genome.fa.s321.2.7.7.80.10.50.1000.2.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: Scaffold321
Parameters: 2 7 7 80 10 50 1000
Length:  1060354

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 625 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)
179584--179709	66	1.9	66	91	3	211	36	0	3	58	1.22
179853--179882	2	15.0	2	100	0	60	50	0	0	50	1.00
180131--180222	28	3.4	27	71	16	73	51	0	0	48	1.00
181562--181716	77	2.0	77	100	0	310	25	21	30	21	1.99
183905--184150	63	3.9	62	81	3	237	40	15	20	23	1.90
186230--186272	18	2.5	17	88	3	59	65	0	0	34	0.93
186253--186292	14	3.1	13	86	10	55	52	0	0	47	1.00
187080--187105	2	13.0	2	100	0	52	50	0	0	50	1.00
189691--189762	26	2.7	28	74	6	78	50	0	1	48	1.09
191421--191455	3	11.7	3	100	0	70	68	0	0	31	0.90
191902--191940	2	19.5	2	100	0	78	51	48	0	0	1.00
194880--194914	5	6.8	5	87	6	52	82	2	0	14	0.77
196645--196669	4	6.2	4	100	0	50	28	0	48	24	1.52
197110--197180	17	4.4	16	73	18	58	46	0	0	53	1.00
197110--197144	16	2.2	16	89	0	52	42	0	0	57	0.99
201287--201351	18	3.6	17	73	20	53	55	1	0	43	1.09
201287--201376	35	2.6	36	81	18	120	53	2	0	44	1.13
201287--201379	36	2.7	37	78	18	110	52	2	0	45	1.12
201637--201662	2	13.0	2	100	0	52	0	50	0	50	1.00
203503--203550	19	2.6	18	83	6	60	10	18	6	64	1.45
205499--205545	16	3.1	16	80	17	55	40	0	2	57	1.11
205915--205955	15	2.5	17	88	11	59	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
207117--207154	20	1.9	20	84	10	51	60	0	2	36	1.11
207558--207740	34	5.4	34	86	0	251	25	7	26	40	1.82
212152--212336	34	5.5	34	88	0	264	25	7	26	40	1.82
213148--213184	2	19.0	2	94	5	67	51	0	0	48	1.00
215301--215350	13	3.9	13	86	2	57	56	0	2	42	1.11
215307--215358	15	2.9	19	72	24	58	55	0	0	44	0.99
215319--215377	24	2.6	23	84	12	70	61	0	1	37	1.07
216117--216261	15	9.7	15	75	0	83	13	59	8	18	1.59
216146--216258	30	3.8	30	79	0	127	14	59	7	18	1.59
216119--216265	45	3.3	45	82	0	177	12	58	9	19	1.61
232949--232985	2	19.0	2	94	5	67	51	0	0	48	1.00
237119--237155	2	18.5	2	94	0	65	48	0	0	51	1.00
242440--242487	14	3.6	14	73	23	50	45	0	0	54	0.99
242421--242492	24	3.0	23	72	8	63	45	0	0	54	0.99
244393--244444	16	3.4	16	84	7	72	44	0	0	55	0.99
245749--245818	20	3.5	19	78	7	68	52	2	0	44	1.15
245767--245819	21	2.6	20	78	18	56	52	1	0	45	1.11
246355--246404	21	2.4	21	86	6	66	26	20	6	48	1.72
246681--246748	2	34.5	2	76	8	59	44	1	7	47	1.40
246706--246747	21	2.0	21	85	0	57	47	2	4	45	1.36
250903--250965	14	4.8	13	74	20	51	31	0	3	65	1.09
250939--251021	25	3.3	25	69	14	62	43	2	1	53	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
250988--251071	28	2.9	29	77	10	82	41	1	1	55	1.15
252829--252856	2	14.0	2	100	0	56	50	0	0	50	1.00
260733--260777	2	22.5	2	100	0	90	51	0	48	0	1.00
262887--262928	17	2.4	17	80	15	50	57	0	0	42	0.99
264790--264831	17	2.4	17	80	15	50	57	0	0	42	0.99
269137--269175	20	2.0	20	85	10	53	51	5	7	35	1.53
277503--277533	6	5.2	6	96	0	53	35	19	29	16	1.93
279636--280074	222	2.0	221	95	0	797	38	20	16	24	1.93
283756--283796	19	2.2	20	82	8	50	68	0	4	26	1.10
283782--283822	21	2.0	21	85	4	57	60	4	2	31	1.30
291042--291100	24	2.5	24	79	17	61	44	1	6	47	1.39
300530--300570	16	2.7	16	85	7	50	51	0	0	48	1.00
304413--304446	17	2.0	17	94	0	59	50	0	0	50	1.00
304416--304453	18	2.1	19	85	5	51	52	0	0	47	1.00
304420--304483	14	4.7	14	73	5	51	43	1	0	54	1.09
304424--304482	27	2.1	28	84	3	75	40	1	0	57	1.09
308679--308704	13	2.0	13	100	0	52	38	7	15	38	1.76
310799--310857	25	2.4	25	100	0	118	11	22	5	61	1.50
312257--312330	23	3.1	24	77	11	82	50	0	1	48	1.09
314817--314852	17	2.1	17	89	0	54	50	0	2	47	1.15
323043--323068	4	6.5	4	100	0	52	76	0	0	23	0.78
324713--324756	20	2.2	20	95	0	79	50	2	4	43	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326454--326487	6	5.8	6	93	6	61	14	0	0	85	0.60
326445--326490	18	2.6	18	86	6	67	13	2	0	84	0.71
327017--327085	20	3.3	20	86	10	77	68	0	1	30	0.99
327017--327096	20	4.1	20	76	10	76	66	0	1	32	1.00
327223--327252	8	3.8	8	90	0	51	13	0	0	86	0.57
332589--332627	11	3.6	11	82	6	53	35	0	0	64	0.94
332589--332627	16	2.5	15	83	8	51	35	0	0	64	0.94
333288--333354	22	2.9	23	82	6	73	38	0	0	61	0.96
333312--333354	20	2.0	21	86	8	61	37	0	0	62	0.95
334556--334596	15	2.6	16	78	17	50	53	0	0	46	1.00
334659--334727	22	3.0	23	70	22	54	47	0	0	52	1.00
337177--337223	24	2.0	24	86	0	67	21	6	55	17	1.64
337204--337255	21	2.5	21	90	0	77	26	5	50	17	1.69
338560--338665	53	2.0	53	92	0	176	42	16	23	17	1.88
339344--339368	13	1.9	13	100	0	50	80	0	0	20	0.72
340108--340165	28	2.1	28	81	12	68	58	0	3	37	1.15
341572--341598	2	13.5	2	100	0	54	51	0	0	48	1.00
344728--344766	2	19.5	2	94	0	69	48	2	0	48	1.15
351569--351935	200	1.8	200	100	0	734	40	15	18	25	1.90
353167--353244	34	2.3	35	80	15	99	47	0	0	52	1.00
353180--353243	33	1.9	34	87	9	96	48	0	0	51	1.00
353211--353255	18	2.4	19	88	3	65	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356878--356910	10	3.1	11	86	8	50	42	0	0	57	0.98
357200--357253	22	2.3	24	73	17	60	51	0	0	48	1.00
365272--365366	1	95.0	1	74	0	64	85	5	9	0	0.74
365271--365366	21	4.5	21	74	22	85	84	5	10	0	0.77
365272--365365	38	2.5	37	92	3	152	85	5	9	0	0.75
365272--365366	30	3.1	29	85	7	109	85	5	9	0	0.74
365270--365366	31	3.0	31	80	13	115	83	5	11	0	0.79
365272--365363	27	3.2	27	78	18	80	84	5	9	0	0.76
367710--367788	37	2.1	37	80	0	86	36	7	13	41	1.74
372451--372528	37	2.1	37	85	0	102	25	23	24	26	2.00
377747--377772	2	13.0	2	100	0	52	50	0	0	50	1.00
378108--378151	22	1.9	24	90	9	74	22	6	2	68	1.25
381022--381106	31	2.7	31	88	1	116	31	7	4	56	1.47
381687--381721	18	1.9	18	88	0	52	45	0	0	54	0.99
383045--383083	20	2.0	20	85	10	53	71	0	12	15	1.14
393159--393203	22	2.0	24	86	8	67	22	6	0	71	1.09
395184--395214	2	15.5	2	100	0	62	0	51	0	48	1.00
399413--399441	13	2.2	13	100	0	58	41	0	0	58	0.98
402210--402242	2	16.5	2	100	0	66	0	0	48	51	1.00
402244--402278	2	17.5	2	87	0	52	45	2	2	48	1.32
402783--402843	24	2.5	24	92	5	97	29	19	14	36	1.92
413325--413372	15	3.3	15	77	11	64	31	25	8	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413316--413372	28	2.0	28	100	0	114	28	26	7	38	1.82
417939--417971	2	16.5	2	93	0	57	48	0	51	0	1.00
419685--419738	30	1.9	27	82	14	65	48	0	0	51	1.00
419674--419719	19	2.4	19	81	3	56	47	0	2	50	1.13
419690--419749	29	2.0	30	80	3	68	55	0	0	45	0.99
419799--419850	11	4.6	11	75	13	52	53	0	0	46	1.00
419804--419839	18	2.0	18	88	0	54	55	0	0	44	0.99
430282--430315	2	17.0	2	100	0	68	50	0	0	50	1.00
430400--430451	27	2.0	26	85	7	70	51	1	5	40	1.37
431237--431318	41	2.0	42	85	2	112	56	0	2	41	1.13

Tables:   1   2   3   4   5   6