genome.fa.s9.2.7.7.80.10.50.1000.20.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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  20  of  24  ( 2830 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)
2991249--2991292	21	2.1	21	83	8	54	25	31	4	38	1.76
2993095--2993133	13	3.0	13	92	0	69	38	12	15	33	1.85
2995210--2995240	15	2.1	15	93	0	53	12	22	16	48	1.80
2997045--2997089	21	2.1	21	84	8	56	22	20	4	53	1.63
2999300--2999325	13	2.0	13	100	0	52	30	15	15	38	1.88
3003821--3003897	21	3.7	21	89	3	111	35	12	16	35	1.88
3003933--3004000	19	3.9	19	78	21	85	35	11	14	38	1.83
3003954--3003978	13	1.9	13	100	0	50	36	16	16	32	1.90
3003935--3003997	32	2.0	32	96	0	117	34	12	15	36	1.86
3006401--3006738	51	6.4	51	69	13	177	29	27	12	30	1.93
3006510--3006582	27	2.7	27	86	2	92	23	36	21	17	1.94
3006708--3006924	79	2.7	79	82	1	229	24	29	16	29	1.96
3009947--3009976	4	7.8	4	92	7	53	76	0	0	23	0.78
3009947--3009975	15	1.9	15	100	0	58	75	0	0	24	0.80
3011097--3011524	232	1.8	233	89	1	680	30	21	23	24	1.99
3012361--3012470	52	2.1	51	89	1	166	32	17	23	26	1.96
3012453--3012526	28	2.6	28	95	4	132	24	22	31	21	1.99
3012481--3012656	79	2.2	79	88	0	262	29	14	28	27	1.95
3012592--3012711	51	2.4	51	88	2	170	29	11	28	30	1.92
3015057--3015097	21	2.0	21	95	0	73	26	17	9	46	1.79
3015122--3015175	21	2.7	20	77	8	65	38	14	12	33	1.85
3015975--3016934	61	16.4	61	82	9	928	26	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016064--3016903	354	2.4	342	88	4	1203	25	20	27	26	1.99
3016032--3016903	55	15.1	55	83	8	850	25	20	27	26	1.99
3017909--3017948	19	2.1	19	85	0	53	0	5	10	85	0.75
3017916--3017956	15	2.7	16	88	11	68	0	0	14	85	0.60
3017927--3017956	11	2.7	11	94	0	51	0	0	13	86	0.57
3030370--3030488	51	2.4	51	82	1	159	31	13	26	28	1.94
3030473--3030544	28	2.6	28	88	2	110	23	20	34	20	1.96
3030424--3030619	106	1.8	107	83	3	261	32	13	26	27	1.94
3030502--3030674	79	2.2	78	82	6	206	31	15	25	27	1.96
3030610--3030730	51	2.4	51	87	5	165	30	13	26	29	1.94
3030289--3030725	236	1.8	237	79	6	510	32	13	25	27	1.94
3033150--3033203	21	2.7	20	77	8	65	38	14	12	33	1.85
3033977--3034224	132	1.9	132	97	0	469	35	9	22	33	1.86
3034551--3034734	79	2.3	79	80	5	203	35	10	23	29	1.89
3036998--3037132	50	2.7	51	91	4	222	42	14	17	25	1.87
3037019--3037112	30	3.5	30	67	27	100	40	17	17	25	1.90
3039053--3039079	13	2.1	13	100	0	54	29	14	14	40	1.86
3039063--3039118	19	2.9	19	84	7	78	30	16	17	35	1.92
3044104--3044169	20	3.7	20	73	26	83	28	12	15	43	1.82
3044124--3044148	13	1.9	13	100	0	50	32	16	16	36	1.90
3044104--3044168	33	2.0	33	100	0	130	27	12	15	44	1.82
3046913--3046971	19	3.0	18	78	14	55	27	11	20	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3047591--3049308	471	3.6	470	80	7	1670	35	14	19	30	1.92
3048606--3050088	780	1.9	784	79	8	1666	35	14	19	30	1.92
3164752--3166479	475	3.6	470	81	5	1905	36	14	19	30	1.91
3164785--3166533	950	1.8	949	82	5	2170	36	14	18	30	1.92
3165679--3167270	792	2.0	791	82	4	1944	35	14	18	30	1.91
3166457--3172484	475	12.7	474	81	4	6376	36	14	18	30	1.90
3172267--3172672	159	2.5	157	75	8	401	35	14	17	31	1.91
3172718--3173157	219	2.0	219	91	0	711	40	14	16	28	1.88
3173120--3174633	159	9.6	158	68	12	705	36	13	17	32	1.88
3173352--3174519	476	2.5	468	79	6	1301	37	12	17	32	1.88
3174862--3176992	475	4.5	473	82	3	2440	36	13	18	31	1.90
3174862--3177004	949	2.3	948	84	3	2713	36	13	18	30	1.90
3177312--3177336	13	1.9	13	100	0	50	36	16	16	32	1.90
3177406--3177455	20	2.5	21	83	9	68	34	14	20	32	1.92
3178927--3182900	475	8.4	476	82	4	4432	36	13	18	30	1.90
3180298--3180675	158	2.4	159	77	7	351	34	14	19	30	1.92
3182659--3183055	159	2.5	158	77	7	371	34	13	18	32	1.91
3182779--3183096	159	2.0	159	79	4	347	34	12	19	32	1.90
3183290--3185424	475	4.5	474	83	3	2494	36	13	18	31	1.90
3183764--3185388	158	10.3	156	66	12	439	35	12	19	32	1.89
3182892--3185408	949	2.7	940	83	4	2970	36	13	18	31	1.89
3185741--3185765	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3185720--3185784	32	2.0	33	87	3	96	32	13	13	40	1.85
3185835--3185884	20	2.5	21	83	9	68	34	14	20	32	1.92
3189049--3189095	24	2.0	24	95	0	85	36	4	19	40	1.71
3193537--3193600	33	1.9	33	87	0	92	25	28	17	29	1.97
3194622--3194675	20	2.7	21	80	8	67	37	12	16	33	1.87
3195418--3203974	475	18.2	474	81	4	8946	36	14	18	31	1.90
3199405--3203859	158	28.2	159	65	13	965	36	14	18	30	1.91
3199152--3203974	474	10.2	476	83	3	5600	36	14	18	30	1.91
3203983--3206940	158	18.7	157	68	9	1163	32	17	12	36	1.88
3203975--3206940	474	6.3	474	83	3	3741	32	17	13	36	1.88
3207698--3207768	19	4.0	18	72	25	53	26	12	18	42	1.86
3208141--3214799	158	42.2	157	66	10	1711	31	17	13	36	1.89
3208126--3218131	473	21.2	473	83	3	11263	31	17	13	36	1.89
3214819--3218131	475	7.0	474	83	3	3861	31	17	14	37	1.89
3218450--3218478	12	2.4	12	100	0	58	34	17	13	34	1.89
3222637--3222678	20	2.2	19	86	4	57	23	21	11	42	1.86
3228698--3228744	14	3.4	14	83	13	53	80	17	0	2	0.80
3230020--3230526	34	15.5	34	81	8	344	20	30	12	36	1.90
3230020--3230405	67	5.9	67	85	6	344	20	29	13	36	1.91
3230380--3230432	27	2.0	27	84	0	70	22	35	15	26	1.93
3230085--3230683	34	18.3	33	80	8	519	20	31	12	36	1.89
3230184--3230667	128	3.7	128	86	3	598	19	32	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3230508--3230562	27	2.0	27	86	6	76	25	34	10	29	1.90
3230704--3231035	39	7.8	39	70	18	207	26	25	20	28	1.99
3230696--3231668	87	10.5	90	88	5	1035	24	24	19	31	1.98
3231184--3231711	49	10.6	49	81	5	569	22	24	18	33	1.97
3231184--3231707	101	5.3	100	86	3	684	22	24	18	33	1.97
3231188--3231674	98	4.9	99	87	4	658	22	24	18	33	1.97
3232564--3232629	33	2.0	33	85	5	89	31	15	12	40	1.83
3233546--3233587	20	2.2	19	86	4	57	23	21	11	42	1.86
3236330--3238497	158	13.8	158	67	11	697	31	18	14	36	1.90
3236184--3238848	476	5.6	475	84	4	3300	30	18	14	36	1.90
3243134--3243159	7	3.7	7	100	0	52	15	0	15	69	1.20
3243474--3244284	308	2.6	310	84	2	993	32	12	21	32	1.91
3246572--3246616	23	2.0	22	91	4	72	26	20	0	53	1.46
3246582--3246629	11	4.4	11	77	17	55	22	22	0	54	1.45
3247696--3247756	26	2.3	26	100	0	122	47	21	16	14	1.82
3248557--3248648	46	2.0	46	97	0	175	31	21	18	28	1.97
3253831--3253877	20	2.3	20	81	3	58	42	8	14	34	1.77
3256161--3256211	26	2.0	27	92	7	88	25	33	15	25	1.95
3264439--3264477	19	2.1	19	100	0	78	48	10	10	30	1.70
3266026--3266096	20	3.6	19	73	7	61	38	16	15	29	1.90
3266186--3266238	21	2.5	21	96	0	97	30	28	9	32	1.88
3266316--3266354	13	3.0	13	92	0	69	30	15	17	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271314--3271388	19	3.9	19	91	1	114	37	16	16	30	1.90
3271373--3271399	13	2.1	13	100	0	54	40	14	14	29	1.86
3271354--3271418	33	2.0	32	87	3	94	41	13	16	27	1.87
3277072--3277097	13	2.0	13	100	0	52	38	15	15	30	1.88
3277054--3277117	32	2.0	33	90	3	103	42	15	14	28	1.86
3281174--3281204	15	2.1	15	93	0	53	48	16	22	12	1.80
3283284--3283322	13	3.0	13	96	0	69	30	17	15	35	1.91
3283431--3283476	21	2.2	20	81	11	58	34	19	4	41	1.71
3285084--3285206	59	2.1	60	96	3	232	34	4	21	38	1.75
3285945--3285970	13	2.0	13	100	0	52	38	15	15	30	1.88

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