genome.fa.s1.2.7.7.80.10.50.1000.11.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:  37323695

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   

This is table  11  of  93  ( 11113 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)
5546070--5546119	9	5.4	9	78	21	59	16	0	0	84	0.63
5546071--5546118	16	2.9	16	87	3	69	16	0	0	83	0.65
5546076--5546109	7	4.6	7	86	13	50	17	0	0	82	0.67
5547027--5547074	8	5.9	8	90	4	78	14	0	0	85	0.60
5547027--5547076	17	3.0	17	88	2	75	16	0	0	84	0.63
5547025--5547074	25	2.0	25	92	0	82	16	0	0	84	0.63
5547031--5547082	4	13.2	4	80	8	54	19	0	0	80	0.71
5548751--5548793	2	23.0	2	86	13	65	48	0	0	51	1.00
5548751--5548793	9	4.9	9	91	2	70	48	0	0	51	1.00
5548751--5548795	18	2.6	18	96	3	83	48	0	0	51	1.00
5568519--5568552	2	17.0	2	93	0	59	52	0	47	0	1.00
5581086--5581119	16	2.1	16	88	0	50	26	26	17	29	1.98
5595351--5595385	3	11.3	3	93	6	61	31	2	0	65	1.07
5601056--5601090	2	17.5	2	100	0	70	48	0	0	51	1.00
5604898--5604935	9	4.3	9	83	3	51	21	26	13	39	1.89
5612913--5612997	32	2.7	32	90	0	134	28	18	28	24	1.98
5612913--5613011	32	3.1	32	85	0	81	30	17	26	26	1.97
5613864--5613985	59	2.0	60	93	4	212	30	4	14	49	1.65
5617726--5617843	2	60.0	2	90	6	125	44	0	6	47	1.35
5617729--5617852	32	3.9	32	80	4	160	42	1	8	46	1.43
5617722--5617843	64	1.9	63	100	0	235	45	1	6	45	1.39
5625330--5625371	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5641605--5641643	18	2.1	19	85	4	53	56	0	0	43	0.99
5641607--5641855	131	1.9	130	79	9	283	51	6	4	37	1.46
5659655--5659708	2	27.0	2	88	0	81	44	0	5	50	1.25
5662825--5662851	6	4.5	6	100	0	54	14	0	18	66	1.25
5663141--5663203	31	2.0	31	87	6	92	39	25	14	20	1.90
5663258--5663295	15	2.7	14	88	8	51	68	0	0	31	0.90
5663465--5663510	18	2.6	18	75	0	56	45	19	10	23	1.82
5674675--5674711	19	1.9	19	88	0	56	37	0	8	54	1.30
5675029--5675072	2	22.0	2	90	9	72	47	2	0	50	1.13
5708527--5708623	27	3.6	27	71	0	77	60	4	8	26	1.43
5709253--5709285	15	2.1	16	88	5	50	51	0	0	48	1.00
5719283--5719365	41	2.0	41	92	0	139	39	19	12	28	1.87
5721721--5721771	24	2.2	24	82	3	59	49	0	0	50	1.00
5722774--5722829	20	2.8	20	77	17	64	46	0	0	53	1.00
5726073--5726109	19	1.9	19	94	0	65	43	27	0	29	1.55
5735934--5735976	17	2.6	16	78	10	50	25	0	11	62	1.29
5743525--5743804	54	5.2	54	81	0	281	30	18	32	18	1.95
5743602--5743809	27	7.7	27	70	6	125	28	19	32	19	1.96
5743539--5743804	108	2.5	107	83	1	316	30	19	31	18	1.96
5750451--5754688	226	19.0	225	83	6	4981	34	12	20	32	1.90
5750454--5755522	846	5.7	883	81	7	5066	34	12	20	33	1.90
5754525--5755096	190	2.9	197	82	6	662	33	11	19	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5754727--5755358	204	3.0	205	80	9	665	33	11	19	35	1.88
5754932--5755522	226	2.6	224	85	2	790	34	12	18	34	1.88
5755373--5755694	175	1.8	175	86	0	464	35	11	18	34	1.87
5755544--5756366	226	3.6	227	81	3	879	34	11	19	35	1.87
5756367--5756863	227	2.2	226	84	3	624	36	10	17	35	1.84
5774239--5774292	24	2.3	23	83	3	72	22	14	9	53	1.69
5778107--5778257	76	2.0	76	92	0	248	37	18	17	26	1.93
5783702--5783743	15	2.7	16	88	3	59	47	0	2	50	1.14
5783724--5783793	26	2.5	27	81	11	79	40	0	2	57	1.14
5786075--5786120	21	2.3	18	82	17	56	58	0	0	41	0.98
5796482--5796573	30	3.3	27	77	14	82	39	13	11	35	1.81
5796483--5796527	24	1.9	23	90	4	72	42	15	11	31	1.82
5796296--5796534	80	2.9	81	80	11	231	44	12	10	33	1.76
5796483--5796534	24	2.2	24	86	6	70	42	13	11	32	1.80
5796507--5796590	30	2.8	30	82	7	100	42	10	10	35	1.74
5803286--5803314	2	15.0	2	92	7	51	51	0	0	48	1.00
5803185--5803411	120	1.9	120	98	0	436	40	11	11	36	1.77
5805757--5805796	20	2.0	20	85	0	53	25	27	5	42	1.75
5811572--5812027	214	2.1	217	82	5	559	46	5	6	41	1.53
5812373--5812416	12	3.5	12	93	6	70	43	0	0	56	0.99
5812374--5812417	2	24.0	2	82	17	60	45	0	0	54	0.99
5812374--5812416	19	2.3	19	92	8	70	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5822007--5822072	29	2.5	26	77	15	80	33	7	1	57	1.36
5822010--5822082	29	2.5	29	78	14	78	35	6	1	56	1.35
5823890--5824023	67	2.0	67	95	2	243	47	11	19	22	1.81
5826652--5826699	2	24.0	2	100	0	96	50	0	0	50	1.00
5827105--5827147	21	2.2	19	83	8	50	23	0	6	69	1.12
5828153--5828186	10	3.3	10	84	8	50	52	0	0	47	1.00
5828195--5828231	2	18.5	2	94	0	65	51	2	0	45	1.15
5841474--5841616	15	9.0	15	67	17	58	32	2	1	62	1.18
5841538--5841621	32	2.6	32	86	3	107	30	0	1	67	0.98
5841691--5841737	22	2.1	22	84	7	60	36	0	2	61	1.08
5845443--5845486	23	1.9	23	81	9	54	6	22	2	68	1.25
5846120--5846193	38	2.0	37	94	2	130	16	0	18	64	1.29
5847800--5847851	27	1.9	27	84	0	68	9	50	5	34	1.59
5847833--5847893	6	10.2	6	87	0	68	18	44	1	36	1.59
5847844--5847890	15	3.1	15	87	0	67	21	40	2	36	1.65
5856501--5856600	2	52.5	2	83	9	129	50	1	1	47	1.14
5872797--5872827	16	1.9	16	93	0	53	58	3	0	38	1.15
5873474--5875267	251	7.2	250	80	7	1838	51	5	8	34	1.56
5873474--5875260	501	3.6	491	83	7	1902	51	5	8	34	1.56
5873471--5875255	749	2.4	747	83	8	2184	51	5	8	34	1.56
5875348--5875391	17	2.6	16	86	10	61	65	4	2	27	1.23
5898848--5898941	29	3.1	29	78	14	116	64	6	9	19	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5898848--5898943	34	3.0	32	85	10	135	65	6	9	18	1.42
5900074--5900113	15	2.7	15	92	0	62	40	0	12	47	1.41
5901713--5901743	3	10.3	3	92	0	53	67	0	29	3	1.06
5902356--5902385	14	2.1	14	93	0	51	23	0	6	70	1.11
5902951--5902984	16	2.1	16	88	0	50	17	41	0	41	1.50
5931286--5931327	21	2.0	21	86	9	59	35	9	11	42	1.74
5931324--5931402	33	2.4	32	81	6	86	36	12	8	41	1.74
5931450--5931508	30	2.0	30	93	0	100	54	5	3	37	1.39
5951732--5951820	42	2.1	42	97	0	169	22	21	19	37	1.95
5960542--5960599	27	2.1	28	83	6	73	43	5	0	51	1.24
5963467--5963523	15	3.8	15	85	0	69	42	1	17	38	1.60
5963739--5963825	33	2.6	32	83	7	111	28	3	0	67	1.06
5963757--5963841	20	4.2	20	71	5	64	29	3	0	67	1.08
5963791--5963843	15	3.5	15	82	10	63	32	0	0	67	0.91
5964879--5964933	23	2.3	24	81	9	69	10	12	9	67	1.43
5966069--5966139	31	2.3	31	95	0	124	35	15	11	38	1.83
5979379--5979455	30	2.6	29	87	2	100	27	2	5	64	1.27
5979379--5979465	30	3.0	28	80	6	93	32	2	4	60	1.29
5979372--5979472	29	3.5	28	78	6	103	32	2	3	60	1.30
5980952--5981001	2	25.0	2	100	0	100	50	0	0	50	1.00
5984402--5984432	15	2.1	15	93	0	53	29	6	32	32	1.83
5984649--5984731	33	2.5	31	86	9	103	26	3	0	69	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5984635--5984700	33	2.1	29	75	17	69	22	6	1	69	1.19
5984677--5984803	55	2.3	53	76	7	123	26	3	0	70	1.03
5984673--5984912	88	2.8	88	90	3	310	27	3	0	67	1.13
5984758--5984808	25	2.1	24	88	3	75	25	1	0	72	0.95
5984705--5984912	55	3.6	57	72	14	145	27	3	0	67	1.14
5984770--5984844	33	2.3	33	84	8	93	28	4	0	68	1.08
5998316--5998392	29	2.7	29	93	2	129	59	0	6	33	1.23
5999165--5999215	27	1.9	27	92	4	86	54	0	0	45	0.99
5999369--5999471	51	2.0	51	81	10	122	49	4	1	43	1.35
5999406--5999439	17	2.0	17	88	0	50	50	2	0	47	1.16

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