genome.fa.s42.2.7.7.80.10.50.1000.23.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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   

This is table  23  of  24  ( 2843 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)
3452450--3452474	13	1.9	13	100	0	50	32	16	16	36	1.90
3452427--3452493	32	2.1	32	94	0	116	38	17	10	32	1.84
3453384--3453528	52	2.8	54	91	4	208	34	19	24	22	1.96
3453436--3454352	92	10.0	91	89	4	1280	30	18	25	24	1.98
3453482--3454334	135	6.2	135	86	7	1102	30	18	25	24	1.98
3453986--3454053	21	3.2	21	61	19	50	26	19	29	25	1.98
3454121--3454188	21	3.2	21	62	25	52	27	19	27	25	1.98
3454340--3454475	32	4.3	32	86	3	204	16	16	36	30	1.91
3454485--3454936	100	4.6	94	81	9	396	31	14	33	20	1.92
3454485--3454904	131	3.2	132	86	4	521	31	14	34	20	1.92
3454490--3454905	231	1.8	231	92	1	708	31	14	34	20	1.92
3454897--3455189	30	9.5	29	82	12	336	31	18	28	22	1.97
3454897--3455184	62	4.7	62	90	2	456	30	18	28	22	1.97
3454491--3454966	231	2.1	229	87	4	676	31	15	33	20	1.93
3460961--3460985	13	1.9	13	100	0	50	32	16	16	36	1.90
3461035--3461090	19	2.9	19	81	2	67	37	12	16	33	1.86
3469106--3469158	27	2.0	27	96	3	99	35	0	0	64	0.94
3470344--3470553	108	2.0	106	87	5	307	45	11	11	31	1.77
3471539--3471716	86	2.1	85	82	3	214	47	12	21	18	1.81
3471856--3472410	81	6.9	81	79	4	523	45	14	18	21	1.84
3471859--3472405	240	2.3	241	81	4	600	45	13	18	21	1.84
3473156--3473199	13	3.4	13	96	0	79	38	9	15	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3481716--3481749	12	2.8	12	90	4	50	82	17	0	0	0.67
3483033--3483352	30	10.1	30	81	7	291	22	30	15	32	1.94
3483260--3483958	32	21.8	32	82	8	735	20	30	11	36	1.89
3483260--3483958	131	5.5	129	83	7	784	20	30	11	36	1.89
3483260--3483940	163	4.3	157	86	4	791	21	30	11	36	1.89
3483772--3483884	27	4.0	27	78	13	100	24	31	12	30	1.92
3483288--3483917	66	9.9	60	76	12	371	21	30	11	36	1.89
3483931--3484038	28	3.6	30	76	12	107	32	27	19	20	1.97
3484048--3484309	87	3.0	87	88	1	382	26	24	19	29	1.99
3484231--3484766	49	10.7	49	78	5	482	22	25	18	33	1.97
3484237--3484857	52	12.4	49	78	6	494	23	25	18	32	1.97
3484231--3484759	101	5.3	100	83	3	629	22	25	18	32	1.97
3487954--3487994	21	2.0	20	90	4	64	51	17	12	19	1.76
3488908--3488984	32	2.4	32	86	2	111	40	15	16	27	1.89
3493233--3493566	52	6.5	52	79	6	218	34	17	23	24	1.96
3493435--3493562	49	2.5	50	83	3	141	35	14	24	26	1.93
3493228--3493703	52	9.6	49	74	10	197	34	17	23	24	1.96
3493484--3493718	95	2.5	95	83	1	292	33	18	23	24	1.97
3493544--3493626	43	1.9	43	82	4	105	36	16	21	25	1.94
3493727--3493855	32	4.0	32	83	6	154	21	18	28	31	1.97
3493727--3493855	64	2.0	64	86	3	179	21	18	28	31	1.97
3494026--3494099	28	2.7	28	87	2	96	28	17	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3494120--3494198	13	5.9	13	77	8	70	32	16	13	36	1.88
3505140--3505192	27	2.0	27	84	0	70	24	11	33	30	1.90
3507417--3507725	28	11.0	28	78	9	315	30	30	17	21	1.96
3507423--3507771	56	6.2	55	82	5	362	31	30	17	20	1.95
3507423--3507771	112	3.1	113	83	6	413	31	30	17	20	1.95
3507423--3507771	28	12.4	28	77	10	309	31	30	17	20	1.95
3507700--3507781	28	2.8	29	82	14	98	34	28	18	19	1.95
3507792--3507912	43	3.0	40	79	7	154	29	25	18	26	1.98
3507927--3508119	47	3.9	49	76	7	158	23	27	17	31	1.97
3509839--3509884	21	2.2	20	82	14	58	21	17	19	41	1.90
3519820--3526797	159	43.9	156	67	13	2192	29	18	14	37	1.91
3519577--3527567	476	16.8	476	88	2	11625	29	18	14	37	1.91
3522245--3522283	19	2.1	19	100	0	78	12	30	10	46	1.75
3528286--3530019	159	10.9	160	65	14	437	30	19	14	35	1.91
3527929--3613268	476	178.6	476	81	6	59616	30	19	13	36	1.91
3527929--3726483	952	207.5	948	84	6	135547	29	19	14	36	1.91
3531008--3539345	159	52.6	157	64	15	1356	30	18	14	36	1.91
3547343--3547368	13	2.0	13	100	0	52	30	15	15	38	1.88
3547751--3557745	477	21.0	475	82	3	11729	30	19	13	36	1.91
3547751--3557745	953	10.5	944	92	1	11244	30	19	13	36	1.91
3557326--3567516	159	64.3	158	66	12	2781	30	19	14	36	1.91
3559009--3564101	475	10.7	476	86	2	6799	30	19	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559009--3564101	951	5.4	952	88	1	7075	30	19	14	36	1.91
3565376--3565409	15	2.3	15	90	10	52	8	23	2	64	1.36
3564662--3566205	808	1.9	809	88	2	2314	29	18	13	37	1.89
3565391--3580017	477	30.5	476	82	5	15893	30	19	14	36	1.91
3567469--3567682	107	2.0	107	100	0	428	29	19	14	36	1.91
3567576--3580014	159	78.3	156	65	13	2341	30	19	14	36	1.91
3567576--3580021	477	26.1	477	86	2	16961	30	19	14	36	1.91
3580002--3580035	17	2.0	17	100	0	68	35	11	11	41	1.78
3579823--3580225	209	1.9	208	90	2	648	30	18	15	35	1.93
3579346--3580702	685	2.0	686	91	2	2208	29	19	14	36	1.91
3580090--3613218	159	208.8	155	66	14	10930	29	19	13	36	1.91
3613543--3638900	159	160.1	159	67	11	5397	29	18	14	37	1.91
3613312--3639056	476	54.2	475	91	1	39242	29	18	14	37	1.91
3639464--3655451	159	100.9	157	66	13	5030	29	18	14	37	1.91
3639068--3655451	476	34.5	476	94	1	27156	29	18	14	37	1.91
3639068--3655451	950	17.2	950	94	1	27126	29	18	14	37	1.91
3660427--3660545	42	2.8	42	92	0	193	8	46	2	42	1.47
3660460--3660535	12	6.9	11	75	15	52	9	48	2	39	1.49
3660451--3660536	24	3.8	24	72	17	85	10	45	2	41	1.51
3660442--3660512	18	3.6	18	69	20	52	9	43	2	43	1.52
3662225--3663401	159	7.4	157	66	15	454	28	18	15	37	1.91
3662159--3663790	475	3.4	476	93	1	2821	28	18	15	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3664207--3677213	159	82.1	156	65	15	1721	28	18	14	37	1.91
3663802--3677530	475	28.9	475	96	0	24621	29	18	14	37	1.91
3663792--3677530	951	14.5	951	97	0	23009	29	18	14	37	1.91
3677947--3690479	159	79.1	156	65	15	1698	28	18	14	37	1.91
3677542--3690797	475	27.9	476	95	0	23005	29	18	14	37	1.91
3690907--3711289	159	128.5	159	67	12	6847	29	19	14	36	1.91
3690799--3805855	476	242.0	475	81	7	49067	29	19	14	36	1.91
3713622--3720918	159	46.0	160	66	13	995	29	18	14	37	1.90
3722045--3725636	159	22.6	160	65	11	705	29	18	14	36	1.91
3726206--3726769	286	2.0	285	82	3	695	30	19	13	36	1.90
3725730--3727245	762	2.0	761	86	3	2097	30	19	13	36	1.90
3727446--3735828	159	52.9	157	66	13	1849	29	18	14	37	1.90
3727405--3743612	475	34.2	476	84	4	20078	29	18	13	37	1.90
3736508--3738675	159	13.7	159	68	12	897	29	18	14	37	1.91
3739859--3740650	159	5.0	157	68	14	387	29	19	14	36	1.92
3743377--3744120	376	2.0	376	85	2	1003	28	18	13	38	1.90
3742900--3744599	852	2.0	850	91	0	2783	28	19	14	37	1.90
3747083--3747826	376	2.0	376	85	2	1003	28	19	13	37	1.90
3746606--3748305	852	2.0	850	92	0	2801	28	19	14	37	1.91
3747630--3751602	159	25.1	155	67	13	1200	29	18	13	37	1.90
3751910--3753216	159	8.2	160	67	13	551	29	18	14	37	1.91
3753785--3798611	159	283.0	159	68	12	10717	29	19	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3753745--3805813	951	54.8	952	78	8	13876	29	19	14	36	1.91
3762076--3763358	635	2.0	632	85	3	1720	29	19	14	35	1.92
3762757--3776672	951	14.6	952	86	3	16033	29	19	14	36	1.91
3762073--3804514	634	67.0	630	69	13	11309	29	19	14	36	1.91
3801052--3801708	158	4.1	159	67	16	399	33	17	13	35	1.89
3805726--3805993	134	2.0	134	82	1	322	32	18	15	33	1.92
3807126--3809233	475	4.4	476	87	1	2793	30	19	14	36	1.91
3808906--3809549	316	2.0	317	86	1	907	29	19	13	36	1.91
3809318--3810161	426	2.0	425	85	2	1147	30	19	15	35	1.92
3813630--3813664	12	2.9	12	84	16	54	40	0	48	11	1.39

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