genome.fa.s7.2.7.7.80.10.50.1000.10.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   

This is table  10  of  79  ( 9388 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)
3449103--3449210	51	2.1	51	89	0	162	28	18	23	29	1.98
3449943--3449967	6	4.2	6	100	0	50	84	0	0	16	0.63
3455917--3456163	124	2.0	123	92	0	413	40	9	19	31	1.83
3456223--3456250	2	14.0	2	100	0	56	50	0	0	50	1.00
3458179--3458225	22	2.1	22	96	0	85	44	27	14	12	1.82
3466962--3467007	10	4.5	10	80	20	51	67	0	0	32	0.91
3467002--3468250	623	2.0	625	99	0	2484	35	15	15	34	1.89
3472935--3472982	18	2.7	18	87	6	62	18	27	6	47	1.72
3475225--3475289	31	2.1	31	88	5	96	36	12	3	47	1.57
3475988--3476034	22	2.0	23	88	8	69	17	12	10	59	1.60
3476058--3476130	20	3.6	20	72	9	58	20	17	9	52	1.73
3476536--3476848	115	2.9	107	85	7	457	35	19	15	29	1.93
3476733--3476757	8	3.1	8	100	0	50	52	0	0	48	1.00
3478890--3478931	18	2.3	18	84	8	50	11	7	19	61	1.52
3478909--3478957	22	2.2	22	82	7	55	6	12	12	69	1.35
3479019--3479076	20	2.9	19	80	10	62	18	17	10	53	1.71
3479194--3479233	20	2.0	21	90	5	64	15	30	15	40	1.87
3480717--3480754	14	2.6	15	83	8	51	63	2	0	34	1.09
3483383--3483435	25	2.2	25	86	3	72	24	0	7	67	1.16
3484084--3484141	29	2.0	29	86	6	82	41	8	6	43	1.62
3493949--3494007	31	1.9	31	85	0	82	35	10	10	44	1.72
3506768--3507227	229	2.0	230	99	0	904	35	13	13	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3510805--3511215	228	1.8	228	81	3	513	28	23	19	28	1.98
3511557--3511597	13	3.1	14	86	6	50	21	7	24	46	1.77
3511711--3511737	8	3.4	8	100	0	54	0	0	51	48	1.00
3511755--3511831	21	3.7	21	73	3	66	16	0	38	44	1.48
3511982--3512020	15	2.5	16	84	16	55	61	0	2	35	1.10
3512251--3512306	16	3.5	16	80	7	69	66	3	7	23	1.33
3515027--3515078	18	2.9	18	76	20	56	67	1	0	30	1.02
3515196--3515943	373	2.0	374	99	0	1489	41	7	11	39	1.69
3515984--3516021	19	2.0	20	84	5	51	47	2	0	50	1.15
3517796--3517835	14	2.9	15	85	10	50	47	12	2	37	1.55
3518110--3518147	19	2.1	18	85	9	51	65	0	2	31	1.06
3518137--3518168	7	4.6	7	96	0	55	62	9	0	28	1.26
3518137--3518184	14	3.6	14	86	5	64	68	6	0	25	1.12
3527251--3527345	21	4.5	21	72	5	75	13	24	18	43	1.87
3527251--3527371	42	2.9	42	79	7	120	14	23	18	43	1.87
3530458--3530547	10	9.8	9	71	21	62	62	3	1	33	1.19
3530449--3530512	19	3.4	19	71	18	53	65	1	1	31	1.11
3531043--3531078	14	2.5	14	90	4	54	69	0	0	30	0.89
3531182--3531260	9	8.4	9	75	17	63	34	5	0	60	1.18
3531182--3531245	17	3.4	19	78	16	62	34	6	0	59	1.23
3531197--3531246	21	2.5	21	84	9	70	34	8	0	58	1.28
3531193--3531260	19	3.6	18	73	24	52	33	5	0	60	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531180--3531293	9	11.7	10	69	13	53	35	3	3	57	1.33
3531367--3531412	20	2.3	20	88	0	65	28	4	10	56	1.53
3531354--3531570	105	2.1	106	98	0	418	35	3	7	52	1.48
3531472--3531517	20	2.3	20	85	7	58	28	4	8	58	1.47
3531501--3531578	40	1.9	41	82	15	99	42	3	6	47	1.47
3546163--3546199	15	2.5	15	83	16	58	72	2	5	18	1.15
3548633--3548730	51	1.9	50	83	2	124	34	1	5	59	1.26
3554411--3554460	26	2.0	25	84	4	64	26	4	6	64	1.35
3554516--3554564	21	2.5	20	83	9	64	69	2	4	24	1.17
3559429--3559460	15	2.2	15	94	5	57	65	0	3	31	1.08
3562660--3562911	30	8.4	30	76	7	201	24	26	12	36	1.91
3572964--3573026	26	2.4	26	97	0	117	23	20	28	26	1.99
3576306--3576357	26	1.9	28	84	7	72	75	9	9	5	1.20
3587345--3587449	42	2.5	42	90	1	156	14	26	19	40	1.89
3587347--3587414	21	3.2	21	70	4	73	16	30	17	35	1.92
3592395--3592435	21	2.0	21	100	0	82	24	29	19	26	1.98
3594561--3594619	31	1.9	31	92	0	100	35	6	13	44	1.71
3608231--3608298	33	2.1	33	97	0	127	20	16	19	44	1.87
3610227--3610276	26	1.9	26	84	8	66	50	14	12	24	1.76
3611410--3611442	5	6.6	5	100	0	66	63	0	0	36	0.95
3611466--3611506	7	5.9	7	94	0	73	46	26	0	26	1.53
3612676--3612716	3	13.7	3	94	0	73	65	0	31	2	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3615692--3615749	16	3.8	16	73	13	59	50	0	3	46	1.18
3615692--3615727	17	2.2	17	90	5	56	47	0	5	47	1.25
3615946--3616023	31	2.5	31	95	2	138	52	8	10	28	1.65
3617431--3617473	22	2.0	22	86	13	63	39	2	25	32	1.69
3618152--3618752	300	2.0	301	99	0	1195	33	10	12	43	1.77
3618637--3618794	79	2.0	80	80	3	176	34	7	10	46	1.67
3624060--3624099	5	8.2	5	86	2	55	17	2	2	77	0.99
3631484--3631521	17	2.2	17	90	0	58	73	0	13	13	1.09
3632765--3632952	88	2.1	88	86	0	259	28	21	24	25	1.99
3633021--3633561	50	10.9	50	69	3	275	29	21	23	26	1.99
3632977--3633577	100	6.0	100	86	1	780	29	21	23	25	1.99
3632977--3633577	199	3.0	199	88	2	834	29	21	23	25	1.99
3636503--3636549	19	2.6	19	83	12	55	42	4	6	46	1.48
3640025--3640070	3	15.3	3	100	0	92	32	0	0	67	0.91
3643293--3643321	14	2.0	15	93	6	51	41	6	3	48	1.47
3646554--3646613	29	2.1	29	100	0	120	25	6	26	41	1.80
3656804--3656982	50	3.6	50	87	0	241	21	29	21	27	1.99
3658764--3658803	16	2.5	15	84	11	53	47	2	30	20	1.63
3659730--3659764	18	1.9	18	88	0	52	51	5	0	42	1.25
3663889--3663939	24	2.1	24	100	0	102	39	11	19	29	1.87
3672394--3672531	40	3.5	40	76	6	120	30	21	18	28	1.97
3673350--3673404	6	9.0	6	75	18	51	1	29	0	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3673350--3673399	22	2.3	21	86	3	64	0	30	0	70	0.88
3673364--3673428	10	6.2	10	72	22	53	4	21	3	70	1.19
3673371--3673443	12	6.1	12	73	17	55	4	19	5	71	1.22
3673413--3673449	13	2.8	13	92	8	58	0	13	10	75	1.04
3673467--3673532	7	8.4	8	73	18	50	51	0	3	45	1.16
3692886--3692940	15	3.7	15	80	4	67	32	16	1	49	1.56
3692899--3692944	14	3.2	14	75	6	56	32	17	2	47	1.60
3692886--3692944	29	2.0	29	96	0	109	32	16	1	49	1.56
3695910--3695967	30	1.9	30	89	0	89	50	1	34	13	1.52
3695966--3696000	3	11.7	3	100	0	70	34	0	65	0	0.93
3696932--3696989	27	2.1	27	87	0	80	10	22	36	31	1.88
3700703--3700735	14	2.4	14	94	0	57	69	0	0	30	0.88
3709522--3709548	13	2.1	13	100	0	54	81	18	0	0	0.69
3711118--3711175	29	2.0	30	82	3	73	29	17	3	50	1.62
3711684--3711710	14	1.9	14	100	0	54	62	0	0	37	0.95
3714706--3714755	16	3.2	16	83	8	68	34	0	0	66	0.92
3714706--3714755	15	3.3	15	81	13	57	34	0	0	66	0.92
3724573--3724601	11	2.5	12	88	11	51	37	0	0	62	0.96
3724742--3724786	21	2.2	20	84	4	54	60	2	4	33	1.29
3725929--3725970	2	21.0	2	95	0	75	0	47	2	50	1.14
3730543--3730622	33	2.5	31	73	18	76	50	2	0	47	1.14
3733515--3733567	10	4.9	11	77	13	56	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3733506--3733567	32	2.0	31	87	9	90	37	1	0	61	1.06
3736649--3736721	26	2.9	26	78	8	80	17	27	20	34	1.95
3743091--3743178	41	2.2	41	95	2	160	32	6	11	48	1.65
3744331--3744364	16	2.1	16	88	0	50	2	17	0	79	0.86
3748658--3748700	19	2.2	20	80	12	54	32	16	0	51	1.45
3748827--3748959	38	3.5	37	77	9	106	29	26	20	24	1.99
3750119--3750175	29	2.0	29	89	6	89	52	3	0	43	1.18
3750124--3750184	29	2.1	30	84	9	81	55	3	0	40	1.16
3750129--3750200	37	1.9	37	86	5	101	56	1	0	41	1.07
3750117--3750212	32	2.9	33	80	6	97	54	4	0	41	1.20

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79