genome.fa.s11.2.7.7.80.10.50.1000.22.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: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

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   

This is table  22  of  75  ( 8944 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)
6359300--6359338	6	6.5	6	93	0	69	17	30	0	51	1.46
6369095--6369148	20	2.6	20	88	5	72	37	0	0	62	0.95
6372332--6372419	28	3.2	26	73	19	81	29	22	4	43	1.73
6373176--6373206	16	1.9	16	93	0	53	32	3	0	64	1.09
6374148--6374172	3	8.3	3	100	0	50	68	0	32	0	0.90
6394644--6394779	43	3.1	43	83	1	164	25	16	30	28	1.96
6394941--6395012	31	2.3	31	95	0	126	34	25	22	18	1.96
6394997--6395040	22	2.0	22	91	8	72	40	27	20	11	1.86
6398286--6398316	9	3.4	9	90	0	53	25	12	22	38	1.90
6398371--6398407	9	4.1	9	92	0	65	45	13	10	29	1.77
6402076--6402107	5	6.4	5	100	0	64	21	0	18	59	1.38
6404887--6405073	53	3.5	52	81	6	207	31	19	24	25	1.98
6408138--6408324	53	3.5	52	81	6	207	31	19	24	25	1.98
6411055--6411105	22	2.3	22	83	6	59	11	11	47	29	1.76
6411539--6411599	28	2.1	29	85	11	81	26	8	0	65	1.20
6411539--6411613	24	2.9	27	77	16	79	26	6	0	66	1.16
6411692--6412082	195	2.0	196	99	0	775	36	15	5	42	1.71
6414786--6414955	56	3.1	54	68	6	135	28	17	18	35	1.93
6416819--6416849	9	3.4	9	90	0	53	25	12	22	38	1.90
6421105--6421147	10	4.6	9	81	18	52	32	0	2	65	1.06
6421107--6421143	18	2.0	19	89	5	58	32	0	2	64	1.07
6424699--6424733	8	4.1	8	92	7	52	25	0	2	71	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6431271--6431305	2	17.5	2	93	0	61	48	2	0	48	1.16
6438188--6438221	2	17.0	2	87	0	50	2	52	0	44	1.16
6451507--6451550	20	2.2	20	88	4	63	4	22	6	65	1.35
6452045--6452105	25	2.4	25	91	0	95	14	6	22	55	1.62
6452046--6452087	13	3.3	13	75	18	52	11	9	21	57	1.63
6453670--6453729	29	2.0	32	81	15	74	20	23	5	51	1.66
6463912--6463988	35	2.2	37	79	11	90	45	1	2	50	1.23
6464075--6464171	45	2.2	44	83	9	117	35	27	4	32	1.76
6464149--6464187	16	2.4	16	80	16	53	20	28	5	46	1.72
6465299--6465341	19	2.3	18	76	7	50	20	2	6	69	1.23
6473519--6473551	15	2.2	15	89	10	50	27	3	0	69	1.03
6482484--6482553	16	4.4	16	92	0	95	34	34	0	31	1.58
6483258--6483387	60	2.1	61	97	1	244	43	16	21	19	1.88
6484952--6485144	95	2.0	96	92	3	327	29	25	15	30	1.96
6487037--6487072	18	2.0	18	88	0	54	25	8	11	55	1.62
6488626--6488667	14	2.9	15	82	3	50	50	2	0	47	1.14
6489208--6489294	43	2.0	44	95	2	158	35	21	6	35	1.81
6502602--6502637	17	2.3	15	90	9	54	69	8	0	22	1.15
6502602--6502638	16	2.2	17	90	4	58	70	8	0	21	1.13
6508995--6509040	10	4.5	10	86	2	56	47	2	4	45	1.34
6509527--6509570	20	2.2	19	84	8	52	27	2	2	68	1.14
6520962--6520986	13	1.9	13	100	0	50	20	0	16	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6529400--6529450	18	2.9	17	77	11	50	62	1	0	35	1.06
6529753--6529782	4	7.5	4	100	0	60	76	0	0	23	0.78
6531577--6531927	125	2.8	123	89	1	540	29	15	21	33	1.94
6535478--6536424	23	42.1	23	73	15	639	26	0	25	48	1.52
6535508--6535638	38	3.2	38	74	17	129	22	0	29	47	1.52
6535531--6535562	15	2.2	15	94	5	57	21	0	21	56	1.43
6535477--6535977	91	5.7	85	74	13	302	26	0	26	47	1.53
6535544--6535968	45	9.4	45	81	10	435	26	0	25	47	1.52
6535590--6536423	68	12.3	68	76	14	617	26	0	25	48	1.51
6535682--6536423	45	16.4	44	80	13	616	26	0	25	48	1.51
6536947--6536982	18	2.0	18	94	0	63	38	8	27	25	1.84
6537821--6537858	20	1.9	20	89	10	60	55	5	2	36	1.37
6538611--6538652	11	3.8	11	93	0	66	50	7	23	19	1.72
6543651--6543713	20	3.3	19	86	4	83	58	3	0	38	1.14
6543651--6543735	39	2.1	42	83	14	108	56	4	0	38	1.20
6559014--6559062	24	2.0	23	81	14	55	67	4	6	22	1.30
6564040--6564089	20	2.5	20	90	0	82	28	4	22	46	1.70
6565549--6565604	29	1.9	29	85	7	78	53	8	0	37	1.32
6567327--6567365	18	2.1	19	86	13	55	28	17	12	41	1.87
6574890--6574916	2	13.5	2	100	0	54	0	48	0	51	1.00
6576744--6576772	12	2.5	12	94	5	51	65	0	13	20	1.26
6578739--6578785	18	2.8	18	84	9	64	31	4	4	59	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6578746--6578805	18	3.2	18	85	4	75	21	6	8	63	1.45
6582896--6583021	66	1.9	66	83	6	166	14	25	16	43	1.86
6588263--6588917	44	14.7	44	69	15	307	29	21	19	30	1.97
6588383--6588553	87	2.0	87	97	2	326	27	19	22	30	1.98
6588570--6588738	45	3.9	42	73	13	128	29	21	18	30	1.97
6590201--6591650	45	31.6	45	69	15	484	29	20	17	32	1.96
6590393--6590684	137	2.1	138	80	5	315	29	19	18	32	1.96
6590481--6591652	228	5.1	225	73	14	840	29	20	17	32	1.96
6591360--6591476	44	2.6	45	80	6	123	28	21	19	30	1.98
6591313--6591652	181	1.9	180	85	1	475	29	20	17	32	1.96
6592488--6592555	20	3.2	21	83	12	86	4	14	0	80	0.85
6592488--6592545	25	2.2	26	87	6	82	3	15	0	81	0.83
6592488--6592544	5	10.8	5	88	3	69	3	15	0	80	0.84
6592488--6592553	25	2.7	23	80	11	71	4	15	0	80	0.87
6603104--6603281	80	2.2	80	100	0	356	29	5	10	54	1.57
6611827--6611910	21	3.9	23	80	12	106	38	23	20	17	1.93
6611827--6611910	44	2.0	41	86	6	114	38	23	20	17	1.93
6612831--6612866	17	2.1	18	89	5	56	5	13	5	75	1.17
6612892--6612934	22	2.0	22	86	9	61	55	2	0	41	1.12
6613065--6613096	5	6.6	5	92	7	57	59	0	0	40	0.97
6617349--6617409	22	2.8	22	75	7	54	55	11	16	16	1.68
6630027--6630073	25	2.0	23	87	8	67	40	0	2	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6641259--6641298	16	2.5	17	84	11	50	55	35	5	5	1.44
6642577--6642623	3	16.0	3	95	4	87	34	0	0	65	0.93
6642718--6642754	17	2.1	18	90	5	58	43	5	5	45	1.49
6643201--6643237	17	2.1	18	90	5	58	43	5	5	45	1.49
6642378--6643303	483	1.9	478	86	6	1336	33	11	5	49	1.62
6650867--6650901	16	2.1	17	89	5	54	42	11	0	45	1.40
6654325--6654398	31	2.4	31	81	4	78	32	31	16	20	1.94
6655813--6655877	23	2.8	23	72	9	60	43	23	16	16	1.88
6672005--6672038	2	18.0	2	88	11	54	50	0	0	50	1.00
6680209--6680256	22	2.3	22	85	7	64	43	0	6	50	1.27
6681803--6681833	16	1.9	16	93	0	53	32	22	6	38	1.80
6682509--6682548	11	3.6	11	93	0	62	22	22	7	47	1.76
6682555--6682596	12	3.7	12	84	6	52	45	0	0	54	0.99
6683525--6683549	7	3.6	7	100	0	50	28	0	12	60	1.32
6684668--6684719	25	2.1	25	100	0	104	46	0	11	42	1.40
6684754--6685242	45	11.0	45	77	14	473	48	24	0	25	1.55
6684754--6685264	135	3.8	136	82	9	585	48	24	0	25	1.55
6685001--6685319	23	14.1	23	77	14	290	48	24	0	26	1.57
6684761--6685320	23	25.1	23	71	17	273	49	24	0	25	1.55
6685383--6685444	27	2.3	25	74	15	61	38	8	1	51	1.41
6685485--6685777	38	7.6	39	63	14	106	40	9	6	43	1.62
6685314--6685790	116	4.1	116	96	0	857	39	9	6	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6688797--6689171	123	3.0	123	91	1	590	33	22	15	28	1.95
6690117--6690208	37	2.5	37	87	7	116	33	5	13	47	1.65
6690202--6690237	18	1.9	19	88	5	56	27	11	19	41	1.85
6705818--6705876	27	2.2	27	100	0	118	45	6	22	25	1.76
6709646--6709688	23	1.9	22	86	13	61	72	2	6	18	1.19
6710091--6710151	22	2.7	23	73	12	56	62	6	9	21	1.49
6710802--6710886	38	2.3	36	77	18	86	57	1	3	37	1.23
6717742--6717776	17	2.2	15	90	10	52	88	2	8	0	0.61
6717742--6717775	11	2.9	11	91	8	50	88	2	8	0	0.62
6722828--6722852	6	4.2	6	100	0	50	16	0	0	84	0.63

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