genome.fa.s52.2.7.7.80.10.50.1000.4.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: Scaffold52
Parameters: 2 7 7 80 10 50 1000
Length:  1774672

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1067 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)
723947--723984	20	1.9	20	89	10	60	57	2	0	39	1.12
723955--724057	32	3.3	32	76	11	106	58	0	0	40	1.05
724106--724181	31	2.5	29	74	25	77	52	2	0	44	1.14
724417--724465	2	24.5	2	87	0	71	53	0	0	46	1.00
724673--724769	40	2.5	41	77	19	116	52	0	1	46	1.07
726191--726223	12	2.8	12	90	0	57	0	30	0	69	0.88
729486--729515	15	1.9	16	93	6	53	50	0	0	50	1.00
730231--730909	63	10.7	63	84	5	695	27	22	25	25	2.00
731807--731861	17	3.4	17	72	25	55	60	1	0	38	1.08
733298--733349	22	2.3	23	74	9	54	46	0	1	51	1.12
735907--735934	14	2.0	14	100	0	56	21	28	7	42	1.79
737326--737372	16	2.9	17	75	9	53	85	8	6	0	0.75
741592--741775	63	2.8	65	90	4	300	44	17	13	24	1.85
744991--745028	19	2.0	19	85	10	51	23	0	2	73	0.95
745213--745250	2	19.0	2	100	0	76	50	0	0	50	1.00
746016--746049	3	11.3	3	93	0	59	35	0	0	64	0.94
747456--747482	2	13.5	2	100	0	54	51	0	0	48	1.00
751744--751784	15	3.0	14	83	13	50	51	0	0	48	1.00
751878--751929	27	1.9	27	92	0	86	44	9	1	44	1.48
752723--752779	6	10.0	6	76	14	50	36	0	0	63	0.95
752732--752779	22	2.2	21	85	3	60	37	0	0	62	0.95
753203--753393	98	2.0	98	88	3	289	23	12	7	56	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
754412--754462	25	2.0	25	100	0	102	39	21	7	31	1.82
761539--761599	16	3.4	18	80	20	67	49	0	0	50	1.00
761542--761600	19	3.3	18	78	19	61	49	0	0	50	1.00
761547--761594	20	2.5	21	87	12	68	56	0	0	43	0.99
761608--761641	16	2.0	18	88	11	54	44	0	5	50	1.26
761670--761710	20	2.1	19	86	4	55	43	0	2	53	1.13
762519--762558	2	20.0	2	89	0	53	42	0	2	55	1.13
764087--764132	16	2.8	17	79	20	53	47	2	0	50	1.13
764206--764270	3	20.3	3	87	9	67	43	0	0	56	0.99
764206--764270	16	4.2	16	77	16	75	43	0	0	56	0.99
769359--769427	33	2.1	33	84	10	88	40	5	17	36	1.74
771000--771047	20	2.3	21	85	3	62	52	0	0	47	1.00
771014--771056	21	2.1	20	82	4	50	51	0	0	48	1.00
773199--773243	15	2.8	17	71	21	51	44	2	0	53	1.13
779806--779836	2	16.0	2	93	6	55	48	0	51	0	1.00
785672--785704	16	2.1	16	100	0	66	12	33	12	42	1.79
785855--786194	146	2.3	148	82	9	403	27	13	24	34	1.93
787018--787090	36	2.0	36	100	0	146	35	12	24	27	1.91
792153--792248	44	2.2	44	94	1	165	11	9	9	69	1.36
792538--792626	16	5.3	17	67	23	55	56	0	0	43	0.99
792576--792627	17	3.1	17	75	10	52	61	0	0	38	0.96
793388--793426	3	13.0	3	100	0	78	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
795219--795248	3	10.0	3	100	0	60	33	0	0	66	0.92
795756--795785	15	2.1	14	93	6	51	53	0	0	46	1.00
796227--796267	22	1.9	21	85	14	57	58	2	0	39	1.11
801182--801320	71	2.0	71	97	0	260	35	10	23	30	1.88
802785--802941	2	79.0	2	76	1	136	42	4	7	45	1.52
806871--806905	17	2.1	17	88	0	52	37	0	8	54	1.31
808748--808802	15	3.7	15	68	22	53	40	10	14	34	1.81
812402--812474	27	2.6	28	77	18	80	50	0	2	46	1.15
812431--812498	30	2.3	29	82	7	82	48	0	1	50	1.10
812996--813085	35	2.5	36	74	13	87	52	1	1	45	1.15
813249--813303	14	3.8	15	88	7	69	45	3	0	50	1.19
813264--813303	2	20.0	2	85	10	55	47	2	0	50	1.14
815096--815122	2	13.5	2	100	0	54	48	0	0	51	1.00
815436--815998	241	2.3	244	84	5	699	39	18	11	30	1.86
818617--818664	20	2.4	20	82	0	60	39	2	0	58	1.10
821971--822014	22	2.0	21	86	4	61	63	0	0	36	0.95
822057--822093	12	3.0	13	84	11	51	40	2	0	56	1.13
822539--822581	14	3.1	15	80	12	56	39	2	0	58	1.11
822810--822889	15	5.5	14	73	12	54	70	2	1	26	1.08
822845--822893	16	3.1	16	80	13	57	73	0	2	24	0.94
823031--823070	16	2.5	16	95	0	71	65	5	5	25	1.34
832126--832167	17	2.5	17	80	11	50	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
833913--833971	19	3.1	19	83	9	66	55	0	1	42	1.09
833884--833982	9	11.0	9	69	16	62	59	1	1	38	1.11
842073--842104	16	1.9	17	93	6	57	21	6	0	71	1.07
845476--845500	13	1.9	13	100	0	50	52	0	0	48	1.00
846594--846633	20	2.1	19	90	4	62	50	0	0	50	1.00
847574--847615	22	1.9	22	90	0	66	64	0	0	35	0.94
848165--848196	2	16.0	2	100	0	64	50	0	0	50	1.00
848518--848582	33	2.0	33	90	0	103	52	3	18	26	1.60
903794--903827	2	17.0	2	93	0	59	47	0	2	50	1.16
905623--905650	13	2.2	13	100	0	56	42	0	0	57	0.99
905642--905667	11	2.4	11	100	0	52	53	0	0	46	1.00
907311--907344	17	2.0	17	88	0	50	32	8	14	44	1.76
909372--909440	12	5.8	12	71	21	56	36	1	0	62	1.04
909771--909835	18	3.8	17	74	11	53	36	1	1	60	1.16
909949--909985	16	2.3	16	95	0	65	27	0	2	70	1.01
919432--919456	2	12.5	2	100	0	50	52	0	0	48	1.00
919553--919579	13	2.1	13	100	0	54	44	0	0	55	0.99
920462--920493	4	8.0	4	100	0	64	75	0	0	25	0.81
920963--921064	47	2.2	47	78	5	107	47	2	1	48	1.28
921691--921737	12	4.0	12	77	5	60	53	0	0	46	1.00
921692--921740	23	2.1	24	88	3	73	55	0	0	44	0.99
922180--922214	2	17.5	2	100	0	70	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)
929772--929828	26	2.2	26	84	12	73	42	3	0	54	1.17
929849--929923	17	4.7	16	72	21	50	29	5	0	65	1.15
930329--930401	25	2.9	25	82	8	78	46	0	0	53	1.00
930326--930371	20	2.5	19	83	13	53	45	0	0	54	0.99
930329--930404	27	2.9	26	81	15	77	46	0	0	53	1.00
931665--931781	34	3.5	34	89	1	173	40	26	6	26	1.81
936190--936305	34	3.4	34	89	1	171	40	26	6	25	1.81
939698--939731	15	2.3	15	89	0	50	17	0	0	82	0.67
939727--939814	45	1.9	47	86	4	126	45	0	1	53	1.07
939762--939827	33	2.0	34	82	8	82	48	0	1	50	1.10
940024--940070	14	3.4	14	76	2	51	57	4	0	38	1.18
940239--940297	18	3.2	19	75	17	61	49	1	0	49	1.11
940586--940686	8	11.5	8	72	21	53	34	0	1	63	1.06
940586--940701	19	6.3	19	69	14	64	32	0	1	65	1.03
940586--940680	27	3.6	27	75	17	83	35	0	2	62	1.07
940591--940709	29	4.6	26	73	17	88	31	0	1	66	1.02
940665--940725	22	2.7	22	80	16	72	22	1	1	73	1.01
940927--941005	29	2.7	31	75	16	71	32	1	1	64	1.09
940950--941008	15	4.0	15	72	12	50	35	1	1	61	1.16
941226--941251	2	13.0	2	100	0	52	50	0	0	50	1.00
944210--944298	29	3.0	29	85	11	101	46	1	12	40	1.49
944228--944298	29	2.4	31	92	4	119	46	0	11	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
944474--944779	50	6.1	50	80	4	312	30	15	16	37	1.90
944474--944779	100	3.1	100	84	2	391	30	15	16	37	1.90
944507--944776	150	1.8	150	86	3	400	30	14	17	37	1.89
947444--947480	2	18.5	2	100	0	74	51	0	0	48	1.00
948571--948616	16	2.8	17	75	21	53	30	0	2	67	1.03
948571--948616	11	4.3	11	80	5	58	30	0	2	67	1.03
948878--948905	14	2.0	14	100	0	56	50	0	0	50	1.00
950903--951119	34	6.4	34	83	2	258	26	7	25	40	1.83
950903--951119	102	2.1	101	88	1	317	26	7	25	40	1.83
955530--955748	34	6.5	34	85	2	280	25	7	26	40	1.83

Tables:   1   2   3   4   5   6   7   8   9