genome.fa.s6.2.7.7.80.10.50.1000.73.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  73  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)
23595598--23595644	10	4.7	10	76	7	51	70	6	0	23	1.10
23596927--23596960	18	1.9	17	94	5	59	61	5	0	32	1.20
23597747--23597780	13	2.5	13	85	4	50	5	2	11	79	1.02
23600968--23601080	58	1.9	58	98	0	217	36	23	8	30	1.86
23610235--23610285	22	2.3	21	80	6	57	23	0	49	27	1.51
23611191--23611240	15	3.0	17	77	14	59	46	6	0	48	1.27
23612838--23612899	30	2.1	29	85	8	81	48	1	8	41	1.42
23617506--23617539	14	2.5	14	95	4	61	44	5	0	50	1.26
23619690--23619730	1	41.0	1	100	0	82	100	0	0	0	0.00
23620134--23620602	128	3.6	129	86	7	635	20	8	19	51	1.71
23626141--23626225	40	2.2	40	91	2	145	34	14	10	41	1.80
23626155--23626218	20	3.2	20	64	24	53	37	10	10	40	1.76
23628658--23628692	12	2.9	12	95	0	61	37	20	8	34	1.83
23636249--23636346	28	3.5	28	82	0	124	30	13	25	30	1.93
23638614--23638644	7	4.6	7	96	4	55	77	9	0	12	0.99
23638769--23638806	20	2.0	20	84	5	51	13	42	2	42	1.57
23644419--23644491	20	3.5	20	73	16	67	68	4	2	24	1.20
23652196--23652257	31	2.0	31	87	0	88	41	6	12	38	1.69
23657031--23657057	2	13.5	2	100	0	54	48	0	0	51	1.00
23657553--23657595	8	5.0	8	81	13	50	27	2	2	67	1.15
23659407--23659466	31	2.0	31	86	3	86	45	1	0	53	1.10
23663487--23663551	26	2.6	25	76	11	69	69	3	0	27	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23663497--23663548	17	3.2	16	81	13	61	71	3	0	25	1.03
23664016--23664055	1	40.0	1	89	0	62	2	0	95	0	0.20
23667054--23667078	10	2.5	10	100	0	50	72	8	20	0	1.10
23670146--23670186	16	2.6	16	96	0	73	14	26	0	58	1.37
23670742--23670799	30	1.9	30	89	0	89	31	12	10	46	1.74
23672599--23672672	31	2.4	31	73	13	80	44	6	10	37	1.66
23672966--23673026	31	2.0	31	87	6	88	42	13	3	40	1.60
23692198--23692254	30	1.9	30	88	0	87	35	10	5	49	1.60
23692238--23692294	29	2.0	28	80	12	64	24	7	17	50	1.70
23693532--23693574	17	2.5	17	88	0	59	32	2	6	58	1.38
23694025--23694082	23	2.5	24	77	11	57	44	1	0	53	1.10
23694031--23694083	23	2.2	24	80	12	65	43	1	0	54	1.11
23694111--23694137	4	6.8	4	100	0	54	74	0	0	25	0.83
23703124--23703184	20	3.0	20	72	13	61	62	0	0	37	0.96
23710494--23710532	20	1.9	21	94	5	71	25	5	0	69	1.09
23710493--23710538	20	2.4	18	83	16	65	23	4	0	71	1.03
23711283--23711376	44	2.1	44	92	2	152	39	15	11	32	1.84
23718515--23718601	31	2.8	31	75	6	95	44	8	11	35	1.70
23718515--23718630	62	1.9	61	83	5	153	43	8	12	35	1.72
23727194--23727269	9	8.4	9	79	5	91	40	21	11	26	1.87
23727195--23727263	36	1.9	36	90	0	111	40	21	11	26	1.87
23727376--23727415	18	2.2	18	86	0	53	12	2	45	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23728452--23728478	11	2.5	11	100	0	54	59	14	0	25	1.36
23728526--23728551	7	3.7	7	100	0	52	23	0	0	76	0.78
23730084--23730135	16	3.3	16	81	7	54	61	0	0	38	0.96
23730092--23730128	12	2.7	14	80	20	51	62	0	0	37	0.96
23732554--23732695	29	4.8	29	80	1	113	26	23	23	27	2.00
23732553--23732749	15	13.3	15	69	2	119	26	21	24	27	1.99
23732671--23732758	30	2.9	29	73	6	77	26	17	27	29	1.97
23732742--23732784	22	2.0	22	85	0	59	39	6	20	32	1.80
23734295--23734371	14	5.0	15	70	20	52	33	6	15	44	1.72
23743782--23743816	16	2.2	16	90	10	54	22	11	22	42	1.85
23748630--23748659	3	10.0	3	92	0	51	30	0	36	33	1.58
23749001--23749476	216	2.2	216	89	1	713	34	15	16	33	1.90
23749662--23749708	21	2.3	20	89	7	76	42	4	4	48	1.42
23749669--23749715	21	2.2	21	100	0	94	40	4	4	51	1.41
23758490--23759075	187	3.1	188	83	5	702	37	25	13	23	1.91
23759254--23759282	2	14.5	2	100	0	58	51	0	48	0	1.00
23763020--23763046	2	13.5	2	100	0	54	48	51	0	0	1.00
23764839--23764903	31	2.1	31	88	0	94	21	12	21	44	1.85
23765023--23765121	31	3.3	29	74	18	87	45	20	15	19	1.85
23768848--23768906	29	2.0	30	86	3	84	32	3	10	54	1.51
23771857--23772785	388	2.4	385	81	7	1038	34	15	19	30	1.92
23775238--23775268	15	2.0	16	93	6	55	35	6	0	58	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23777022--23777913	222	4.0	222	99	0	1752	27	18	18	35	1.94
23777022--23777913	443	2.0	444	99	0	1768	27	18	18	35	1.94
23779095--23779129	18	1.9	18	88	0	52	68	5	11	14	1.37
23779959--23779990	15	2.1	15	100	0	64	62	0	12	25	1.30
23780189--23780248	27	2.2	28	90	3	95	38	5	6	50	1.51
23781405--23781445	2	20.5	2	100	0	82	0	51	0	48	1.00
23783105--23783155	9	5.4	9	81	9	66	47	15	0	37	1.46
23783106--23783155	19	2.6	19	100	0	100	48	16	0	36	1.46
23788518--23788553	4	9.0	4	100	0	72	50	25	0	25	1.50
23790941--23790982	8	4.9	9	88	5	52	0	16	0	83	0.65
23790953--23790988	10	3.7	10	85	7	56	0	11	0	88	0.50
23790959--23790986	11	2.5	11	100	0	56	0	7	0	92	0.37
23790947--23790985	9	4.2	9	83	6	51	0	12	0	87	0.55
23793583--23793621	14	2.8	14	84	7	53	38	5	35	20	1.75
23802927--23802960	3	11.3	3	100	0	68	67	0	0	32	0.91
23807750--23807775	2	13.0	2	100	0	52	50	0	0	50	1.00
23811550--23811594	16	2.8	16	79	0	54	40	6	17	35	1.76
23812472--23812546	37	2.0	37	100	0	150	28	16	16	40	1.89
23827199--23827415	107	2.0	107	100	0	434	50	18	10	21	1.76
23829195--23829333	51	2.7	52	87	2	190	38	15	6	39	1.73
23836037--23836090	21	2.6	21	93	0	90	35	16	18	29	1.93
23837548--23837590	20	2.2	20	100	0	86	13	0	30	55	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23841493--23841944	232	2.0	224	81	7	534	32	11	12	44	1.77
23856391--23856422	2	16.0	2	100	0	64	50	0	0	50	1.00
23866462--23866505	20	2.1	22	84	16	58	18	52	27	2	1.57
23872570--23872869	151	2.0	153	87	2	435	22	7	18	52	1.69
23876561--23876632	29	2.4	30	80	15	69	30	12	5	51	1.62
23876848--23876910	31	2.1	30	85	8	83	55	7	9	26	1.59
23877633--23877658	1	26.0	1	100	0	52	100	0	0	0	0.00
23878510--23878534	13	1.9	13	100	0	50	32	16	20	32	1.94
23887145--23887197	26	2.0	26	92	0	88	39	7	11	41	1.69
23896431--23896486	26	2.2	25	81	12	62	32	12	17	37	1.88
23900634--23900715	41	2.0	41	100	0	164	24	9	36	29	1.87
23901345--23901454	54	2.0	54	85	0	148	37	18	19	25	1.94
23903265--23903332	35	1.9	35	100	0	136	41	0	16	42	1.48
23903716--23903825	54	2.0	54	83	0	139	25	18	19	37	1.94
23903769--23904236	156	3.0	156	95	0	848	29	22	16	31	1.96
23905277--23905314	18	2.1	18	85	9	51	31	2	10	55	1.48
23906487--23906532	22	2.1	22	84	4	58	32	13	6	47	1.68
23906496--23906544	22	2.2	22	85	7	64	40	14	4	40	1.64
23908566--23908591	11	2.4	11	100	0	52	92	0	7	0	0.39
23909607--23909646	21	1.9	21	85	10	55	25	2	5	67	1.23
23909882--23909924	21	2.1	20	82	4	50	41	6	9	41	1.64
23920337--23920376	21	1.9	21	85	10	55	42	2	0	55	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23924447--23924472	7	3.7	7	100	0	52	57	15	0	26	1.38
23925618--23925717	51	2.0	51	90	4	157	44	2	28	26	1.65
23925907--23925940	11	2.9	12	86	8	52	50	0	29	20	1.49
23927036--23927081	19	2.5	19	86	13	62	6	26	0	67	1.15
23946975--23947009	18	2.0	17	88	5	52	45	0	0	54	0.99
23946864--23948214	156	8.7	156	99	0	2684	46	6	3	43	1.45
23947131--23947165	18	2.0	17	88	5	52	45	0	0	54	0.99
23947287--23947321	18	2.0	17	88	5	52	45	0	0	54	0.99
23947443--23947477	18	2.0	17	88	5	52	45	0	0	54	0.99
23947599--23947633	18	2.0	17	88	5	52	45	0	0	54	0.99

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