genome.fa.s7.2.7.7.80.10.50.1000.22.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   

This is table  22  of  37  ( 4421 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)
3846682--3846757	38	2.0	37	90	7	118	34	18	18	28	1.95
3846729--3846837	31	3.5	31	84	2	148	33	22	14	28	1.94
3849906--3849972	21	3.5	20	78	10	68	34	0	1	64	1.03
3849906--3849972	10	6.9	10	76	21	54	34	0	1	64	1.03
3850826--3850867	14	3.1	14	82	3	50	38	2	0	59	1.10
3853291--3853344	20	2.7	20	91	0	81	35	16	14	33	1.90
3853373--3853424	19	2.7	20	90	3	79	34	19	15	30	1.93
3853394--3853444	20	2.6	20	84	9	61	43	17	13	25	1.86
3855769--3855818	21	2.4	21	83	9	59	48	0	20	32	1.50
3855776--3855818	21	2.0	22	86	4	61	51	0	20	27	1.48
3862203--3862260	19	3.0	20	77	7	66	32	15	15	36	1.89
3863684--3863828	59	2.5	58	83	7	168	27	12	13	46	1.80
3864074--3864109	18	2.0	18	94	0	63	41	16	19	22	1.90
3864092--3864399	75	4.1	76	75	11	242	35	13	17	34	1.89
3864092--3864371	151	1.8	152	82	8	365	34	13	17	33	1.90
3866012--3866291	79	3.6	78	81	6	325	38	9	22	29	1.85
3866540--3866993	228	2.0	228	98	0	872	35	14	18	31	1.91
3868859--3868893	11	3.3	11	92	4	54	85	0	8	5	0.73
3868853--3868886	10	3.5	10	96	4	61	85	0	5	8	0.75
3873289--3873431	45	3.1	45	82	11	189	53	20	5	19	1.65
3873298--3873402	50	2.1	51	94	1	185	56	19	4	20	1.60
3877293--3877346	20	2.7	20	88	5	74	37	16	12	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3877375--3877468	19	4.8	20	84	5	129	37	18	13	30	1.90
3877375--3877468	39	2.4	39	98	0	179	37	18	13	30	1.90
3877454--3877480	13	2.1	13	100	0	54	40	14	14	29	1.86
3878078--3878136	25	2.4	25	100	0	118	42	10	5	42	1.60
3886151--3886190	20	2.0	20	95	0	71	35	20	12	32	1.90
3886149--3886214	33	2.0	33	90	0	105	36	21	13	28	1.91
3886175--3886201	13	2.1	13	100	0	54	40	22	14	22	1.90
3886143--3886214	20	4.1	19	69	27	61	37	20	13	27	1.91
3886246--3886321	20	3.8	20	83	13	102	34	18	15	31	1.92
3886333--3886494	71	2.3	71	96	0	297	30	15	19	34	1.93
3902889--3902962	11	6.6	11	82	13	89	85	12	0	2	0.71
3902891--3902956	18	3.8	17	82	7	87	86	10	0	3	0.68
3902892--3902962	20	3.4	21	84	3	90	85	11	0	2	0.69
3902889--3902962	33	2.3	31	88	9	105	85	12	0	2	0.71
3902891--3902962	35	2.1	35	87	7	103	86	11	0	2	0.68
3902891--3902950	1	60.0	1	76	0	57	88	8	0	3	0.62
3904392--3904555	28	5.8	28	85	2	184	33	26	19	20	1.97
3904551--3904860	33	9.3	33	78	7	304	20	30	12	37	1.89
3904551--3904860	100	3.1	99	80	6	347	20	30	12	37	1.89
3904851--3905262	43	9.2	43	75	15	302	26	25	17	29	1.98
3904857--3905643	49	16.9	49	74	12	568	26	25	17	30	1.97
3905094--3905258	39	4.0	39	77	13	159	27	24	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3904905--3905175	138	1.9	140	88	3	411	27	26	16	29	1.97
3905051--3905308	87	3.0	87	90	0	390	27	26	18	27	1.98
3904857--3905643	238	3.4	229	82	6	910	26	25	17	30	1.97
3911045--3911098	19	2.8	20	82	5	74	35	16	16	31	1.92
3911084--3911109	13	2.0	13	100	0	52	38	15	15	30	1.88
3912614--3912733	45	2.7	43	74	2	105	40	18	19	21	1.91
3912702--3912867	45	3.7	45	75	7	149	38	15	23	22	1.92
3912703--3912893	89	2.1	89	85	1	267	38	15	24	21	1.92
3912698--3912934	45	5.3	44	72	10	142	39	14	23	22	1.91
3912862--3913496	47	13.6	47	77	4	386	41	15	20	22	1.90
3912907--3913496	94	6.3	93	78	4	443	41	15	20	22	1.89
3912920--3913496	141	4.1	141	80	3	565	41	15	20	22	1.89
3914627--3914694	17	4.1	16	75	9	64	0	5	10	83	0.79
3914610--3914690	43	1.9	43	87	2	119	0	11	7	81	0.87
3915656--3915681	13	2.0	13	100	0	52	38	15	15	30	1.88
3915638--3915701	32	2.0	33	87	3	94	40	17	14	28	1.88
3921854--3922004	73	2.0	75	84	2	198	38	20	14	26	1.91
3922365--3923301	141	6.6	142	85	2	1107	44	10	10	34	1.73
3924560--3924645	19	4.8	18	70	25	65	36	13	15	34	1.87
3924584--3924651	32	2.1	32	94	0	118	35	13	14	36	1.85
3924697--3924724	13	2.2	13	100	0	56	28	14	17	39	1.89
3928258--3928845	167	3.5	161	79	8	547	47	7	11	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928305--3928772	165	2.8	165	81	8	495	47	7	11	33	1.68
3938267--3938313	24	2.0	24	86	0	67	65	2	19	12	1.35
3938287--3938318	16	2.0	16	93	0	55	71	0	15	12	1.14
3939354--3939619	141	1.9	141	82	5	331	37	10	8	43	1.70
3941399--3941429	13	2.4	13	94	0	53	35	12	16	35	1.87
3941378--3941442	33	2.0	33	87	6	96	35	16	13	33	1.89
3941514--3941572	13	5.0	13	73	23	67	40	15	15	28	1.87
3941495--3941572	33	2.4	32	91	6	122	41	15	15	28	1.87
3942100--3942179	22	3.5	22	81	6	97	30	31	2	36	1.71
3942101--3942160	24	2.6	22	89	5	84	33	30	1	35	1.68
3948703--3948727	13	1.9	13	100	0	50	36	16	16	32	1.90
3948683--3948749	33	2.0	33	88	0	98	32	11	14	40	1.83
3948790--3948814	13	1.9	13	100	0	50	32	16	16	36	1.90
3948803--3948951	52	2.9	51	91	4	244	32	19	17	30	1.95
3956589--3956613	13	1.9	13	100	0	50	32	16	20	32	1.94
3959005--3959029	13	1.9	13	100	0	50	32	16	16	36	1.90
3959098--3959161	32	2.0	33	90	9	105	34	18	15	31	1.93
3962559--3962604	21	2.2	21	84	7	58	30	21	19	28	1.98
3964920--3965088	51	3.3	51	75	3	162	31	23	11	33	1.91
3965024--3965244	79	2.8	79	89	1	318	29	23	13	33	1.93
3967647--3967701	19	2.8	19	86	2	74	36	18	16	29	1.92
3967686--3967712	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3969376--3969466	20	4.6	19	79	8	85	30	17	14	37	1.90
3969376--3969467	39	2.3	40	83	9	109	30	17	15	36	1.91
3970519--3970587	33	2.1	33	86	5	95	30	11	18	39	1.87
3976690--3976737	21	2.4	19	80	13	51	41	20	0	37	1.53
3978145--3978175	15	2.1	15	93	0	53	25	9	32	32	1.88
3979121--3979180	13	5.1	13	67	22	51	33	13	16	36	1.88
3979102--3979180	33	2.4	34	81	10	92	31	13	16	37	1.88
3979121--3979201	33	2.5	33	87	4	110	35	12	17	34	1.87
3984816--3984930	50	2.3	51	86	6	162	43	11	14	30	1.81
3985497--3985535	20	2.0	20	94	0	69	48	5	12	33	1.63
3989166--3989210	12	3.9	12	77	19	51	77	0	15	6	0.96
3991639--3992017	155	2.4	153	81	5	413	41	20	15	23	1.90
3993462--3993487	13	2.0	13	100	0	52	30	15	15	38	1.88
3993547--3993619	20	3.6	20	81	3	92	32	19	12	35	1.89
3993526--3993619	41	2.3	41	94	0	161	31	18	11	38	1.86
3993526--3993601	21	3.7	21	78	3	91	31	17	10	40	1.83
3994180--3994381	100	2.0	100	100	0	404	28	28	5	37	1.80
3996162--3996200	13	3.0	13	96	0	69	35	15	17	30	1.91
3996186--3996264	20	3.7	20	75	18	70	45	15	13	25	1.83
3998277--3998307	15	2.1	15	93	0	53	12	22	16	48	1.80
4000111--4000155	21	2.1	21	84	8	56	22	20	4	53	1.63
4002355--4002380	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4002441--4002513	20	3.6	20	81	3	101	31	19	13	35	1.91
4002419--4002513	41	2.3	42	94	1	165	30	17	12	38	1.87
4004094--4004547	168	2.7	166	83	8	546	47	9	10	32	1.71
4004425--4004689	131	2.0	132	90	6	423	47	12	7	32	1.68
4004718--4005175	165	2.8	167	79	6	466	50	10	9	29	1.68
4006736--4006805	33	2.1	33	89	0	104	34	11	14	40	1.82
4006756--4006780	13	1.9	13	100	0	50	36	16	16	32	1.90
4006845--4006869	13	1.9	13	100	0	50	32	16	16	36	1.90
4006878--4007006	52	2.5	52	91	2	206	36	17	15	30	1.91
4010081--4010195	59	1.9	59	84	5	151	33	20	21	23	1.97

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37