genome.fa.s4.2.7.7.80.10.50.1000.21.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: NW_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  21  of  26  ( 3073 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)
8687297--8687345	25	2.0	25	87	0	71	46	14	14	24	1.81
8690527--8690571	21	2.1	22	84	8	58	33	0	2	64	1.06
8692876--8692939	33	2.1	31	85	11	87	42	12	7	37	1.72
8733918--8733952	5	6.8	5	87	6	52	0	17	0	82	0.66
8733915--8733955	11	3.9	10	87	6	55	0	17	0	82	0.66
8743665--8743694	2	15.0	2	92	0	51	50	3	46	0	1.18
8746638--8747112	259	1.8	260	83	3	634	32	15	16	35	1.91
8752170--8752205	12	3.1	12	92	4	56	83	0	2	13	0.76
8752183--8752216	18	1.9	18	88	5	52	82	2	2	11	0.89
8771038--8771076	21	1.9	21	94	5	71	33	10	25	30	1.89
8771413--8771467	26	2.2	25	96	3	101	10	20	25	43	1.84
8775401--8775476	30	2.5	30	75	12	73	53	10	11	23	1.68
8785745--8785797	27	1.9	28	92	3	90	47	15	0	37	1.45
8785746--8785807	27	2.3	27	83	5	72	48	12	1	37	1.51
8810093--8810117	6	4.2	6	100	0	50	0	32	52	16	1.44
8810263--8810331	27	2.6	27	88	0	102	11	44	17	26	1.82
8829217--8829255	20	2.0	20	89	0	60	46	2	2	48	1.29
8830542--8830592	24	2.1	24	100	0	102	35	15	11	37	1.84
8835530--8835561	2	16.0	2	100	0	64	50	0	50	0	1.00
8836008--8836115	53	2.0	53	89	0	162	30	16	10	42	1.81
8836180--8836206	14	1.9	14	100	0	54	29	14	14	40	1.86
8867583--8867657	3	25.0	3	88	0	105	2	36	1	60	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8868518--8868551	16	2.2	16	89	5	52	32	0	0	67	0.91
8872230--8872286	30	1.9	30	82	7	71	35	5	0	59	1.20
8872484--8872538	24	2.3	22	77	17	56	52	0	5	41	1.24
8889276--8889306	4	7.8	4	100	0	62	0	0	22	77	0.77
8896446--8896471	2	13.0	2	100	0	52	50	0	0	50	1.00
8909630--8909681	24	2.2	24	92	0	86	15	46	3	34	1.64
8910467--8910512	23	2.0	24	82	4	58	36	0	8	54	1.32
8910771--8910848	30	2.7	30	74	6	88	55	1	3	39	1.26
8911848--8911913	30	2.2	31	78	8	73	50	7	9	33	1.62
8915140--8915176	19	2.0	19	89	5	58	24	2	29	43	1.68
8916613--8916672	23	2.6	22	81	5	66	40	0	1	58	1.08
8918952--8918985	13	2.6	13	86	13	52	26	0	0	73	0.83
8927622--8927661	14	2.9	14	82	10	55	57	0	5	37	1.21
8931446--8931532	39	2.3	39	81	2	95	40	12	27	19	1.88
8940288--8940322	2	17.5	2	100	0	70	48	0	0	51	1.00
8941009--8941039	3	10.3	3	100	0	62	35	0	0	64	0.94
8941057--8941085	2	14.5	2	100	0	58	48	0	0	51	1.00
8952710--8952753	15	3.4	13	80	20	56	75	0	0	25	0.81
8952875--8952908	16	2.1	17	88	5	52	29	0	0	70	0.87
8955886--8955963	12	6.0	12	68	21	50	61	2	34	1	1.18
8962776--8962802	8	3.4	8	100	0	54	0	48	11	40	1.39
8965726--8965772	20	2.3	21	85	3	60	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)
8965710--8965820	31	3.7	30	84	3	134	42	0	0	55	1.12
8977299--8977472	90	1.9	90	91	2	287	40	12	27	20	1.88
8982009--8982050	19	2.2	19	100	0	84	4	9	14	71	1.28
8982025--8982067	16	2.6	16	81	3	50	6	6	16	69	1.32
8985870--8985918	25	2.0	25	87	0	71	42	34	2	20	1.64
8985880--8985931	25	2.1	25	82	3	61	50	30	3	15	1.62
8985979--8986017	21	1.9	20	85	15	53	43	35	5	15	1.69
9014170--9014236	29	2.2	31	92	5	111	13	7	7	71	1.29
9016582--9016612	16	1.9	16	100	0	62	12	29	25	32	1.93
9023150--9023227	33	2.4	30	76	15	75	47	0	1	51	1.09
9035755--9035787	3	11.3	3	87	6	50	30	0	3	66	1.06
9036134--9036176	23	1.9	23	85	4	61	32	2	0	65	1.06
9040303--9040327	2	12.5	2	100	0	50	52	0	0	48	1.00
9043205--9043238	18	1.9	17	88	5	50	38	0	0	61	0.96
9060930--9060958	1	29.0	1	100	0	58	0	100	0	0	0.00
9068133--9068157	2	12.5	2	100	0	50	48	0	0	52	1.00
9073514--9073595	30	2.8	29	90	5	128	59	2	0	37	1.11
9077820--9077846	2	13.5	2	100	0	54	51	0	0	48	1.00
9087958--9088011	15	3.6	15	92	0	81	33	7	25	33	1.84
9088169--9088616	15	30.5	15	68	22	88	33	1	0	64	1.08
9088169--9088359	26	6.9	28	67	23	88	35	1	0	62	1.05
9088307--9088622	59	5.5	59	67	20	170	32	1	0	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9088434--9088501	22	3.0	22	72	14	66	30	0	0	69	0.89
9088418--9088574	46	3.1	47	69	20	113	31	1	1	64	1.12
9088164--9088574	110	3.9	108	87	12	572	34	1	0	63	1.10
9088526--9088626	33	2.9	35	79	10	109	28	0	0	69	1.02
9088442--9088728	29	9.6	28	68	17	82	32	1	0	65	1.06
9092404--9092600	71	2.8	70	75	6	202	6	40	34	18	1.76
9099854--9099915	21	3.2	19	80	11	54	48	0	1	50	1.10
9099872--9099915	18	2.3	20	80	7	56	56	0	0	43	0.99
9100090--9100118	9	3.2	9	100	0	58	75	0	0	24	0.80
9106047--9106097	22	2.3	21	86	6	66	52	7	5	33	1.54
9106064--9106147	22	3.9	21	73	13	71	48	14	7	29	1.70
9106251--9106348	51	1.9	52	80	2	117	45	13	6	34	1.68
9106498--9106548	15	3.5	15	84	7	61	50	1	0	47	1.12
9107082--9107136	27	2.0	27	93	6	94	40	21	12	25	1.89
9110065--9110106	22	2.0	21	86	13	59	54	0	0	45	0.99
9111612--9111664	21	2.6	19	80	11	61	60	1	0	37	1.08
9120803--9120871	29	2.4	30	85	4	88	39	5	1	53	1.34
9131243--9131272	15	1.9	15	93	6	51	3	43	0	53	1.17
9132941--9132977	19	2.0	19	89	5	58	45	0	2	51	1.15
9133029--9133075	17	2.7	18	83	9	62	44	0	0	55	0.99
9133031--9133061	13	2.3	14	94	5	55	48	0	0	51	1.00
9135840--9135893	28	1.9	28	85	7	74	27	0	7	64	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9136154--9136226	31	2.4	29	78	12	85	57	1	2	38	1.22
9137198--9137225	3	9.3	3	100	0	56	67	0	0	32	0.91
9156340--9156404	2	33.5	2	90	6	107	47	0	52	0	1.00
9157752--9157835	28	3.0	28	77	10	91	41	1	10	46	1.46
9157781--9157823	21	2.0	21	90	0	68	44	2	9	44	1.49
9178813--9178874	30	2.1	30	85	11	83	53	1	6	38	1.37
9179177--9179202	10	2.6	10	100	0	52	65	0	11	23	1.25
9187780--9187809	14	2.1	15	93	6	53	46	0	0	53	1.00
9208048--9208090	19	2.3	19	84	8	52	39	2	4	53	1.34
9234813--9234847	15	2.3	15	95	0	61	62	2	5	28	1.32
9239338--9239369	15	2.1	15	100	0	64	43	12	0	43	1.42
9240883--9240925	3	14.3	3	100	0	86	0	34	0	65	0.93
9242897--9242934	18	2.2	18	86	13	53	68	5	5	21	1.29
9246971--9247015	18	2.5	18	86	10	65	37	0	2	60	1.09
9252970--9253031	22	2.8	22	87	4	81	35	9	17	37	1.83
9253278--9253353	31	2.5	31	80	0	80	40	15	14	28	1.87
9254155--9254286	69	1.9	69	83	6	169	25	37	12	25	1.90
9254141--9254275	23	5.9	23	78	3	137	24	35	13	26	1.92
9254416--9254460	23	2.0	23	90	0	72	26	37	6	28	1.82
9254418--9254492	23	3.3	23	77	3	62	26	26	12	34	1.91
9254634--9254701	23	3.0	23	89	6	102	26	36	11	25	1.90
9254636--9254711	23	3.3	23	83	7	91	27	35	10	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9266940--9266967	2	14.0	2	100	0	56	50	0	50	0	1.00
9275838--9276001	72	2.3	72	78	4	170	41	12	28	17	1.86
9283772--9283797	2	13.0	2	100	0	52	50	0	0	50	1.00
9296368--9296396	3	9.7	3	100	0	58	34	31	0	34	1.58
9297088--9297122	2	17.5	2	90	0	52	45	2	2	48	1.32
9297080--9297122	20	2.2	20	91	0	68	46	4	2	46	1.36
9305695--9305762	34	2.0	34	100	0	136	32	20	11	35	1.89
9309293--9309323	1	31.0	1	93	0	53	3	0	96	0	0.21
9310215--9310242	2	14.0	2	100	0	56	50	0	50	0	1.00
9313247--9313292	12	3.9	12	75	13	51	39	2	0	58	1.10

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