427	18	19	31	30	1.96
3644134--3644788	27	24.0	27	90	2	1006	28	14	34	22	1.94
3644134--3644788	191	3.4	191	93	1	1100	28	14	34	22	1.94
3656471--3656589	42	2.8	42	92	0	193	8	46	2	42	1.47
3656504--3656579	12	6.9	11	75	15	52	9	48	2	39	1.49
3656495--3656580	24	3.8	24	72	17	85	10	45	2	41	1.51
3656486--3656556	18	3.6	18	69	20	52	9	43	2	43	1.52
3658223--3660586	476	5.0	475	84	1	2765	37	13	18	30	1.90
3661751--3665384	159	23.0	158	65	13	676	36	13	18	31	1.89
3661703--3666677	475	10.6	473	81	5	5181	37	13	18	31	1.89
3666977--3667105	20	6.8	19	77	15	99	28	15	13	42	1.84
3669403--3669577	80	2.2	78	79	9	192	26	24	14	33	1.94
3669459--3669799	108	3.2	108	86	4	447	25	25	16	32	1.96
3669643--3669698	28	2.0	28	86	6	78	19	26	19	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3669675--3669886	79	2.7	79	84	7	270	25	25	15	33	1.95
3669675--3669922	79	3.1	77	79	7	259	27	25	14	32	1.95
3684526--3684553	13	2.2	13	100	0	56	28	14	17	39	1.89
3686642--3686711	33	2.1	33	100	0	140	25	25	8	40	1.84
3688594--3688685	1	92.0	1	73	0	76	86	8	4	0	0.68
3688594--3688685	16	5.3	17	83	8	98	86	8	4	0	0.68
3688595--3688682	25	3.3	26	84	9	106	86	9	4	0	0.70
3688594--3688672	36	2.2	37	88	6	117	87	10	2	0	0.64
3688597--3688685	45	2.0	46	86	4	128	86	8	4	0	0.69
3688594--3688661	19	3.7	18	86	9	102	88	10	1	0	0.59

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