genome.fa.s27.2.7.7.80.10.50.1000.4.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: Scaffold27
Parameters: 2 7 7 80 10 50 1000
Length:  2789374

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1898 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)
565398--565438	19	2.2	19	100	0	82	29	14	9	46	1.77
570235--570278	23	1.9	22	82	17	54	22	2	6	68	1.25
573852--573908	29	1.9	30	82	10	73	40	10	7	42	1.66
579237--579275	16	2.3	16	86	8	51	25	2	2	69	1.14
579864--579899	2	18.0	2	100	0	72	50	0	0	50	1.00
581113--581157	23	2.0	23	81	0	54	44	17	0	37	1.49
581665--581695	16	1.9	16	93	0	53	22	6	22	48	1.73
600758--600793	13	2.8	13	95	0	63	36	16	13	33	1.89
600777--600833	19	2.9	19	81	2	69	31	12	19	36	1.89
600883--600907	13	1.9	13	100	0	50	44	16	8	32	1.76
602539--602571	16	2.1	16	100	0	66	39	18	12	30	1.87
602776--602899	29	4.3	30	73	15	91	48	16	9	25	1.77
602876--602967	29	3.2	29	68	17	73	45	14	11	28	1.80
602720--603252	58	9.2	58	74	8	338	46	13	12	26	1.79
602934--603080	29	5.1	29	64	25	71	48	11	9	30	1.71
602844--603202	114	3.1	116	78	6	291	46	12	13	27	1.79
604165--604204	10	3.9	10	87	6	62	0	15	0	85	0.61
604165--604204	21	2.0	20	90	5	62	0	15	0	85	0.61
604167--604223	25	2.2	24	79	11	60	0	17	3	78	0.88
607556--607824	113	2.4	111	87	3	380	43	13	9	33	1.76
607787--608002	114	1.9	112	83	5	283	45	7	7	39	1.61
609220--609334	36	3.2	36	86	0	158	34	9	20	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610537--610566	13	2.3	13	94	0	51	33	13	13	40	1.83
610582--610655	20	3.7	19	80	7	85	32	16	10	40	1.83
612840--613020	51	3.5	51	78	3	177	28	24	13	34	1.93
613007--613077	28	2.6	27	91	8	108	22	30	21	25	1.98
612995--613235	108	2.2	108	82	5	308	24	24	16	34	1.96
613171--613290	51	2.4	51	89	0	195	30	25	11	31	1.91
613223--613528	158	1.9	157	86	5	440	27	25	14	33	1.94
613222--613528	79	3.9	78	78	3	321	27	25	14	33	1.94
625857--625931	1	75.0	1	78	0	78	89	9	1	0	0.55
625857--625924	11	6.4	11	90	6	97	89	10	0	0	0.48
625857--625924	21	3.3	21	90	10	113	89	10	0	0	0.48
625857--625931	19	3.7	20	89	8	116	89	9	1	0	0.55
626455--626530	39	1.9	39	89	5	118	21	31	15	31	1.94
626507--626757	55	4.5	54	77	10	227	27	27	20	24	1.99
626859--626944	27	3.1	27	64	9	75	26	22	20	30	1.98
626620--626909	156	1.9	155	90	0	463	25	27	20	26	1.99
626463--627022	272	2.1	265	88	5	815	26	28	19	26	1.99
626559--626977	211	2.0	208	83	8	535	25	27	19	27	1.99
626795--627161	61	6.1	60	80	8	397	25	26	19	29	1.98
627127--627269	38	3.6	38	75	13	142	21	27	13	37	1.91
627157--627356	45	4.7	45	75	13	172	20	27	12	40	1.88
627126--627356	83	2.7	82	85	7	268	20	27	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627404--627505	41	2.5	39	83	10	116	17	27	10	44	1.82
627407--627505	40	2.4	41	85	6	121	18	27	11	43	1.83
628066--628095	13	2.3	13	94	0	51	33	16	10	40	1.82
628111--628217	20	5.7	19	77	18	100	29	16	12	41	1.85
628128--628197	33	2.1	33	94	0	122	30	17	12	40	1.87
628148--628178	13	2.4	13	100	0	62	29	16	16	38	1.90
628111--628217	53	2.0	53	85	7	146	29	16	12	41	1.85
630502--630681	51	3.5	51	77	2	175	27	22	12	36	1.91
630804--630913	50	2.2	51	85	1	141	33	23	10	32	1.88
630854--631160	79	3.9	79	77	5	289	28	26	13	32	1.93
632486--634073	590	2.7	588	92	1	2626	37	16	16	29	1.91
634657--634790	50	2.7	50	89	0	187	24	17	15	42	1.88
637107--637726	79	7.9	79	78	7	602	27	23	14	34	1.93
637103--637726	157	4.0	156	81	7	708	27	23	14	34	1.93
637107--637726	236	2.6	234	82	4	732	27	23	14	34	1.93
637733--637920	80	2.4	79	76	6	200	30	25	10	34	1.89
642253--642293	13	3.2	13	100	0	82	39	17	14	29	1.89
642357--642381	13	1.9	13	100	0	50	32	16	16	36	1.90
649907--649937	13	2.4	13	94	0	53	35	12	16	35	1.87
649887--649953	33	2.0	33	86	11	93	34	17	11	35	1.87
649983--650009	13	2.1	13	100	0	54	40	7	14	37	1.74
658652--658682	13	2.4	13	94	0	53	35	12	16	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658632--658698	33	2.0	33	88	11	102	32	17	13	35	1.89
668446--668847	27	14.7	27	86	3	468	26	33	13	27	1.93
668444--669690	55	22.3	56	78	8	1015	27	33	14	25	1.94
668807--668883	39	2.0	40	89	2	120	27	37	11	23	1.89
668846--669700	28	30.6	28	80	10	489	27	32	15	24	1.95
668846--668937	27	3.4	27	90	1	139	29	29	8	32	1.87
668753--668941	94	2.0	93	85	5	256	26	33	11	28	1.91
668956--668995	21	1.9	21	94	0	71	27	42	12	17	1.85
668847--669105	131	2.0	131	85	1	349	27	33	11	27	1.92
669117--669353	30	8.1	32	81	7	111	27	33	16	21	1.95
668520--669460	173	5.6	171	79	10	725	26	33	13	25	1.94
668990--670193	56	21.1	56	77	8	716	27	30	16	25	1.97
668990--670029	28	37.0	28	82	5	699	27	31	16	24	1.96
670036--670192	28	5.4	29	80	8	133	28	22	18	29	1.97
670207--670280	32	2.3	31	84	9	87	32	36	16	14	1.89
676649--676685	15	2.5	15	91	4	58	81	13	0	5	0.86
676670--676707	17	2.2	17	90	0	58	81	2	7	7	0.96
677683--678130	61	7.4	61	84	3	537	26	27	18	27	1.98
677689--678130	241	1.8	242	83	2	593	26	26	19	27	1.99
678114--678210	41	2.3	42	94	1	169	21	26	15	36	1.93
678114--678251	41	3.3	41	85	6	154	21	24	13	39	1.90
689024--689049	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689006--689069	32	2.0	33	90	3	103	42	15	14	28	1.86
690336--690464	52	2.5	52	96	0	231	30	17	17	34	1.93
690336--690484	52	2.9	51	90	4	219	31	17	17	33	1.93
690473--690497	13	1.9	13	100	0	50	36	16	16	32	1.90
695833--695857	13	1.9	13	100	0	50	36	16	16	32	1.90
695810--695877	33	2.1	33	91	2	111	33	14	16	35	1.89
696337--696603	60	4.5	59	74	5	198	49	20	12	17	1.78
697019--697184	88	1.9	88	82	2	208	43	13	18	24	1.86
697254--697294	16	2.5	17	80	15	50	0	12	4	82	0.81
697253--697293	18	2.3	18	87	4	57	0	12	2	85	0.70
698267--698358	32	2.8	33	78	15	100	32	22	14	30	1.93
698823--698892	24	2.9	24	93	0	113	44	11	21	22	1.84
698823--698887	14	5.2	14	69	23	56	43	10	21	24	1.84
700676--700716	13	3.2	13	85	0	55	41	9	17	31	1.82
702252--702310	21	2.8	21	82	5	57	16	18	0	64	1.29
702255--702310	26	2.2	26	83	0	67	16	17	0	66	1.26
703313--703338	13	2.0	13	100	0	52	30	15	15	38	1.88
705711--705757	21	2.3	21	76	23	55	42	4	19	34	1.70
705878--705903	13	2.0	13	100	0	52	38	15	15	30	1.88
705889--705967	20	3.7	20	78	15	77	44	13	15	26	1.84
707982--708012	15	2.1	15	93	0	53	12	22	16	48	1.80
709818--709862	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720602--720675	21	3.6	20	75	14	71	32	16	12	39	1.85
722466--722521	20	2.8	20	94	0	94	42	10	14	32	1.80
726979--727032	20	2.7	20	85	5	74	37	16	11	35	1.84
727060--727117	19	3.1	18	85	11	80	31	15	17	36	1.91
727101--727127	13	2.1	13	100	0	54	40	14	14	29	1.86
727082--727146	32	2.0	32	90	3	103	40	15	15	29	1.88
728262--728287	13	2.0	13	100	0	52	38	15	15	30	1.88
728244--728305	31	2.0	32	87	9	92	38	16	16	29	1.90
730499--730543	21	2.1	21	84	8	56	53	4	20	22	1.63
734385--734464	20	3.8	20	75	15	79	26	15	15	43	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16