genome.fa.s16.2.7.7.80.10.50.1000.23.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  23  of  35  ( 4175 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)
3491008--3491041	18	1.9	18	88	5	52	29	0	0	70	0.87
3491005--3491044	13	3.2	13	86	13	50	25	0	0	75	0.81
3493172--3493244	20	3.7	19	78	8	67	30	10	17	41	1.84
3493173--3493224	19	2.7	20	84	3	70	28	11	17	42	1.84
3493272--3493309	13	2.9	13	88	0	58	31	10	18	39	1.85
3501249--3501302	27	2.0	27	96	0	99	46	3	24	25	1.69
3507908--3507965	13	3.9	13	73	26	53	32	13	13	39	1.85
3507906--3507987	33	2.5	33	100	0	164	30	12	12	45	1.78
3507921--3507989	20	3.8	19	73	26	78	28	11	11	47	1.75
3508004--3508062	21	2.8	21	100	0	118	38	16	10	33	1.83
3508049--3508106	13	4.9	13	68	23	56	31	17	13	37	1.89
3508061--3508126	20	3.7	19	73	26	72	28	18	13	39	1.89
3508049--3508127	33	2.4	33	97	0	149	29	17	13	39	1.89
3508115--3508239	52	2.4	52	93	0	214	36	18	16	28	1.93
3511346--3511399	20	2.7	20	85	0	63	33	12	11	42	1.79
3513727--3514130	79	5.1	79	81	3	420	29	26	12	32	1.92
3513740--3514115	155	2.4	156	82	3	443	30	27	11	31	1.92
3514050--3514168	51	2.3	51	84	7	152	35	29	9	26	1.87
3514100--3514290	79	2.4	80	78	2	197	28	27	12	30	1.93
3519099--3519155	28	1.9	28	86	10	78	36	17	24	21	1.94
3519132--3519395	79	3.4	79	79	3	255	31	13	26	27	1.94
3524532--3525417	62	14.3	62	87	1	1172	24	26	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3525474--3525573	42	2.4	41	78	6	103	14	27	13	46	1.81
3525737--3526146	42	9.6	45	74	12	259	19	27	12	40	1.87
3525737--3526094	86	4.2	86	75	12	290	18	27	13	40	1.88
3525956--3526069	46	2.5	44	80	8	122	21	24	10	42	1.84
3525741--3526146	41	9.5	42	75	9	281	19	27	12	40	1.87
3526843--3526949	30	3.5	30	73	7	115	26	18	16	38	1.92
3526890--3526919	13	2.3	13	94	0	51	30	20	13	36	1.90
3526840--3526969	63	2.1	63	94	0	224	26	18	15	39	1.90
3527771--3527795	8	3.1	8	100	0	50	24	28	12	36	1.91
3529010--3529040	11	2.8	11	100	0	62	35	0	9	54	1.33
3529481--3529551	28	2.6	27	84	6	97	25	32	15	26	1.95
3529341--3529537	79	2.5	79	82	5	224	27	28	10	32	1.90
3529413--3529609	107	1.9	105	86	6	281	27	29	11	31	1.91
3533941--3533984	21	2.1	21	91	0	70	18	36	15	29	1.92
3534077--3534429	103	3.4	102	84	1	418	32	30	13	23	1.93
3534151--3534437	155	1.9	155	81	7	359	32	29	13	24	1.93
3534024--3534437	52	8.0	52	74	7	256	31	30	13	24	1.93
3534254--3534474	52	4.3	52	80	6	216	31	29	15	23	1.96
3534151--3534485	103	3.2	104	79	4	250	32	28	14	24	1.94
3537858--3538028	85	2.0	85	100	0	342	23	30	22	23	1.99
3542449--3542486	2	18.5	2	94	5	67	50	2	0	47	1.15
3543041--3543087	2	23.5	2	100	0	94	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3544131--3544155	2	12.5	2	100	0	50	48	0	0	52	1.00
3544856--3544892	2	18.5	2	100	0	74	51	0	0	48	1.00
3546699--3546742	2	22.0	2	100	0	88	50	0	0	50	1.00
3549419--3549462	10	4.1	11	88	11	65	77	0	0	22	0.77
3549418--3549457	13	3.2	13	80	20	50	75	0	0	25	0.81
3549418--3549462	18	2.6	17	83	16	58	75	0	0	24	0.80
3549419--3549462	21	2.0	22	87	12	65	77	0	0	22	0.77
3552598--3552649	19	2.7	20	87	6	79	28	13	15	42	1.85
3553808--3553879	34	2.1	34	100	0	144	48	13	8	29	1.72
3558388--3558413	13	2.0	13	100	0	52	30	15	15	38	1.88
3558368--3558431	32	2.0	33	90	3	103	28	14	15	42	1.86
3559263--3559397	20	7.8	20	63	30	87	34	15	11	37	1.84
3559265--3559397	33	4.0	33	95	0	230	33	15	12	38	1.85
3559351--3559377	13	2.1	13	100	0	54	29	14	14	40	1.86
3566367--3566400	11	3.0	11	86	4	50	85	8	0	5	0.75
3566661--3566693	14	2.3	15	89	5	50	81	3	15	0	0.80
3567679--3567917	30	7.8	30	82	5	280	23	31	14	31	1.94
3567686--3567917	61	3.8	61	81	5	277	23	31	14	30	1.94
3567679--3567917	95	2.6	91	84	4	334	23	31	14	31	1.94
3567686--3567993	156	2.0	156	80	4	356	22	32	14	31	1.94
3567926--3568400	34	15.0	34	69	19	246	20	30	12	36	1.89
3567993--3568487	61	8.1	59	76	14	362	20	29	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3568164--3568447	27	9.5	27	73	17	181	20	32	14	32	1.93
3568461--3568585	29	4.3	29	79	9	130	32	31	17	18	1.94
3568461--3568585	57	2.2	58	84	5	155	32	31	17	18	1.94
3568667--3568995	39	7.7	39	70	17	226	27	26	18	27	1.98
3568607--3569043	87	5.0	87	89	0	649	27	25	18	29	1.98
3568961--3569240	52	5.6	49	79	6	269	23	26	18	32	1.97
3568957--3569192	101	2.3	101	84	2	296	24	26	17	31	1.97
3570094--3570121	13	2.2	13	100	0	56	28	14	17	39	1.89
3577989--3578425	30	14.4	30	68	12	196	23	23	12	40	1.88
3577951--3578508	60	9.2	60	78	5	414	23	22	13	41	1.89
3577951--3578508	121	4.6	121	80	3	597	23	22	13	41	1.89
3578684--3578708	12	2.1	12	100	0	50	84	0	16	0	0.63
3578682--3578724	20	2.2	20	91	0	68	81	2	16	0	0.79
3582631--3582693	23	2.7	25	76	9	62	71	3	3	22	1.14
3584237--3584602	66	5.6	65	75	9	235	42	12	21	24	1.86
3584366--3584522	64	2.4	66	80	4	176	42	10	24	22	1.86
3584470--3584602	65	2.0	66	80	1	151	42	9	20	27	1.83
3584657--3584934	132	2.1	129	80	5	308	43	12	23	21	1.86
3584657--3584952	66	4.5	66	78	7	275	43	12	22	20	1.85
3584657--3585002	66	5.3	66	77	9	230	42	12	22	22	1.86
3585175--3585351	65	2.7	66	82	6	207	42	13	23	20	1.87
3585329--3585408	37	2.3	35	82	14	96	41	11	26	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3585421--3585496	39	1.9	39	82	12	93	50	15	13	21	1.78
3585440--3585660	40	5.5	40	75	8	173	48	18	15	18	1.81
3585440--3585660	80	2.8	77	76	6	201	48	18	15	18	1.81
3585443--3585672	120	1.9	120	84	3	311	46	16	16	19	1.84
3586377--3586465	30	3.0	29	73	14	74	50	16	13	19	1.78
3587663--3587804	30	4.6	31	77	9	139	25	28	16	30	1.96
3587669--3587804	62	2.2	60	82	8	150	26	27	16	28	1.97
3587817--3588080	33	7.9	33	73	15	172	21	30	12	35	1.91
3587817--3588081	34	7.9	34	78	9	253	21	30	12	35	1.91
3588051--3588106	27	2.1	27	89	0	85	23	28	12	35	1.91
3587881--3588137	98	2.6	97	77	7	263	21	29	14	35	1.92
3588180--3588981	49	16.6	49	78	9	758	23	26	18	31	1.97
3588540--3588981	52	8.8	51	77	8	433	23	26	17	32	1.96
3588180--3588936	92	7.9	92	89	4	976	23	26	18	31	1.97
3589878--3590014	30	4.4	29	78	14	125	26	28	16	28	1.97
3589878--3590185	68	4.9	60	71	16	162	24	29	15	31	1.95
3590027--3590356	33	10.1	34	78	11	291	21	30	13	35	1.91
3589878--3590224	33	10.8	32	79	11	254	23	29	14	31	1.95
3590294--3590349	27	2.1	27	89	0	85	23	28	12	35	1.91
3590417--3591041	49	12.8	49	76	9	506	24	26	17	31	1.97
3590465--3590638	43	3.9	43	83	8	231	24	25	20	29	1.99
3590417--3590646	43	5.1	43	75	9	199	24	26	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590600--3591041	52	8.8	51	75	8	361	23	27	16	32	1.96
3590406--3591041	101	6.5	99	83	6	664	23	26	17	31	1.97
3591932--3592072	30	4.6	31	79	9	146	25	29	16	29	1.97
3591938--3592110	62	2.9	60	76	11	160	25	29	17	27	1.97
3592031--3592149	33	4.0	28	71	20	71	25	30	14	30	1.95
3592086--3592382	34	9.1	33	76	12	274	20	30	12	35	1.91
3592320--3592375	27	2.1	27	89	0	85	23	28	12	35	1.91
3592083--3592406	98	3.3	97	76	10	259	21	30	13	33	1.92
3592443--3593067	49	12.8	49	75	9	481	24	26	17	31	1.97
3592491--3592659	43	3.8	43	80	9	212	24	24	20	29	1.99

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