genome.fa.s2054.2.7.7.80.10.50.1000.2.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: scaffold218
Parameters: 2 7 7 80 10 50 1000
Length:  1018737

Tables:   1   2   3   

This is table  2  of  3  ( 339 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)
348576--348601	13	2.0	13	100	0	52	46	7	30	15	1.74
348254--348906	328	2.0	328	92	0	1083	35	12	24	27	1.92
359652--359687	19	1.9	18	88	5	54	25	16	0	58	1.38
360019--360093	26	2.9	25	80	7	87	37	20	22	20	1.94
364280--364664	126	3.1	126	86	2	531	28	17	15	38	1.90
364776--364887	34	3.3	33	86	2	161	44	15	0	39	1.52
364951--365014	22	2.8	23	79	9	69	46	34	3	15	1.62
371180--371221	18	2.4	17	88	11	59	47	14	2	35	1.57
372696--372722	13	2.1	13	100	0	54	55	7	0	37	1.28
376322--376375	21	2.5	22	85	5	76	29	5	35	29	1.80
376584--376645	33	1.9	32	86	3	88	41	0	4	53	1.22
381248--381288	18	2.3	18	95	0	73	31	4	34	29	1.79
385329--385386	30	1.9	30	96	0	107	31	18	18	31	1.96
387156--387206	23	2.2	23	100	0	102	31	31	7	29	1.86
389079--389140	19	3.4	19	77	18	60	22	33	0	43	1.54
389087--389140	17	2.9	18	77	17	58	24	37	0	38	1.56
389108--389147	19	2.0	20	85	9	55	22	37	0	40	1.54
392636--392787	76	2.0	76	98	0	295	32	34	7	26	1.84
405868--405960	40	2.3	41	86	1	125	38	11	29	20	1.88
405942--405994	19	2.6	21	71	20	58	32	13	28	26	1.93
405868--405992	40	3.1	38	78	5	106	36	12	28	21	1.91
413194--413287	41	2.3	41	83	5	120	34	14	30	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417606--417773	45	3.7	45	82	1	176	26	14	24	34	1.94
417653--417798	45	3.2	44	82	5	159	23	14	26	34	1.94
433710--433811	27	3.8	27	88	0	150	28	13	26	31	1.94
434182--434207	8	3.2	8	100	0	52	76	0	11	11	1.01
454005--454254	43	5.8	43	85	2	331	32	25	16	26	1.96
454003--454273	130	2.1	128	81	7	323	30	24	16	28	1.96
460057--460115	9	6.8	9	75	11	52	35	0	16	47	1.47
460117--460181	28	2.3	27	80	12	78	49	13	4	32	1.63
460116--460665	66	8.3	66	96	0	983	50	14	2	32	1.56
460173--460247	28	2.6	28	74	25	77	50	14	1	33	1.51
460513--460577	28	2.3	27	80	12	78	53	12	1	32	1.47
460579--460643	28	2.3	27	80	12	78	49	13	4	32	1.63
463444--463513	36	1.9	36	82	5	88	41	35	4	18	1.70
463495--463525	14	2.1	15	94	5	55	35	45	0	19	1.51
463864--463902	14	2.8	14	80	0	51	56	20	0	23	1.42
463894--463932	14	2.8	14	92	7	62	38	46	0	15	1.46
463750--463975	57	3.9	57	74	9	192	45	33	0	21	1.52
463942--463975	15	2.3	15	90	5	52	44	32	0	23	1.54
464198--464312	40	2.9	40	75	2	115	26	22	21	29	1.99
464051--464646	196	3.1	192	74	8	533	26	22	20	30	1.98
472994--473044	19	2.6	19	84	3	57	25	29	0	45	1.54
492985--493051	20	3.4	20	76	14	68	34	0	1	64	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493008--493049	19	2.3	19	83	4	59	38	0	2	59	1.10
494859--495072	106	2.0	107	98	0	412	42	6	9	41	1.62
519398--519444	18	2.8	17	80	6	51	4	25	2	68	1.19
533428--533489	30	2.1	29	93	3	106	58	14	3	24	1.51
540296--540363	27	2.5	28	82	4	84	29	17	29	23	1.97
544310--544352	14	3.1	13	81	15	50	4	27	0	67	1.10
545218--545292	39	1.9	39	86	0	105	29	17	17	36	1.93
545528--545599	24	3.1	24	63	25	64	19	19	20	40	1.92
545475--545640	45	3.7	45	78	14	157	26	19	15	38	1.91
546924--546990	2	33.5	2	100	0	134	50	0	0	49	1.00
548835--548893	21	2.8	21	75	10	57	27	25	20	27	1.99
550286--550313	12	2.3	12	100	0	56	28	10	0	60	1.30
560634--560659	2	13.0	2	100	0	52	50	0	0	50	1.00
563569--563601	1	33.0	1	100	0	66	0	0	0	100	0.00
563602--563888	150	1.9	150	100	0	574	29	11	21	36	1.89
566838--567223	141	2.8	141	85	3	516	17	16	23	41	1.89
570874--570905	14	2.1	16	88	11	50	46	12	0	40	1.42
571532--571571	14	2.7	15	92	7	64	30	20	2	47	1.63
580443--580484	21	2.0	21	95	0	75	69	9	7	14	1.37
581174--581206	16	2.1	16	100	0	66	42	6	6	45	1.53
588499--588576	20	3.7	20	72	16	68	62	0	37	0	0.95
588498--588573	9	8.0	9	71	16	55	61	0	38	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588952--589038	40	2.3	38	81	11	108	34	6	8	50	1.59
588831--589038	76	2.6	78	77	11	228	34	5	10	49	1.60
593170--593399	114	2.0	114	93	0	397	28	23	18	30	1.98
594005--594043	17	2.3	17	90	0	60	17	10	7	64	1.48
594061--594090	16	1.9	15	93	6	51	26	3	0	70	1.03
594220--594249	16	1.9	15	93	6	51	26	3	0	70	1.03
594017--594397	159	2.4	159	95	1	685	28	8	7	55	1.58
594384--594415	17	1.9	17	93	6	57	9	9	6	75	1.20
594550--594588	20	2.0	20	95	5	71	71	7	0	20	1.10
594628--594719	6	14.5	6	78	13	51	0	39	2	58	1.10
594667--594714	9	5.0	9	80	14	51	0	39	0	60	0.97
594712--594788	10	7.7	10	79	0	82	1	29	0	68	0.97
594704--594788	30	2.8	30	98	0	161	1	30	0	68	0.97
594664--594794	20	6.3	20	77	12	97	0	35	0	64	0.99
594920--594950	12	2.6	12	94	0	53	70	6	0	22	1.09
595193--595277	13	6.3	14	72	10	61	0	35	1	63	1.02
596341--596381	21	1.9	22	90	5	66	46	29	0	24	1.53
596441--596495	28	2.0	28	92	0	92	25	16	3	54	1.58
600063--600137	19	3.8	19	87	6	114	37	16	10	36	1.83
611141--611178	2	19.0	2	94	0	67	52	0	47	0	1.00
614224--614271	19	2.5	19	75	0	51	39	10	16	33	1.83
615570--615597	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615721--615747	2	13.5	2	100	0	54	48	0	0	51	1.00
618158--618240	11	7.9	11	71	18	61	59	0	2	38	1.11
618158--618229	30	2.3	31	83	9	85	59	0	2	37	1.12
618171--618260	41	2.2	42	97	2	173	65	0	2	32	1.05
618203--618314	51	2.2	53	88	6	167	67	0	3	28	1.07
619653--619681	14	2.0	15	93	6	51	31	0	20	48	1.50
627313--627347	17	2.1	17	89	5	54	60	25	11	2	1.45
635360--635512	69	2.2	68	82	3	173	32	22	22	22	1.98
635450--635840	69	5.7	69	75	3	259	33	25	20	20	1.97
635598--635853	138	1.9	138	80	3	300	33	26	17	21	1.96
635941--636102	55	2.9	55	86	7	222	38	16	8	35	1.80
640466--640510	18	2.4	18	85	10	56	73	4	8	13	1.23
641797--641928	67	2.0	67	92	0	219	27	31	18	22	1.98
645363--645606	126	1.9	126	91	0	398	35	3	20	40	1.70
647574--647606	2	16.5	2	93	0	57	51	45	0	3	1.16
649384--649429	17	2.7	17	96	0	83	8	21	6	63	1.46
656263--656351	25	3.3	25	75	20	72	67	1	2	29	1.10
657816--657856	19	2.2	19	86	0	55	29	2	0	68	1.03
657814--657866	27	2.0	27	85	7	72	35	1	0	62	1.06
658754--658785	16	2.1	15	94	5	55	40	0	0	59	0.97
661794--661862	33	2.1	33	86	0	93	28	7	34	28	1.84
663666--663796	63	2.1	63	83	0	163	25	29	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665823--665884	23	2.5	23	82	10	70	41	3	9	45	1.53
665823--665878	26	2.2	24	84	12	69	44	3	8	42	1.53
678598--678657	30	2.1	27	85	11	77	73	1	11	13	1.18
678901--678963	30	2.1	30	82	5	74	12	19	22	46	1.83
688038--688111	38	2.0	38	84	7	98	13	17	5	63	1.47
692416--692440	2	12.5	2	100	0	50	52	0	0	48	1.00
695998--696155	3	52.7	3	100	0	316	66	0	0	33	0.92
699510--699542	10	3.4	10	83	8	50	57	9	12	21	1.62
701293--701482	63	3.0	62	85	3	229	23	29	25	22	1.99
701631--701695	18	3.5	17	74	15	58	78	1	16	3	0.96

Tables:   1   2   3