genome.fa.s6.2.7.7.80.10.50.1000.106.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  106  of  109  ( 13028 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)
34071351--34071583	109	2.1	107	87	5	324	31	17	18	33	1.94
34078082--34078135	27	2.0	27	88	0	81	25	1	20	51	1.57
34080923--34080967	22	2.0	23	86	4	65	57	6	2	33	1.37
34085615--34085640	3	8.7	3	100	0	52	65	0	0	34	0.93
34093547--34093656	41	2.8	40	89	6	163	60	0	2	35	1.17
34094094--34094123	13	2.2	14	94	5	53	13	0	13	73	1.10
34094503--34094565	32	2.0	32	93	0	108	19	33	39	7	1.80
34097088--34097655	305	1.9	305	87	1	852	38	10	9	40	1.74
34098888--34098917	15	2.0	15	93	0	51	16	0	3	80	0.85
34101595--34101694	47	2.1	48	81	12	116	53	5	3	39	1.38
34105241--34105274	4	8.5	4	100	0	68	76	0	0	23	0.79
34109749--34109938	98	1.9	98	95	0	344	37	23	11	27	1.89
34113540--34113575	14	2.6	14	86	0	54	61	2	0	36	1.11
34118190--34118242	21	2.5	21	81	0	61	30	5	33	30	1.81
34121799--34121831	16	2.1	16	100	0	66	36	12	33	18	1.88
34122293--34122345	27	2.0	27	92	0	88	49	9	11	30	1.70
34126412--34126457	22	2.0	23	87	4	67	52	0	0	47	1.00
34130420--34130468	4	12.2	4	100	0	98	51	24	0	24	1.49
34131324--34131375	15	3.2	15	76	23	52	65	1	0	32	1.04
34131871--34132176	112	2.7	112	78	6	296	32	20	22	25	1.98
34131980--34132346	190	2.0	186	82	3	448	31	19	23	25	1.98
34132171--34132463	113	2.6	114	83	5	344	29	20	24	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34132283--34132646	184	2.0	184	86	2	518	31	18	24	25	1.98
34132171--34132738	297	1.9	300	83	4	738	30	19	23	25	1.98
34132466--34132738	115	2.4	114	81	5	327	31	19	22	26	1.98
34136097--34136341	116	2.1	117	86	0	339	33	18	20	28	1.96
34146131--34146235	9	11.3	9	69	12	61	33	1	3	60	1.25
34146131--34146235	19	5.7	18	68	13	61	33	1	3	60	1.25
34152378--34152421	18	2.4	19	84	3	63	43	15	11	29	1.82
34152712--34152738	13	2.1	13	100	0	54	37	14	0	48	1.45
34163230--34163259	12	2.5	12	94	0	51	66	0	0	33	0.92
34169709--34169756	19	2.4	21	86	13	75	62	0	37	0	0.95
34169709--34169756	20	2.5	18	83	12	60	62	0	37	0	0.95
34171378--34171468	11	8.5	11	69	19	59	24	29	2	43	1.66
34171378--34171423	22	2.0	23	87	4	67	21	28	2	47	1.62
34171378--34171468	22	4.3	21	69	24	66	24	29	2	43	1.66
34171424--34171457	17	1.9	18	88	5	52	29	29	2	38	1.72
34171406--34171489	40	2.1	40	86	4	116	26	26	2	45	1.66
34172636--34172661	7	3.7	7	100	0	52	26	0	15	57	1.38
34173310--34173344	18	1.9	18	94	0	61	28	28	0	42	1.56
34173780--34173874	34	2.9	33	78	17	85	42	6	5	46	1.51
34177567--34177625	28	2.2	27	90	6	93	25	3	0	71	1.02
34179353--34179387	14	2.5	14	95	0	61	34	20	5	40	1.76
34180349--34180467	49	2.5	48	88	1	175	43	10	10	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34188088--34188122	17	2.0	18	94	5	63	17	2	0	80	0.84
34188091--34188678	293	2.0	294	99	0	1169	31	9	12	45	1.75
34189641--34189688	21	2.3	20	80	13	53	20	39	20	18	1.92
34190020--34190116	42	2.3	43	85	1	133	15	34	34	16	1.90
34191049--34191125	33	2.3	32	82	6	91	25	23	18	32	1.97
34191131--34191196	33	2.0	33	96	0	123	24	28	15	31	1.95
34191164--34191401	105	2.3	104	87	5	342	26	22	17	34	1.96
34201350--34201398	21	2.3	21	79	6	55	61	10	18	10	1.55
34204912--34204940	2	15.0	2	92	7	51	51	0	0	48	1.00
34204918--34205157	120	2.0	120	99	0	471	35	21	10	32	1.88
34229539--34229578	21	2.0	20	85	5	53	40	2	0	57	1.12
34229583--34229620	16	2.4	16	86	8	51	26	0	15	57	1.38
34232074--34232113	15	2.9	15	85	10	50	37	15	5	42	1.68
34240792--34240880	44	2.0	45	86	8	128	53	3	4	38	1.38
34240806--34240891	44	1.9	44	88	2	127	54	4	4	36	1.42
34259251--34259336	39	2.2	39	87	0	118	31	19	17	31	1.95
34269551--34269584	3	11.0	3	93	6	59	32	0	0	67	0.91
34269863--34269896	15	2.4	14	90	5	50	38	5	2	52	1.41
34271016--34271553	38	14.2	38	100	0	1076	28	7	13	50	1.69
34272554--34272915	164	2.2	164	100	0	724	44	17	18	18	1.87
34278723--34278768	23	2.0	23	83	8	58	17	13	0	69	1.19
34282306--34282345	16	2.5	16	91	0	62	47	2	7	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34282355--34282534	68	2.9	61	89	8	265	40	5	9	45	1.58
34282418--34282445	9	3.1	9	100	0	56	32	0	10	57	1.33
34282334--34282504	68	2.5	68	97	1	319	39	4	8	47	1.54
34282601--34282644	24	1.9	24	90	9	74	61	2	0	36	1.09
34284571--34284612	18	2.2	20	79	12	52	47	4	0	47	1.23
34284577--34284613	18	2.0	19	89	5	58	40	5	0	54	1.24
34285444--34285490	23	2.1	23	88	4	69	34	0	4	61	1.15
34296367--34296466	42	2.4	42	94	0	173	35	10	28	27	1.89
34299098--34299147	25	2.0	25	84	7	66	54	2	2	42	1.23
34306317--34306364	17	2.9	17	81	3	53	35	2	0	62	1.07
34306327--34306383	28	2.1	28	83	9	73	31	1	0	66	1.02
34319704--34319892	63	2.8	67	81	13	237	44	11	19	24	1.83
34327765--34327976	90	2.4	90	94	0	370	26	14	23	35	1.93
34327734--34327993	135	1.9	135	80	7	305	28	14	22	35	1.93
34327731--34327976	45	5.5	45	80	10	270	26	14	23	34	1.94
34340686--34340771	30	2.9	29	74	8	75	36	8	10	45	1.68
34342540--34342587	15	3.1	16	90	6	80	37	4	37	20	1.72
34342567--34342675	45	2.6	43	80	10	127	34	5	28	31	1.80
34343106--34343166	28	2.2	28	85	5	81	50	3	0	45	1.17
34343006--34343290	93	3.0	94	83	7	276	48	3	3	44	1.35
34343096--34343290	93	2.1	92	89	2	293	46	4	4	45	1.41
34344250--34344296	3	15.7	3	90	0	76	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34349809--34349839	6	5.2	6	100	0	62	64	0	0	35	0.94
34350668--34350753	43	2.0	44	90	2	138	51	9	9	30	1.65
34363518--34363544	13	2.1	13	100	0	54	55	0	0	44	0.99
34376575--34376605	6	5.2	6	92	0	53	29	0	3	67	1.06
34377521--34377552	12	2.7	12	95	0	55	40	9	6	43	1.62
34382638--34382969	165	2.0	166	99	0	657	31	15	12	40	1.84
34382949--34382999	3	17.0	3	100	0	102	66	0	0	33	0.92
34400628--34400654	8	3.4	8	100	0	54	55	22	22	0	1.44
34402658--34403087	214	2.0	214	97	0	815	30	19	19	31	1.96
34405746--34405799	25	2.2	24	81	15	67	51	11	12	24	1.72
34413715--34413767	16	3.2	16	94	5	97	24	0	37	37	1.56
34413748--34413838	45	2.0	45	85	2	121	27	6	28	37	1.82
34416512--34417558	485	2.2	485	99	0	2062	31	16	16	34	1.92
34418087--34418121	18	1.9	18	100	0	70	60	0	28	11	1.32
34424278--34424314	19	1.9	19	89	10	58	2	8	18	70	1.25
34433011--34433048	1	38.0	1	100	0	76	0	0	0	100	0.00
34444939--34445037	51	1.9	51	83	4	128	42	6	15	36	1.71
34446260--34446400	61	2.3	60	80	3	158	28	9	15	46	1.78
34446725--34446749	10	2.5	10	100	0	50	64	8	0	28	1.22
34452083--34452118	10	3.7	10	85	7	56	80	0	0	19	0.71
34457924--34457962	21	1.9	20	89	5	60	41	2	2	53	1.28
34458951--34459016	31	2.1	31	88	0	96	28	10	18	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34459008--34459056	25	1.9	26	83	4	64	53	4	18	24	1.62
34462833--34463130	153	1.9	153	95	1	535	34	14	17	32	1.90
34465182--34465244	33	2.0	31	87	6	90	58	3	1	36	1.23
34465187--34465256	31	2.2	33	85	10	92	55	4	1	38	1.28
34467705--34467794	47	1.9	47	86	0	126	32	10	21	36	1.86
34468009--34468122	54	2.1	54	93	1	194	41	9	6	42	1.62
34476789--34476820	15	2.1	15	100	0	64	53	6	6	34	1.51
34477773--34477828	9	6.2	9	80	10	53	35	1	0	62	1.06
34477774--34477850	31	2.6	30	87	6	113	33	2	0	63	1.08
34477806--34477858	22	2.4	22	83	0	79	37	1	0	60	1.08

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   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109